Pseudogenes for contig
| Features | Start | End | Frame Joins | Pseudo Tag | Seq | GenePRIMP Notes |
|---|---|---|---|---|---|---|
| or0 - or2695, or2695 | 345 | 458 | pseudogene |
A
T
G
T
T
T
A
T
T
G
T
G
A
T
G
A
A
A
A
A
T A C A A A A G T C A T T A T T T T A A A G A A T A A A A T A T T T G T T T T T G A A A A A A G T A T T A A A A A A C A T A A C G A A A T G A T G T A T A T T G A A C T A T G T G A T T G A
M
F
I
V
M
K
N
T
K
V
I
I
L
K
N
K
I
F
V
F
E K S I K K H N E M M Y I E L C D * |
Maingene=or2695; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or2764, or2764 - or2765 | 83246 | 84154 | putative pseudogene |
A
T
G
G
C
T
G
T
G
A
T
T
G
T
C
A
T
C
A
T
T G G T G T T A T T G T C A G T G T G T T T A C C A T T C T G T A T T T T T C A C C G C T T G A T G C G G C T T A T A G C A T A C T G G G A C A A A G T G C A A C A A A G G C A C A G A T A C A T C A A T T C A A T G T A T T A C A T C A T C T T A A C G A A C C T T A T T T T A T T C A A T T G T G G G A T A C C A T C A A G G G T G T T T T T A C T T T T G A C T T A G G T A C G A C T T A C A A A G G G A A T G A G G T T G T G A C T A A A G C A G T T G G C G A A A G A A T T C C A A T T A C A A T A A T T G T C G C A G T A T T A G C G C T A A T T G T G G C A T T A A T T A T T G C A A T A C C A A T T G G A A T T A T C A G T G C G A T G A A G C G A A A T A G T T G G C T T G A T A T C A C G T T A A T G A T A A T T G C A T T A A T T G G T T T A T C T A T T C C A A G T T T C T G G C A A G G G T T A T T A T T C A T T T T A G C G T T C T C A T T G A A A T T G G A T A T T T T G C C A C C A T C T T A T A T G C C A G A A C A T C C A A T A T C G T T G A T T T T A C C T G T A C T T G T C A T T G G A A C A A G T A T T G C T G C T T C T A T C A C G C G T A T G A C A A G G T C T T C T G T A C T T G A A G T A A T G C G C A G C G A T T A T G T T T T A A C T G C T T A T G C A A A A G G A T T A T C G A C G A C A C A A G T A G T T A T T A A A C A T A T T T T G A A A A A T G C C A T T A T T C C A A T T G T A A C G C T A G T T G G T C T T C T A G T G G C A G A G T T A C T A G G C G G T T C A G C A G T G A C G G A A C A A G T A T T T A A C A T T A A T G G T A T A G G T C G T T A T A T C G T C C A A A A A C A A C T A A T A C C T G A T A T T C C A G C A G T C A T G G G T G G G G T C G T A T A T A T A T C A A T T G T A A T A T C C T T A G C A A A C T T A A T T A T T G A T A T A T T T T A T G C T T T A A T C G A T C C A A A A T T A C G T A G T G A A A T T A A C G A A A G G A A G T G A
M
A
V
I
V
I
I
G
V
I
V
S
V
F
T
I
L
Y
F
S
P L D A A Y S I L G Q S A T K A Q I H Q F N V L H H L N E P Y F I Q L W D T I K G V F T F D L G T T Y K G N E V V T K A V G E R I P I T I I V A V L A L I V A L I I A I P I G I I S A M K R N S W L D I T L M I I A L I G L S I P S F W Q G L L F I L A F S L K L D I L P P S Y M P E H P I S L I L P V L V I G T S I A A S I T R M T R S S V L E V M R S D Y V L T A Y A K G L S T T Q V V I K H I L K N A I I P I V T L V G L L V A E L L G G S A V T E Q V F N I N G I G R Y I V Q K Q L I P D I P A V M G G V V Y I S I V I S L A N L I I D I F Y A L I D P K L R S E I N E R K * |
Maingene=or2764; Extension FAILED; Comments=For manual analysis, pseudo, failed extension, extended gene >100aa and >50% and <70% median/second shortest homolog, Blast redone with 250 hits and e-05, extended gene <70% median/second shortest homolog | |
| or2766, or2767 | 86537 | 87650 | complement (join (86537..87430, 87432..87650)) | putative pseudogene |
A
T
G
A
A
A
A
T
A
T
G
T
G
A
A
A
A
A
T
G
T T T T A A T A A T A C T G A A A T C G T A G A A A T C A T T G T A A A T G A T A A T A G C A A A T T T G A C A A T T G T G A T A T T G A T A A C G A T C A T C T T G G T G T T A A A A T A T T T G A T A C G A C T C G A C A C A T A G A T A A A T T A G A G C A G A T T A G A G A T T A T T T A A G A C C A G C G T T A G A A T T A T A T G A T A T T A G T A T A A A T T T A C C A G A T A C T T T T A G C A A A A A G A A G G T A A A A A A T A T T G A A A C A G C A T T A A A A G A T G A T T G G A G T A T A T T T A A T G T T G A A G A A G A T A A A A T A A G T T G T A T T T T A A A T G A G C T T T T T A A A G A T G A T G A A A A T A T A G A T A G A C G G G T G T T G G A A G G T T T A G T A G G C G C T A A A A T C A T T A A A G A T A A A A A A T A T A C A A A T G A A A A T C T A A T T G T A G C A A A T A A T G A C T G G G A T G G A T T T T G T G A G A G C T T G A A G T A T A A A A A T A G A T T T C A T A A T A A T A T G A T C A A T T T A G A G A A T T T A G C A T T C T T T C T C G A T A T C A C T A C T A A T T A C T A T A G T A T T G A G G A A T T T A G A G A A A G A T T T G A A C C A T T A T A T A G A T C T A G A A T A G T T A A T T T C A T T A C A G A G A A A A G T G A A C T A A T G T C C C C A C C A A A G G G A T T T G C A A C G G C A G G A A G A T T G A A T T C T A A A T G G A T A A G C G T A T T A T A C C T T A G T A C A A A A G A A C A G G T C A G T A T A G A A G A A G T T A G A C C T A A G C A T A A T G A C A T T A T T T A T A T A G G T A A G G T T A A G T T A C A A A A A A A C A T T A C A A A A G A G A A A T T G A A A A T T G C G A A T T T A A C T A A T T T A A C T A G T A A T G C A A T C A A A G C T G G C G A T G A T G G A T T T A G A A A G T A T T T T G T A A A T T A C C A A A C A T T A A A A A A G A T T C A T A A A G G A A T A A C A A A T C C A A G C G A T G A A C A A G G A A T A G A T T A T T T G C C A T T T C A A T A T T T A G C T G A T T A T A T T C G A A G C C T T A A A T A T G A C G G G A T A A T G T A T G A G A G C A T A T T G C A A G A T G G T A C T T T T A A C T T T G T G T T T T T T G A T C A A A A T T T A T T T G A A T G T G T T A A T T A T G A A A G A A A A A G A G T A A G T G A C G T T A A A T A T A C A T T G A C T A A G C T A A G T T G A
M
K
I
C
E
K
C
F
N
N
T
E
I
V
E
I
I
V
N
D
N S K F D N C D I D N D H L G V K I F D T T R H I D K L E Q I R D Y L R P A L E L Y D I S I N L P D T F S K K K V K N I E T A L K D D W S I F N V E E D K I S C I L N E L F K D D E N I D R R V L E G L V G A K I I K D K K Y T N E N L I V A N N D W D G F C E S L K Y K N R F H N N M I N L E N L A F F L D I T T N Y Y S I E E F R E R F E P L Y R S R I V N F I T E K S E L M S P P K G F A T A G R L N S K W I S V L Y L S T K E Q V S I E E V R P K H N D I I Y I G K V K L Q K N I T K E K L K I A N L T N L T S N A I K A G D D G F R K Y F V N Y Q T L K K I H K G I T N P S D E Q G I D Y L P F Q Y L A D Y I R S L K Y D G I M Y E S I L Q D G T F N F V F F D Q N L F E C V N Y E R K R V S D V K Y T L T K L S * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or2780, or2781 | 103387 | 104743 | join (103387..103740, 103742..104743) | pseudogene |
a
t
g
a
a
g
a
a
g
a
a
a
c
t
a
a
c
a
t
t
t a a a g a a a a c a t g t t t a t a g g t t c t a t g t t a t t t g g a t t a t t c t t t g g t g c c g g c a a t c t t a t c t t c c c a a t a c a c t t g g g t c a a g c t g c t g g t t c t a a c g t t t t t a t c g c t a a c t t a g g a t t t t t a a t g a c a g c a a t t g g c t t a c c a t t t c t a g g t a t c a t t g c t a t t g g c a t t t c a a a g a c a t c t g g t t t a t t t g a a a t t g c a t c g c g t g t t a a t a a a a c a t a t g c t t a t a t t t t c a c g a t t g c c t t a t a t c t a g t t a t c g g a c c a t t t t t c g c c t t a c c t a g a c t g g c a a c t a c a t c a t t t g a a a t t g c a t t t t c g c c a t t t t t a t c a c c a a g c a a a t c a c t t t a t a t t t a t t t a t t t t t a g c t t c g t c t t c t t t g t g a t t g c a t g g t t t t t t t g c g a g a a a g c c a t c a a g a a t t t t a g a a t a t a t c g g t a a a t t t t t a a a t c c a g t a t t c t t a g t a t t a t t a g c a a t t a t t t t a t t a t t t g c t t t t a t c c a t c c a t t a g g t g g c a t a t c t g a t g c a c c t a t t a g t a a a c a a t a t c a a t c a a a c g c c t t a t t t a a c g g c t t t t t a g a t g g a t a c a a t a c c t t a g a t g c g c t a g c g t c a t t g g c a t t t g g t a t c a t c a t t g t t g c a a c g a t t a a a a a g t t a g g t a t c g a a a a t c c a a c t g a t a t c g c t a a a g a a a c a a t t a a g t c t g g t a c t a t c a g t a t c a t t a t g a t g g g g a t c a t t t a t a c c c t a c t a g c a a t c a t g g g t a c a t t a a g t a t t g g t c a t t t c a a a c t t a g t g a a a a t g g t g g t a t t g c c t t a g c g c a a a t t a c g c a a t a c t a c t t a g g t a a c t a c g g t a t c g t c t t g t t a t c a c t c a t c g t t a t g g t t g c t t g t t t a a a a a c a g c t a t c g g t t t a a t t a c g g c a t t t t c a g a a a c a t t t g a a c a c c t t t t c c c t a a a a t g a a t t a c c t a g c g a t t g c a a c a g t t g t g a g c t t t a t c t c a t t c t t a t t c g c g a a t g t t g g c t t a a c t a a g a t t a t t a t g t a c t c a g t c c c a g t g t t a a t g t t c t t a t a t c c a t t a g c a a t t g c c t t g a t t g t a c t a a c a t t a t t t a g t a g c a a a t t c c a t c a t t c a a a a a t t a t t t a t c a a t g t a c c a t t t t c t t t a c a a t g a t t g c t g c a t t a g t a g a t g g a t t a a a a g c t a g t c c a g a g t t c a t t t c a a g c a c a t c a t t c t c a c a a a c t t t g a t t a a t t t c a g c c a a a a a t a t t t a c c a t t a t c a g a c a t t g g t a t g g g c t g g g t t g t t c t c a g t t t g a t t g g t t t c a t t a t c g g c t t c a t t a t t t a t a a a a t t a a g c a t c g t a a a a t t c c a c a a g c a t a a
M
K
K
K
L
T
F
K
E
N
M
F
I
G
S
M
L
F
G
L
F F G A G N L I F P I H L G Q A A G S N V F I A N L G F L M T A I G L P F L G I I A I G I S K T S G L F E I A S R V N K T Y A Y I F T I A L Y L V I G P F F A L P R L A T T S F E I A F S P F L S P S K S L Y I Y L F L A S S S L * L H G F F A R K P S R I L E Y I G K F L N P V F L V L L A I I L L F A F I H P L G G I S D A P I S K Q Y Q S N A L F N G F L D G Y N T L D A L A S L A F G I I I V A T I K K L G I E N P T D I A K E T I K S G T I S I I M M G I I Y T L L A I M G T L S I G H F K L S E N G G I A L A Q I T Q Y Y L G N Y G I V L L S L I V M V A C L K T A I G L I T A F S E T F E H L F P K M N Y L A I A T V V S F I S F L F A N V G L T K I I M Y S V P V L M F L Y P L A I A L I V L T L F S S K F H H S K I I Y Q C T I F F T M I A A L V D G L K A S P E F I S S T S F S Q T L I N F S Q K Y L P L S D I G M G W V V L S L I G F I I G F I I Y K I K H R K I P Q A * |
Comments=Pseudogene, both frameshift and stopcodon in gene |
| or2819, or2820 | 150599 | 151374 | complement (join (150599..151120, 151120..151374)) | pseudogene |
G
T
G
A
T
T
A
A
T
T
G
G
G
A
A
A
C
A
A
T
T A A A C A A G A A G T A A G A G A A T C T A T T G T T A A A G G A A T T A T C G C G G G A T A T A A G G A C T A T G T T A A T G A G A G A A A T G A A G T C A A G A A A C G T A T G G T G A T T A G T G A T G C C T A T G T G T A C A C C A A A T C T A A T C A T A T T G A A A A T C A A G T T G C T A A G C A T T T G G A A A A T T T T G T T A A G T A T A T T A A A G A A A A T G C T G G A C C A T C A T G G A A G T A T T T A A A G T T T A T A T T T A A T A A A G A T G A A A G A G A A A A A T A A T A T C A T G T T T A T A T T G A A A A A T G A A G A T T A C T T T G A T G A A A A A A T G T A A G C G T A G G G A A G A G T T T A G T T G C T G A T A A A A A T C A A A A A A G T A A A A A C T A T C T A G A G G T A C T T A T G G C T A A G A A T A C G G A T A T T A A T T T T G A T A C T G T T G G A G A A G A T T T T G A A A T T A G G C A T C A A A T G A C T G C A G A T A G T A T A T T A T T T A A T A T A A A A G A A G G C A G T A A T A G A G A T A T T A A T T C T T A T T T T T T A A T T A T T A C A T A T C G T A T T G A T A A A G A A T C A A A G C A A T T A G C T G C A A T C A A A C A A T G G T T A C C A A A T C C A G A A A C A A A T T C T G C A A T T A T G G T T G A T G A T T T G A C A G A G T T A A T A G A A A A A G T A A T A G T A G A A A G A G A A G A T T A T C A T A T T G A C G A A G A A G A G T T A G A A G T A C T T A A A A A C G A T G G A G A G T T A G A A T T C A T A G A T G T G G A A C A T G C A T T T G G T A T C A G T A T C G A T G A A G A T A A C G A T A T G A T T G A A A G C G A A A G G T G A
V
I
N
W
E
T
I
K
Q
E
V
R
E
S
I
V
K
G
I
I
A G Y K D Y V N E R N E V K K R M V I S D A Y V Y T K S N H I E N Q V A K H L E N F V K Y I K E N A G P S W K Y L K F I F N K D E R E K * Y H V Y I E K * R L L * * K N V S V G K S L V A D K N Q K S K N Y L E V L M A K N T D I N F D T V G E D F E I R H Q M T A D S I L F N I K E G S N R D I N S Y F L I I T Y R I D K E S K Q L A A I K Q W L P N P E T N S A I M V D D L T E L I E K V I V E R E D Y H I D E E E L E V L K N D G E L E F I D V E H A F G I S I D E D N D M I E S E R * |
Comments=Pseudogene, both frameshift and stopcodon in gene |
| or2837, or2838 | 169543 | 170514 | pseudogene |
T
T
G
G
A
A
A
G
A
G
T
T
T
T
G
A
T
A
A
C
T G G T G G G G C T G G T T T T A T T G G G T C G C A T T T A G T A G A T G A T T T A C A A C A A G A T T A T G A T G T T T A T G T T C T A G A T A A C T A T A G A A C A G G T A A A C G A G A A A A T A T T A A A A G T T T G G C T G A C G A T C A T G T G T T T G A A T T A G A T A T T C G T G A A T A T G A T G C A G T T G A A C A A A T C A T G A A G A C A T A T C A A T T T G A T T A T G T T A T T C A T T T A G C A G C A T T A G T T A G T G T T G C T G A G T C G G T T G A G A A A C C T A T C T T A T C T C A G G A A A T A A A C G T C G T A G C A A C A T T A A G A T T G T T A G A A A T C A T T A A A A A A T A T A A T A G T C A T A T A A A A C G T T T T A T C T T T G C T T C G T C A G C A G C T G T T T A A G G T G A T C T T C C C G A T T T A C C T A A A A G T G A T C A A T C A T T A A T C T T A C C A T T A T C A C C A T A T G C A A T A G A T A A A T A T T A C G G C G A A C G G A C G A C A T T A A A T T A T T G C T C G T T A T A T A A C A T A C C A A C A G C G G T T G T T A A A T T T T T T A A T G T A T T T G G G C C A A G A C A G G A C C C T A A G T C A C A A T A T T C A G G T G T G A T T T C A A A G A T G T T C G A T T C A T T T G A G C A T A A C A A G C C A T T T A C A T T T T T T G G T G A C G G A C T G C A A A C T A G A G A T T T T G T A T A T G T A T A T G A T G T T G T T C A A T C T G T A C G C T T A A T T A T G G A A C A C A A A G A T G C A A T T G G A C A C G G T T A T A A C A T T G G T A C A G G C A C T T T T A C T A A T T T A T T A A A G G T T T A T C G T A T T A T T G G T G A A T T A T A T G G A A A A T C A G T C G A G C A T G A A T T T A A A G A A G C A C G A A A A G G A G A T A T T A A G C A T T C T T A T G C A G A T A T T T C T A A C T T A A A G G C A T T A G G A T T T G T T C C T A A A T A T A C A G T A G A A A C A G G T T T A A A G G A T T A C T T T A A T T T T G A G G T A G A T A A T A T T G A A G A A G T T A C A G C T A A A G A A G T G G A A A T G T C A T A A
L
E
R
V
L
I
T
G
G
A
G
F
I
G
S
H
L
V
D
D
L Q Q D Y D V Y V L D N Y R T G K R E N I K S L A D D H V F E L D I R E Y D A V E Q I M K T Y Q F D Y V I H L A A L V S V A E S V E K P I L S Q E I N V V A T L R L L E I I K K Y N S H I K R F I F A S S A A V * G D L P D L P K S D Q S L I L P L S P Y A I D K Y Y G E R T T L N Y C S L Y N I P T A V V K F F N V F G P R Q D P K S Q Y S G V I S K M F D S F E H N K P F T F F G D G L Q T R D F V Y V Y D V V Q S V R L I M E H K D A I G H G Y N I G T G T F T N L L K V Y R I I G E L Y G K S V E H E F K E A R K G D I K H S Y A D I S N L K A L G F V P K Y T V E T G L K D Y F N F E V D N I E E V T A K E V E M S * |
Comments=Pseudogene, TAA stop codon seen in alignment | |
| or2873 - or2874, or2874 | 213569 | 213712 | pseudogene |
G
T
G
G
T
T
G
A
A
A
T
T
A
C
T
A
T
T
G
G
A G G T A C A T A C C A A G C T A T C A T T T T G A G T A C A C G T G G T T T G A A T A T C T G G C A A G A A A T G G A T A T T G G T A A T G T C A G T C A T A A A G T C G C T A A A C G T G C T C A A A T A C C A T T A A T T A T T A T T A A A T A A
V
V
E
I
T
I
G
G
T
Y
Q
A
I
I
L
S
T
R
G
L
N I W Q E M D I G N V S H K V A K R A Q I P L I I I K * |
Maingene=or2874; Extension FAILED; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or2881 - or2885, or2885 | 221736 | 222167 | pseudogene |
A
T
G
A
A
T
G
A
A
T
T
A
A
G
A
A
C
G
A
C
G A A T C A A C C T T T A T A T A A T A A G T T T A A A A G A T A T G C G A A A T T A C T A T T A A A A C C T G G A G A A G A T T T A G A G G C A T T T G A A T A T C G T A A A G T A G C T T T A T T T A A G G A A T G G A A G A C G C A A A A G G G T A T C A T T A A G T A T T T A T T A G A T C A A G A T G A C T C A C T A A A T G A C G C C T A C C A A T A T A T C A A T C A A C T A C G A T T C A A A C T T A A A C A T A A T G A T T A T G A A G G C T T T A T T C A C G A A T T A A A A C A T A T G C C A T T G T C T C A A G C G C A T T C A T T T G T C C A A C G A G C A A C T A A G A C A C T T A A C A A A C A T G C G T A C T T T A T A A A A A A T A C A T T T G A T T A T T A C A A T T T A T C A A A T G G T C C T T T A G A A G G T A T A A A T A A C A A A A T A A A A T T A A T T A A A C G T A C A T C T T T T G G T T A C T G A
M
N
E
L
R
T
T
N
Q
P
L
Y
N
K
F
K
R
Y
A
K
L L L K P G E D L E A F E Y R K V A L F K E W K T Q K G I I K Y L L D Q D D S L N D A Y Q Y I N Q L R F K L K H N D Y E G F I H E L K H M P L S Q A H S F V Q R A T K T L N K H A Y F I K N T F D Y Y N L S N G P L E G I N N K I K L I K R T S F G Y * |
Maingene=or2885; Extension FAILED; Comments=Pseudogene, failed extension, extended gene >100aa and <50% median/second shortest homolog | |
| or2886 - or2887 | 223183 | 223488 | pseudogene, missed gene |
A
T
C
A
A
A
C
T
A
T
T
C
C
A
C
A
C
C
G
A
T A G A T G C A A A G A A T T T A A T A A T C A T T T G A T A G A T G A A G T C C T A G A A A C C T T T A A A A T C A A A T G T T C A T G A A G T A C C A A A G G T T G T C C T T A T G A T A A C G C A G T T G C G G A A G C G A C G A T G A A A G C A A T G A A A A C T G A A T T T G T A A A A C A A A T G T A A T T T G A A A A T T T A G A A C A G T T A G A A A C A G A A T T A T T T G A T T A T G T A A A T T G G T A C A A C A A T T T T A G A C C A C A T T C T T C A T T A A A G T A T T T A A C G G C A G T G G C A T T T A A A A A T C T A C G C A T G A A A A C T G T C T A A
I
K
L
F
H
T
D
R
C
K
E
F
N
N
H
L
I
D
E
V
L E T F K I K C S * S T K G C P Y D N A V A E A T M K A M K T E F V K Q M * F E N L E Q L E T E L F D Y V N W Y N N F R P H S S L K Y L T A V A F K N L R M K T V * |
Comments=Pseudogene, >1 in frame stop codons. Found common hit with non-adjoining gene: or2888 | |
| or2886 - or2887, or2887, or2888 | -1 | 223183 | pseudogene |
C
C
|
Maingene=or2887; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or2887 - or2888 | 223580 | 223849 | complement (join (223580..223719, 223719..223785, 223785..223849)) | pseudogene, missed gene |
A
T
G
T
G
T
A
A
A
G
T
C
C
T
A
A
A
A
A
T
G C C A A G A A G T A C C T A T T A T G A T T C T A T A A A A A G A A A A G A T A A T A A A A T T A C T A A A G A T G A T T C A A A C G T A G A A C G T G C A A T C A T A A A T A T T T T T A A T T C T A A T A G A A A G G T C C T T G G T A C A A G A T G A A T T A A A A A T C A T T T G A A T C G C G C T T T T A A T A G A G A G C A A C C A A T G G A A G C A T T A G T A A G T G A T T T A A C A T A T G T A A A G G T C G C A G G A A C A T G G C A C T A T A T A T G T T T A T T T A C A G A T C T A T T T A A
M
C
K
V
L
K
M
P
R
S
T
Y
Y
D
S
I
K
R
K
D
N K I T K D D S N V E R A I I N I F N S N R K V L G T R * I K N H L N R A F N R E Q P M E A L V S D L T Y V K V A G T W H Y I C L F T D L F |
Comments=Pseudogene, >1 frameshift are present |
| or0355, or0356 | 40569 | 41116 | complement (join (40569..40925, 40925..41116)) | putative pseudogene |
A
T
G
T
C
T
G
A
A
G
A
A
G
T
T
G
G
C
G
C
A A A G C G T T G G T A T G C A G T G C A T A C A T A T T C T G G A T A T G A A A A T A A A G T T A A A A A G A A T T T A G A A A A A A G A G T A G A A T C T A T G A A T A T G A C T G A A C A A A T C T T T A G A G T A G T C A T A C C G G A A G A A G A A G A A A C T C A A G T T A A A G A T G G T A A A G C T A A A A C A A C C G T T A A A A A A A C A T T C C C T G G A T A T G T T T T A G T G G A A T T A A T C A T G A C A G A T G A A T C A T G G T A T G T G G T A A G A A A T A C A C C A G G T G T T A C T G G T T T T G T A G G T T C T G C A G G T G C A G G G T C T A A G C C A A A T C C A T T G T T A C C A G A A G A A G T T C G C T T C A T C T T A A A A C A A A T G G G T C T T A A A G A A A A G A C T A T C G A T G T T G A A C T C G A A G T T G G C G A G C A A G T T C G T A T T A A A T C A G G T C C A T T T G C G A A T C A A G T T G G T G A A G T T C A A G A A A T T G A A A C A G A T A A G T T T A A G C T A A C A G T A T T A G T A G A T A T G T T T G G C C G A G A A A C A C C A G T A G A A G T T G A A T T C G A T C A A A T A G A A A A G C T T T A A
M
S
E
E
V
G
A
K
R
W
Y
A
V
H
T
Y
S
G
Y
E
N K V K K N L E K R V E S M N M T E Q I F R V V I P E E E E T Q V K D G K A K T T V K K T F P G Y V L V E L I M T D E S W Y V V R N T P G V T G F V G S A G A G S K P N P L L P E E V R F I L K Q M G L K E K T I D V E L E V G E Q V R I K S G P F A N Q V G E V Q E I E T D K F K L T V L V D M F G R E T P V E V E F D Q I E K L * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or0376 - or0377, or0377, or0378 | 2760 | 3371 | pseudogene |
A
T
G
C
C
G
T
T
A
A
A
A
G
T
C
A
T
T
A
T
A G A T T A C T T C A A A T T A C A T A T G G A A G G T C G A C A A A T A T T T A T A A C A T C T T T A T T G A T T A T G G C G A C A G G T T T T T C A T A T A C G A C A C T T T T A C C A G T T T T A A C A A A C A A A G T A T T T C C G G G G A A A T C T G A A A T A T T T G G T A T C G C T A T G A C G A T G T G T G C C A T T G G T G G T A T T A T T G C A A C G C T A G T T T T A C C T A A A G T A C T T A A A T A T A T T G G T A T G G T A A A T A T G T A T T A T T T A A G T T C A T T A T T A T T T G G C A T T G C T T T G T T A G G T G T G G T A T T T C A C A A T A T T G T C A T C A T G T T C A T T T G T A T T A C A T T G A T T G G G T T A T T T A G T C A A T G G G C A C G T A C G A C A A A T C G C G T T T A T T T T C A A A A T A A T G T T A A A G A T T A T G A A C G T G G T A A A G T A C T G A G T A T T A T T A T G A T G G A T A G A G G T A T G A T T C C A T T G G G A A G T C T G T T A A T G A G T A T A T G T G C A G A T G T G T T T G G C A T T G T T A G A A C T T T T T C A A T A A T G G G A A T A A G T A C T A T A T G C A T T A C A A T G G T A T T C T A T T T T A T A A A T A G A A A G T T G A A G T T A A A G T T G G A G G A A A G T A A T C A T G G T A T A T C T T G A
M
P
L
K
V
I
I
D
Y
F
K
L
H
M
E
G
R
Q
I
F
I T S L L I M A T G F S Y T T L L P V L T N K V F P G K S E I F G I A M T M C A I G G I I A T L V L P K V L K Y I G M V N M Y Y L S S L L F G I A L L G V V F H N I V I M F I C I T L I G L F S Q W A R T T N R V Y F Q N N V K D Y E R G K V L S I I M M D R G M I P L G S L L M S I C A D V F G I V R T F S I M G I S T I C I T M V F Y F I N R K L K L K L E E S N H G I S * |
Maingene=or0378; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene >100aa and >50% and <70% median/second shortest homolog, Blast redone with 250 hits and e-05, extended gene <70% median/second shortest homolog | |
| or0419 - or0420 | 23900 | 24092 | complement (join (23900..24043, 24042..24092)) | pseudogene, missed gene |
G
G
C
C
C
C
A
A
C
A
T
A
G
A
G
A
A
T
T
T
C G A A A A G A A A T T C T A C A G A C A A T G C A A G T T G T G G C G G G G C C C C A A C A T A G A G A A T T T C G A A A A G A A A T T C T A C A A A C A A T G C A A G T T G G G G A A G G A C A A C A A A T T T A A G A T A C A A T G C G T A A T A T T A A T A T G T T A T T A T T A T G A T A A T T T A C A A A A T T A T A T G A A A A A T A A A T G A
G
P
N
I
E
N
F
E
K
K
F
Y
R
Q
C
K
L
W
R
G
P N I E N F E K K F Y K Q C K L G K D N K F K I Q C V I L I C Y Y Y D N L Q N Y M K N K * |
Comments=Pseudogene, start/stop is absent |
| or0439 - or0439 | 43452 | 43748 | pseudogene, missed gene |
A
T
A
A
T
T
A
C
A
T
G
C
G
T
A
T
A
T
A
G
T A G G A G T G A A C T A T A T A G C C G G G C A G A G G C C A T G T A T C T G A C T G T T G G T C C C A C A G G A G A C A T C T T C C T T G T C A T C A C T C G A T A C A T A T A T C T T A A C A A C A T A G A A A T G T T A C A T T C G C T A T A A C C G T A T C T T A A T C G A T A C G G T T A T A T T T A T T C C C C T A C A A C C A A C A A A A C C A C A G A T C C T A T T A A T T T A G G A T T G T G G T T A T T T T T T G C G T T T T T T T G G G G C A A A A A A A G G G C A G A T T A T T T G A A A A A G G G C A A A C G C T T G T G G A A A A T C T A A
I
I
T
C
V
Y
S
R
S
E
L
Y
S
R
A
E
A
M
Y
L
T V G P T G D I F L V I T R Y I Y L N N I E M L H S L * P Y L N R Y G Y I Y S P T T N K T T D P I N L G L W L F F A F F W G K K R A D Y L K K G K R L W K I * |
Comments=Pseudogene, TAA stop codon in frame | |
| or0 - or0473 | 3 | 2927 | pseudogene, missed gene |
A
T
G
G
G
A
G
A
A
A
G
A
A
T
A
A
A
A
G
G
T T T A T C T A T A G G T T T G G A T T T G G A T T C A G C A A A T T T A A A T A G A T C A C T T A C A G A A A T T A A A C G A A A C T T T A G A A C C T T A A A T T C A G A C T T A A A G T T G A C T G G A A A C A A C T T T A A A T A T A C T G A G A A A T C A A C T G A T A G T T A T A A A C A A C G A A T C A A A G A G T T A G A T G G A A C A A T T G C A G G T T A T A A G A A A A A C A T T G A T G A T T T A G C G A A G C A A T A T G A T A A G G T A T C T C A A G A A C A G G G T G A A A A T A G T A C A A A A G C T C A G A A T T T A A G A C A A G A A T A T A A C A A A C A A G C A A A T G A G C T G A A T T T T T T A G A A A A A G A A C T A G A A A A A A C A A C A G C T G A G T T T G A A G A G T T C A A A A A A G C A C A A G T T G A A G C T C A A A G A A T G G C T G A A A G T G G C T G G G G C A A A A C C A G C A A G A T G T T T G A A A A T A T G G G A C C A A A G C T G A C G A A A A T G G G C G A T G G T T T A A A A T C C G T T G G T A A A G G A C T G A G T A T T G G T A T T A C A G C A C C T G T A T T A G G T A T T G C A G C A G C A T C A G G A A A A G C T T T T G C A G A A G T T G A T A A A G G T T T A G A T A C A G T T A C C C A A G C A A C A G G A G C A A C C G G C G G A G A G C T T A A G A A G T T G C A G A A T T C A T T T A A A G A T G T T T A T G G C A A C T T T C C A G C A G A C G C T G A G A C T G T A G G T G G T G T T T T A G G G G A A G T T A A C A C A A G G T T A G G T T T C A C T G G C A A A G A A C T T G A G A G T G C C A C A G A G T C A T T C T T G A A A T T T A G T C A C A T A A C G G G T T C T G A C G G C G T A C A A G C C G T T C A A T T A A T T A C G C G T G C A A T G G G T G A T G C G G G T A T T G A A G C T G A T G A G T A T C A A A G T A T A C T T G A T A T G G T A G C G A A A G C A G C A C A G G C T A G C G G T A T A A G T G T T G A T A C A T T A G C T G A T A G T A T T A C T A A A T A C G G T G C T C C A A T G A G G G C T A T G G G C T T T G A G A T G A A A G A A T C A A T C G C T T T A T T C A C T C A A T G G G A G A A A T C A G G T G T T A A T A C T G A A A T A G C C T T C A G T G G T T T G A A A A A A G C A A T T T C C A A T T G G G G T A A A G C G G G T A A A G A C C C A A G A G A A G A A T T T A A G A A G A C A T T A G C A G A A A T T G A A A G G A C A C C G G A T A T A G C T A G C G C A A C A A G T T T A G C G A T T G A A G C A T T T G G T G C A A A A G C A G G T C C T G A T T T A G C A G A T G C T A T T A A A G G C G G T C G C T T T A G T T A C C A A G A G T T C T T A A A A A C T A T C G A A G A T T C G C A A G G A A C G G T C A A T C A A A C T T T T A A A G A T T C T G A A A G T G G T T C A G A A A G A T T T A A A G T A G C A A T G A A T A A A C T T A A A T T A G T A G G T G C T G A T G T A T G G G C T T C T A T T G A A C G T G C G T T T G C T C C A G T A A T G G A A G A A C T A A T C A A A A A G C T A T C T G T A G C A G T T G A T T G G T T T T C A A G T T T A A G T G A T G G A T C T A A A A G G T C G A T T G T T A T A T T C G G T G G T A T T G C T G C T G C A A T T G G T C C T G T A G T T T T T G G A T T A G G T G C A T T C A T A A G C A C A A T T G G C A A C G C A G T A A C T G T A T T A G C T C C A T T A T T A G C T A G T A T T G C A A A G G C T G G C G G A T T G A T T A G T T T T T T A T C A A C T A A A G T G C C T A T T T T A G G A A C A G T C T T C A C A G C A T T A A C T G G T C C A A T T G G T A T C G T G T T A G G T G T A C T G G C T G G T T T A G C A G T C G C A T T T A C A A T A G C T T A T A A G A A A T C T G A A A C A T T C A G A A A T T T T G T T A A T G G T A C A A T T A A C A G T G T T A A A C A A A C G T T T A G T A A T T T C A T T C A A T T T A T C C A A C C T T T C A T T G A T T C C G T T A A A A A C G T C T T T A A A C A A G C G G T T T C A G C A A T C G T T G A T T T C G C T A A A G A T A T T T G G A G T C A A A T T A A T G G A T T C T T T A A T G A A A A C G G A A T T T C T A T T G T T C A A G C G C T T C A A A A T A T A T G C A A C T T T A T T A A A G C G A T A T T T G A A T T T A T T T T A A A T T T T G T A A T T A A A C C A A T T A T G T T C G C G A T T T G G C A A G T G A T G C A A T T T A T T T G G C C G G C G G T T A A A G C C T T G A T T G T C A G T A C T T G G G A G A A C A T A A A A G G T G T A A T A C A A G G T G C T T T A A A T A T C A T A C T T G G C T T G A T T A A G T T C T T C T C A A G T T T A T T C G T T G G T G A T T G G C G A G G A G T T T G G G A C G C C G T T G T G A T G A T T C T T A A A G G A G C A G T T C A A T T A A T T T G G A A T T T A G T T C A A T T A T G G T T T G T A G G T A A A A T A C T T G G T G T T G T T A G G T A C T T T G G T G G A T T A C T T A A A G G T T T A A T A A C T A T T A T A T G G G T T G C T A T A A T A G G C G T T T T C A A G A A A T C A T T A T C G G C A A T T T G G A A T G C A A C A A A A A G T A T T T T T G G T T T C T T A T T C A A T A G T G T T A A A T C T A T T T T C A C T A A T A T G A A A A A C T G G T T A T C T A G T A C G T G G A A T A A T A T C A A A A G C A A T A C C G T C G G C A A G G C T C A T T C G T T A T T T A C G G G T G T A A G G T C T A A A T T C A C A A G T T T A T G G A A T G C G A C G A A A G A T A T A T T T A C T A A A T T A A G A A A T T G G A T G T C A A A C A T C T G G A A C T C T A T T A A A G A T A A C A C T G T A G G T A T A G C T G G T C G C T T A T G G G A T A G A G T G C G T A A C A T C T T T G G A A G C A T G C G T G A C G G T T T A A A A T C T A T C A T T G G T A A A A T T A A A G A T C A T A T C G G T G G T A T G G T A G A T G C T A T T A A A A A A G G A C T T A A T A A A T T A A T T G A A G G C T T A A A C T G G G T C G G T G G T A A G T T A G G T A T G G A T G A A A T A C C T A A G T T A C A T A C T G G T A C A G A G C A C A C A C A T A C T A C T A C A A G A T T A G T T A A G A A C G G T A A G A T T G C A C G T G A C A C A T T C G C T A C A G T T G G G G A T A A A G G A C G T G G A A A T G G T C C A A A T G G T T T T A G A A A T G A A A T G A T T G A A T T C C C T
M
G
E
R
I
K
G
L
S
I
G
L
D
L
D
S
A
N
L
N
R S L T E I K R N F R T L N S D L K L T G N N F K Y T E K S T D S Y K Q R I K E L D G T I A G Y K K N I D D L A K Q Y D K V S Q E Q G E N S T K A Q N L R Q E Y N K Q A N E L N F L E K E L E K T T A E F E E F K K A Q V E A Q R M A E S G W G K T S K M F E N M G P K L T K M G D G L K S V G K G L S I G I T A P V L G I A A A S G K A F A E V D K G L D T V T Q A T G A T G G E L K K L Q N S F K D V Y G N F P A D A E T V G G V L G E V N T R L G F T G K E L E S A T E S F L K F S H I T G S D G V Q A V Q L I T R A M G D A G I E A D E Y Q S I L D M V A K A A Q A S G I S V D T L A D S I T K Y G A P M R A M G F E M K E S I A L F T Q W E K S G V N T E I A F S G L K K A I S N W G K A G K D P R E E F K K T L A E I E R T P D I A S A T S L A I E A F G A K A G P D L A D A I K G G R F S Y Q E F L K T I E D S Q G T V N Q T F K D S E S G S E R F K V A M N K L K L V G A D V W A S I E R A F A P V M E E L I K K L S V A V D W F S S L S D G S K R S I V I F G G I A A A I G P V V F G L G A F I S T I G N A V T V L A P L L A S I A K A G G L I S F L S T K V P I L G T V F T A L T G P I G I V L G V L A G L A V A F T I A Y K K S E T F R N F V N G T I N S V K Q T F S N F I Q F I Q P F I D S V K N V F K Q A V S A I V D F A K D I W S Q I N G F F N E N G I S I V Q A L Q N I C N F I K A I F E F I L N F V I K P I M F A I W Q V M Q F I W P A V K A L I V S T W E N I K G V I Q G A L N I I L G L I K F F S S L F V G D W R G V W D A V V M I L K G A V Q L I W N L V Q L W F V G K I L G V V R Y F G G L L K G L I T I I W V A I I G V F K K S L S A I W N A T K S I F G F L F N S V K S I F T N M K N W L S S T W N N I K S N T V G K A H S L F T G V R S K F T S L W N A T K D I F T K L R N W M S N I W N S I K D N T V G I A G R L W D R V R N I F G S M R D G L K S I I G K I K D H I G G M V D A I K K G L N K L I E G L N W V G G K L G M D E I P K L H T G T E H T H T T T R L V K N G K I A R D T F A T V G D K G R G N G P N G F R N E M I E F P |
Comments=Pseudogene, start/stop is absent | |
| or0495, or0496 | 223 | 1243 | complement (join (223..753, 755..1243)) | putative pseudogene |
A
T
G
A
A
A
A
A
A
A
G
A
A
A
A
A
A
A
C
G
T A A A G A A T T A G A C T A T A A A A C A C G T C T A G C T A T C G C A A A G T A T T T A A A T G A T G G T T T A A A C A T C A T T C A G A T T T C T A A G A T T T T A G G T C G T G A T G A T G C A G T T C T C T A T A G A G A A G T A A A T A A G C G T T C T G T T G A T G G T G T T T A T A A T C C T T T A T T G G C T G A A G A A G A T G C T A T A A A A T C G C G T A G T A T T T C A G A T G A A C A G G T T G C T A A A C G T A G A C G T T T G A A T G A T G A A A C A A A A G C A T A T A T T G A A G A A A A A C T T T C A T T A A A A T G G T C T C C T A G A C A G A T A G C A A G T C A A A T T G A A A A A G A T A C A G G G T A T T A T A T A A G T T A T C C T A C T A T A T A T A G A T A T A T T C G C A A T G G A T T G G T A A A A G T T G A T G T T A A A C G T G A T A T G A G A C A A G C A G G C A A G A A A T A T A A T A A G T C T T C T G A A A A G C G T G G C A A A T T A G A C G T A G G G T C T C G T G T T A T A A A G T A T C G G T C A A A A A G T A T T A A T A A T C G T G A A G A A T T T G G A C A T T A T G A A A T T G A T A C T G T T T G G A G T G T T A G A C C A T C A A C A T A T T G C T T G T T A A C T A T T A T T G A A A G A A A G A C A A G A T A T T T A T A T G C T A G T A G A T T A A A T A C A C G T A A A T C C A A T G T A G T T T G T A A T G A G A T T A T A A A T A T T A T G A A A C C A T T A T T A C C C A A A A G T A T A A C T A T G G A T A G A G G T A A G G A G T T T G C T C T A T T T G A A C A A A T A G A A G A T G A A T T G A A T T G T A G T A T T T A T T T T A G T G A T T T G G G T T G T C C A T A T C A A C G T G G T T C T A T T G A A A A T G C A A A T G G A C T T T T A A G A C A G T A T T A T C C T A A A G G T A C G G A T T T T G C A A A T A T A A C A C A A A A G T C A T T A G A T G A A G C T G T T A A A C A A A T T A A T G C A C G G C C T C G A A T G A T A T T T G A C T A T A A A T C G A G T G A G G A A A T G C T A A A G T A C C A T G T A A G C A C A C A A A A T T G T G A A C C T A T A T T A A A T G A C T G T G T G A G G C A C G A A C C C G T C A A T T A A
M
K
K
R
K
K
R
K
E
L
D
Y
K
T
R
L
A
I
A
K
Y L N D G L N I I Q I S K I L G R D D A V L Y R E V N K R S V D G V Y N P L L A E E D A I K S R S I S D E Q V A K R R R L N D E T K A Y I E E K L S L K W S P R Q I A S Q I E K D T G Y Y I S Y P T I Y R Y I R N G L V K V D V K R D M R Q A G K K Y N K S S E K R G K L D V G S R V I K Y R S K S I N N R E E F G H Y E I D T V W S V R P S T Y C L L T I I E R K T R Y L Y A S R L N T R K S N V V C N E I I N I M K P L L P K S I T M D R G K E F A L F E Q I E D E L N C S I Y F S D L G C P Y Q R G S I E N A N G L L R Q Y Y P K G T D F A N I T Q K S L D E A V K Q I N A R P R M I F D Y K S S E E M L K Y H V S T Q N C E P I L N D C V R H E P V N * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or0024 - or0025 | 23547 | 23729 | pseudogene, missed gene |
A
T
G
G
C
G
A
G
A
C
T
C
C
T
G
A
G
G
G
A
G C A G T G C C A G T C G A A G A C C G A G G C T G A G A C G G C A C C C T A G G A A G G G A C C C A T C A T C A A A A A T T C T A T T T A T A G A A T T T T A C A G T A A T G T G C C A G A T G G G C A T A G C G A A G C C A T T C A A T A C G A A G T A T T G T A T A A A T A G A G A A C A G C A G T A A G A T A T T T T C T A A
M
A
R
L
L
R
E
Q
C
Q
S
K
T
E
A
E
T
A
P
*
E G T H H Q K F Y L * N F T V M C Q M G I A K P F N T K Y C I N R E Q Q * D I F * |
Comments=Pseudogene, >1 in frame stop codons | |
| or0024 - or0025, or0025 | 24004 | 24132 | pseudogene |
A
T
G
A
T
G
T
T
A
A
A
A
A
T
C
A
T
C
T
T
A T A T A C A T A T A C T C A A T C T G T A T T T T C T G G T C G T A G A A T A G A G A A A T T A C T T C A T G A C A G T A T T C A A A T G A T G T G G T T A G C T C A A G A T C A A A C A C A T T A T T C A A A A T A A
M
M
L
K
I
I
L
Y
T
Y
T
Q
S
V
F
S
G
R
R
I
E K L L H D S I Q M M W L A Q D Q T H Y S K * |
Maingene=or0025; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or0529 - or0530 | 26219 | 26392 | pseudogene, missed gene |
G
A
T
G
A
C
G
A
T
A
G
T
G
C
C
C
A
T
T
T
T A C T T T G C G T A A G A A G A T A A T C C T T A C A T T A T T T G T A C T A C C A T T T C C A A T T A T G G T G T G G G G A G T T A T G A C G C A A G G T T G G T G G T T C C C A G T T A T G G C T T C A G C A T T T T T A A T A T T T A C A A T T A T A A T A A T G T T T A T T G C T G G G A C A G G T A A A
D
D
D
S
A
H
F
T
L
R
K
K
I
I
L
T
L
F
V
L
P F P I M V W G V M T Q G W W F P V M A S A F L I F T I I I M F I A G T G K |
Comments=Pseudogene, start/stop is absent | |
| or0 - or0551, or0551 | 93 | 785 | pseudogene |
A
T
G
A
A
T
G
C
T
A
A
A
A
A
A
A
T
T
G
T
T T T T C C T A A T C A T T C C T A T A A A A A G A A A T T G C T A C G A G C T T T T A A A G G T A A T G A T A A T T T A A A T G A A A A A T T A A A A C G T T C A A C T A T T A T T C C A A A T G G A A T A G A T A A G T T A T G G A T T A A T T C C T C T A T G A T C T C T T C T A A A A A A C T A G A T A A A G A T A G T G T G A A A A T T T T A T T T G T A G G T A G A A T C T A T A G T A A T A A A A A T T T G C A T A A T T T A T T A T C T G C T T T A G A A G T T T A T A A A A A C T G T G A A T T A A C A A T T G T A G G T A A T A T A G T A G A T G A T A A A T A T T T T A G C A A T C T C A A T A A A A A A T A T A A A T T A A A T T A T T T A G G T C C A A A A A G T A A A G A A G A A T T G A T A G A A G T A A T G A A T G A A C A T G A T A T T T T T G C A A T G C C T T C A T T T A A T G A A A C T T T T G G T T T A G T T T A T A T T G A A G C G C T T A G T C G A A A T T T A C C T A T C C T T T A T A C T A A A G G A G A A G G A A T A T A T A A C T A T T T T G A T G A A A A A A A A T A C G G T A T T G C T G T A G A G C C A G G A A G T A T A A C A G A T A T A A G A A A A G G G A T T A G T T T T A T A A T T G A T A A T T A T G A T G A A A T T C A G G A A A A T C T T A A A G A T A A A C A T T T C T T A A A T A A T T T T A A T T G G G A A A A T A T T G G A A A A G T T T A T G A A A A A C T A T A C T T A G G T G A G T A T A A T G A A T A A
M
N
A
K
K
I
V
F
P
N
H
S
Y
K
K
K
L
L
R
A
F K G N D N L N E K L K R S T I I P N G I D K L W I N S S M I S S K K L D K D S V K I L F V G R I Y S N K N L H N L L S A L E V Y K N C E L T I V G N I V D D K Y F S N L N K K Y K L N Y L G P K S K E E L I E V M N E H D I F A M P S F N E T F G L V Y I E A L S R N L P I L Y T K G E G I Y N Y F D E K K Y G I A V E P G S I T D I R K G I S F I I D N Y D E I Q E N L K D K H F L N N F N W E N I G K V Y E K L Y L G E Y N E * |
Maingene=or0551; Extension FAILED; Comments=Pseudogene, failed extension, extended gene >100aa and >50% and <70% median/second shortest homolog, Blast redone with 250 hits and e-05, extended gene <70% median/second shortest homolog | |
| or0553 - or0554, or0554 | 3254 | 4132 | putative pseudogene |
A
T
T
A
T
T
G
G
T
T
G
T
T
A
T
T
A
T
T
G
G T A T T T A T T T A T T A A A A T A A A G G A T T T G A A T G A T A G T G T T A A T T C T C C A T T G G A A C G T T C T C A T T C A G A A T T G A G A A A A A A C C C T G C T A A A G A A G G G G A T C C A A T G A C A G T A G T A T T G T A T G G T A T A G A T A G T G A T T C T C A A A G A C A A C A A G A A A A T T C A G T T C A A C G T A G C G A T T C T A T T G T C T T A A T G T C T A T A A A C C C A G A A G A T A A A A A A A C T G T A A T G G T A A G T A T A C C G C G T G A T A C A A G A G C A A A A A T A G T C G G T A A A A A T A C A A C T G A A A A A A T A A A T C A C G C A T A C G C A T A T G G C G G G C C T G A T A T G G C T G T G A A A T C A T T G G A A A A A T T G A T G G A T G T A C C T G T A G A T C A T T A T G T T T C C A T T A A T A T G G A T G G C G T T A A G A C T G T T G T A G A T G A A T T A G G T G G T G T A A C T C T A A C A A G T A A T G C T T C T T T T A C A A C A A A G G A T A C T G A A A A T A C C T A T C A A T T T A A A A A A G G T A A A G A A T A C A A A A T G A A T G G T G A A C A A G C T T T A G C T T A T A T G C G T A G T C G T A A A G A A G A A G G C G C G G G C G G A G A T G A A G G A C G T C A A C A A C G T C A A C A A C A A G T C A T C A C T G T A G T T G C T A A A G A A G C C T T G T C T A T A A A T T C G G T T A C C A A G T T A A A T G G C A T T T T C A A A G C T G C A C A A A A T A A C T T G A A A A C T G A T T T A A G C T T T G T T C A G T T A A A T C G T T T A A A A T C A G A T T A T G A T A A G G C T C A A G A T A A T G T A G A A C G C C T A A C A A T T G A T G G T C A A A A C G C C T T G G G T A A T G A T A A T C T A T A T T A T T T C T A T C C T T A T G A A A A T A G T T T A A A A G A T A T T A A A C A G A A A C T A A A A G A T T C T T T A A A A T A G
I
I
G
C
Y
Y
W
Y
L
F
I
K
I
K
D
L
N
D
S
V
N S P L E R S H S E L R K N P A K E G D P M T V V L Y G I D S D S Q R Q Q E N S V Q R S D S I V L M S I N P E D K K T V M V S I P R D T R A K I V G K N T T E K I N H A Y A Y G G P D M A V K S L E K L M D V P V D H Y V S I N M D G V K T V V D E L G G V T L T S N A S F T T K D T E N T Y Q F K K G K E Y K M N G E Q A L A Y M R S R K E E G A G G D E G R Q Q R Q Q Q V I T V V A K E A L S I N S V T K L N G I F K A A Q N N L K T D L S F V Q L N R L K S D Y D K A Q D N V E R L T I D G Q N A L G N D N L Y Y F Y P Y E N S L K D I K Q K L K D S L K * |
Maingene=or0554; Extension SUCCEEDED with start of type NONCANSTART; Comments=For manual analysis, pseudo or non-canonical start codon, extended gene >80% median/second shortest homolog | |
| or0555 - or0555 | 4688 | 5009 | join (4688..4765, 4765..4974, 4974..5009) | pseudogene, missed gene |
t
g
t
t
a
t
t
t
a
t
a
c
c
t
t
t
c
t
a
c
t g a t a c a g a c a g t c a t a c a t t a g a t a t t t g g t t a c g t a a g a a a c g a g a t a g t c a t t t a a a g c a c c t t a t t a a a t a a t t g g g t a a a c c t c a a a t g a t a t a t a c t g a t c a a g c a c c t t c a a c a a a g g t a a c c a t g a c t a a a a t a a a g a a a g t g t t t a a g c t g g a c c c t a a c t g t c a t t g t a t a t c t a a a t a t c t c a a t a a t c t c a t t g a a c a a g a t c a c c g t t a t a t t a a g g t t a g a a a g a c a a a a t a c c a a a g t a t c a a t a c a g c c a a a a a t a c a a t c a a a g g g g t t g a a t g t a t t t a t g g a t g a
C
Y
L
Y
L
S
T
D
T
D
S
H
T
L
D
I
W
L
R
K
K R D S H L K H L I K * L G K P Q M I Y T D Q A P S T K V T M T K I K K V F K L D P N C H C I S K Y L N N L I E Q D H R Y I K V R K T K Y Q S I N T A K N T I K G V E C I Y G * |
Comments=Pseudogene, start/stop is absent |
| or0636 - or0637 | 78332 | 78430 | putative pseudogene, missed gene |
A
T
G
A
T
G
T
G
G
T
G
G
C
A
A
G
A
A
G
G
G A T G A T G A C A C T T A T T A C A G G T G G C T T A C T A A T T A T T T T T C G A C T T T G G T T A G A A C T G A A A T G G A A A A A T A A A A A A T G A
M
M
W
W
Q
E
G
M
M
T
L
I
T
G
G
L
L
I
I
F
R L W L E L K W K N K K * |
Comments=For manual analysis, pseudo, good start found, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or0640 - or0641, or0641 | 83111 | 83302 | putative pseudogene |
A
T
G
G
C
T
G
C
A
C
C
A
T
T
C
T
T
A
A
T
G A C T A A T G C T G A T T A T G T A T G G A C G C C T A T G A C T A C A G T T A C G T T A T T T A T T T T G A G T T T G A T T A T T T T C T T G A T A T T T A T A A A A A C A A A A G A T G T C G T T C A T T T A A C A A T T T T C A T A T T A A A C T T A C T T T T T T C A A T A C T T T A T T G T T T G C C T A T A C T G T T T T A T T T A T G A
M
A
A
P
F
L
M
T
N
A
D
Y
V
W
T
P
M
T
T
V
T L F I L S L I I F L I F I K T K D V V H L T I F I L N L L F S I L Y C L P I L F Y L * |
Maingene=or0641; Extension SUCCEEDED with start of type NOSTART; Comments=For manual analysis, pseudo, failed extension, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or0649, or0649 - or0649 | 1148 | 1312 | pseudogene |
G
T
G
G
A
T
G
C
A
C
A
A
A
A
A
G
C
T
G
T
A A A C T T G T T C A A A C G T A C A A G A A C T G T T G C A A C A C A C C G T A A A G C A C A A A G A G C T G T T A A C T T A A T T C A T T T C C A A C A C A G T T A T G A A A A G A A A A A A T T A C A A A G A C A A A T C G A T C T A G T T T T A A A A T A T A A T A C T T T A A A A T A A
V
D
A
Q
K
A
V
N
L
F
K
R
T
R
T
V
A
T
H
R
K A Q R A V N L I H F Q H S Y E K K K L Q R Q I D L V L K Y N T L K * |
Maingene=or0649; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or0672 - or0673, or0673 | 25173 | 25364 | pseudogene |
G
T
G
A
A
T
G
A
A
A
T
C
A
T
T
A
T
G
C
T
T T T A C G T A C G A T A C C T A C G T C T A A A T T A G T A C A A C C A A T T A T G C A G T T A T T T A T A G A T A A T G C T A T C C T T A A C G C C G T T C A A A A C G A C G C A T T A T T G A T A G A A A A A G C A A C T C A T G C A C G T A A T T A T T T A C G T C T A T G G T C A T T G C A A G G T C A T C G T G A C A T T C C A A A C T A A
V
N
E
I
I
M
L
L
R
T
I
P
T
S
K
L
V
Q
P
I
M Q L F I D N A I L N A V Q N D A L L I E K A T H A R N Y L R L W S L Q G H R D I P N * |
Maingene=or0673; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or0683 - or0684, or0684, or0685 | 31212 | 31820 | join (31212..31301, 31301..31684, 31683..31820) | pseudogene |
g
a
t
g
c
g
t
t
a
c
t
a
g
c
t
a
a
a
c
g
t a a t a a c a c t t t a g a g g a t a a t g a a g a t a a g g a g t t a c t g g a t t g t t t c g a c t a t g t a a t t a a g t a t a a a a a a t a t c c a a c g a g a a a a c g t a a t t a t a a a a t g g t a a a a g c t a t g g t a c a g t t t c a a a t t g c t a a t g g c a t g c g t a t c g g t g a g c t a c t t g c a a t a a a g a g a g a a a a t a t a a a c t a t g a a g a t a a a a c g c t a g a t a t c g a t g g t a c a a t t a a t t g g a t a a c t g a a a a a t g a c g g g a g c a t c c g g a g t a a a g g a g a c a a c t a g a a c a a g t a a c a g c t a t a g g c c t c a c t a t c c a t a g c a t c g a c t t a c t t a a a a g a c t g a t t t t a a a t a a c a a a a a a g a a a a c c t g t g g a a t g a t a a g t t t a t t g a t a g a g a g t a c a t a t t c a c a a a t a c g g c t g g t a g c c c t a t c g a t t t a a a c a a a a t c a g c a a c g t g a t t a a a g g g g g g c g c g c t g a t a t t a g t c c t a t t a t g a a a c c t a t a a c g a c g c a t a c a t t a c a t c a t t c g c a t a t a t c t a c a c t t g c t c a a t t a g g a a t t a a c t t a a a a g c a a t g c a a g a g c a t g t a g g t t a t t c a g a t t a t a a a a a a a t c t a g
D
A
L
L
A
K
R
N
N
T
L
E
D
N
E
D
K
E
L
L
D C F D Y V I K Y K K Y P T R K R N Y K M V K A M V Q F Q I A N G M R I G E L L A I K R E N I N Y E D K T L D I D G T I N W I T E K * R E H P E * R R Q L E Q V T A I G L T I H S I D L L K R L I L N N K K E N L W N D K F I D R E Y I F T N T A G S P I D L N K I S N V I K G G R A D I S P I M K P I T T H T L H H S H I S T L A Q L G I N L K A M Q E H V G Y S D Y K K I * |
Maingene=or0685; Extension SUCCEEDED with start of type ALNSTART; Comments=Pseudogene, frameshift/stopcodon as well as no start codon |
| or0686 - or0687 | 32498 | 32767 | pseudogene, missed gene |
T
T
G
A
G
A
G
T
T
G
C
T
A
A
T
A
T
T
T
T
A A T G C C T T T A G T T A A A A A T A T A A G A A A C A A A T C A G C T C A T A A C C A A C C C A T C A T A G C A A A T C T A A A T T A T G A C A G T A G A T C T C C T C A A T A T T T A T T T G A A A A A G G G A A T A A T A T A G G C A T A T C T A G A A A C A T G T T C G G A A T A A A A A A T T T C A T A G A T A C T T T C G C T A C G C T A G A A T T G C A T A A T C A A G T T T G T A G T A A T G C A A T T A T C C A A G C A A G A T A T C A C G A T T T G G A C C A A C T T C A A A A G C G A T A T
L
R
V
A
N
I
L
M
P
L
V
K
N
I
R
N
K
S
A
H
N Q P I I A N L N Y D S R S P Q Y L F E K G N N I G I S R N M F G I K N F I D T F A T L E L H N Q V C S N A I I Q A R Y H D L D Q L Q K R Y |
Comments=Pseudogene, start/stop is absent | |
| or0041, or0041 - or0042 | 271 | 1155 | putative pseudogene |
T
T
G
T
G
C
G
T
T
G
A
A
C
C
A
G
A
C
A
T
A C T T A A T G A T T C A T A T G T A C T T A T C G A A G T T G A A C C A C T T G T T G A T C C G G A A A T A C T T T G T G A C A T T G A A A T A C T C G C T G A A T T A G A T T C A C T C A T T G A T G T T G A G T C A G A T A C A C T C G T T G A A C C A G A T G T A C T T A A G G A A C T A G A C G T A C T C G A T G A G T C A G A T A C G C T C G T T G A A C C T G A A C C A G A C G T A C T T A A T G A T T C T G A T A C G C T T G T T G A A C C T G A A T T A G A C G T A C T C A A C G A T T C A G A T A C G C T T G T T G A A C C T G A A T T A G A C G T A C T T A A T G A T T C T G A T G T G C T T G T T G A A G T T G A A C C A C T T G T T G A G C C A G A T G T G C T T A A T G A T A A T G A T G T A C T T G T C G A G T C C G A T G T G C T T G T C G A T G T C G A G T C T G A G C C A G A T G T A C T C A A T G A T T C T G A G T C A C T G A T A G A A G T T G A A T C A C T T G T A G A T T C T G A T T C T A C A G C A C T T T G T G A A C C A C T G A T A C T T A T T G A A G T C G A A T C A C T T A T A C T G T C T G A T G T T G A T A A T G A C G T C G A C A C C G A C G T G C T T T G T G A T G T C G A T G T A C T T G C A C T T G C T G A C A T T G A T A A T G A T A T C G A T G T G C T T A A C G A A C C T G A T G C G C T T G T G C T T G T T G A C T G G C T T T G T G C C A T A G A A T C A C T T A G C G A C T C T G A T G T A C T C G C T G A G C T C G A G T C A C T T A C A C T T A T T G A A C C T G A T A T T G A G T C A C T T A A A C T T G T C G A T G T T G A A A C T G A T A C G C T T C C G C T C A T T G A A T C A G A T G T T G A A A G T G A T G T A C T C G T T G A A T T T G A T C C A C T G A T G C T A A A C G A A T C G C T T G T A G A C A T T G A G T C A C T T T C T G A T G C A C T G A T G C T C A T A G A G T C A A A T T G A
L
C
V
E
P
D
I
L
N
D
S
Y
V
L
I
E
V
E
P
L
V D P E I L C D I E I L A E L D S L I D V E S D T L V E P D V L K E L D V L D E S D T L V E P E P D V L N D S D T L V E P E L D V L N D S D T L V E P E L D V L N D S D V L V E V E P L V E P D V L N D N D V L V E S D V L V D V E S E P D V L N D S E S L I E V E S L V D S D S T A L C E P L I L I E V E S L I L S D V D N D V D T D V L C D V D V L A L A D I D N D I D V L N E P D A L V L V D W L C A I E S L S D S D V L A E L E S L T L I E P D I E S L K L V D V E T D T L P L I E S D V E S D V L V E F D P L M L N E S L V D I E S L S D A L M L I E S N * |
Maingene=or0041; Extension FAILED; Comments=For manual analysis, pseudo, failed extension, extended gene >100aa and >50% and <70% median/second shortest homolog, Blast redone with 250 hits and e-05, extended gene <70% median/second shortest homolog | |
| or0043, or0043 - or0046 | 2551 | 3351 | putative pseudogene |
A
T
G
C
T
C
A
T
T
G
A
T
G
T
T
G
A
A
T
C
G G A T T T A C T T T C A C T T G A T G A T G T T G A G T C G G A T T C A C T T T C A C T T G T A G A A C C A C T T A A T G A T G T G G A T G T A C T A A T G G A A T C A G A T T T A C T T G T A C T G A T T G A A T C A C T T G T C A A C A T T G A T G T A C T T A A T G A A T C A G A C T T A C T A T C A C T T G T G G A A T C A C T T A A T G A T G T T G A C A G A C T T A T A G A G T C A G A C A A A C T T G T A C T C G T T G A C G T A C T C A G T G A T G T T G A A A C A C T C T C G C T C T T A A A C G T T G A C G T T G A T T C A C T G T T A C T T G T C G A T G T T G A A A T G A A C G C A C T A C C A C T T G T T G A A T T A C T T A A T G A T G T T G A A G T G C T A C C A G A T T C T G A T G T A C T G T C T G A T A A T G A C G T A C T C G C A C T T G T C G A A C T A C T C A C T G A C T C T G A T G T T G A T T C A G A C G T A C T T A C A C T T A A T G A T T C A C T T A A A A A G G C A G A T G C A C T T T G T G A T T C T G A A T C G C T A A T A C T A T T T G A T T C A C T T A A T G A T A T A G A C G T G C T C T C T G A A G C A G A T A T T G C T T C A C T G A T A G A G T C G C T C G T T G A C G T T G A T T C A C T T A T T G A A T C A G A C T C T G A T G T A C T T A A A C T T G T G G A A T C A C T C A T A G A T G T T G A T G T G C G T T C T G A A T T A C T T G T A C T T A A C G A T G T C G A A G T A C T T A C C G A A C C A G A T G T A C T T G T T G A G A C A C T T T G T G A T A T T G A T T C A C T C G A T G C A G T T G A T G C T G A T T T A C T A T C A C T C G T T G A A T C A C T A A A C G A C G T T G A T A T G C T C G T T G A A T C G G A T T G A
M
L
I
D
V
E
S
D
L
L
S
L
D
D
V
E
S
D
S
L
S L V E P L N D V D V L M E S D L L V L I E S L V N I D V L N E S D L L S L V E S L N D V D R L I E S D K L V L V D V L S D V E T L S L L N V D V D S L L L V D V E M N A L P L V E L L N D V E V L P D S D V L S D N D V L A L V E L L T D S D V D S D V L T L N D S L K K A D A L C D S E S L I L F D S L N D I D V L S E A D I A S L I E S L V D V D S L I E S D S D V L K L V E S L I D V D V R S E L L V L N D V E V L T E P D V L V E T L C D I D S L D A V D A D L L S L V E S L N D V D M L V E S D * |
Maingene=or0043; Extension FAILED; Comments=For manual analysis, pseudo, failed extension, extended gene >100aa and >50% and <70% median/second shortest homolog, Blast redone with 250 hits and e-05, extended gene <70% median/second shortest homolog | |
| 0 | 0 |
|
||||
| or0 - or0696, or0696 | 122 | 304 | pseudogene |
A
T
G
T
T
G
G
G
G
A
A
A
T
A
C
T
A
T
A
A
G T T A T T T A C A G A T A A G C A T G A T A T T A A C G G C A A T G T G C C T A T A T T C A T T A A C A T T G G T G A A T G G G A C G G A G A C G A T G A G G A A T T A G A T A A G G C A G T G A A A G A T G T A T C T A A C G C T A A T C C T A A T C A T A C T G T G A T T G T G G A T G A T A T A C C G T T A G A G G A T T A A
M
L
G
K
Y
Y
K
L
F
T
D
K
H
D
I
N
G
N
V
P
I F I N I G E W D G D D E E L D K A V K D V S N A N P N H T V I V D D I P L E D * |
Maingene=or0696; Extension FAILED; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or0767, or0768 | 53706 | 54968 | pseudogene |
G
T
G
T
A
T
A
A
T
T
A
T
C
A
T
T
T
A
T
T
A G A A G A T A G G G A T G T T C T A T G T A T T G A C C A A A A A A G T T T T T T T G C G A G T G T T T C T T G T A T T G A A A A G G G G C T A G A T C C A T T A G A A A C A A A G T T A G C T G T T G T T G C A G A T A C T A A G C G T C A G G G T T C T G T A G T A T T G G C T G C G A C A C C T A A A T T A A A A G A A T T A G G C A T C A A G A C A G G A T C G A G A T T G T T T G A A A T A C C A C A T A G A A A T G A T A T T T A C A T T A T C A A T C C A A G T A T G C G T A A A T A T C T T A A T G T T T C A G T T G C T A T T T C T A A G A T T G C A T T G C G T T A T A T T C C A C C T G A A G A T T T A C A C C A A T A T A G T A T T G A C G A A T T T T T T A T G G A T G T T A C T G A T A G C T A T C A T A G A T T T A G T T C T A C A G T A C A T G C A T T T T G C G A A A G A C T T A A A C G T G A A A T T T A T G A A G A A A C A G G C A T T T A T T G T A C T G T G G G C A T T G G T T C T A A T A T G T T A T T A A G T A A A A T T G C T A T G G A T G T T G A A G C G A A G C A T A G T C A A A A T G G T A T A G C T G A A T G G C G A T A T C A A G A T G T A C C A A C G A A A T T A T G G C C A A T T C A G C C C T T G A G A G A T T T T T G G G G T A T T A A T C G T C G A A C A G A A G C C A A A T T G A A T A A A A G A G G G A T T T T T A C T A T A G G A G A T T T A G C A A A A T A T C C A T A T A A A T T T T A A A A A A A A G A G T T C G G T A T T T T A G G T G T T G A T A T G C A T C T A C A T G C G A A T G G G A T A G A T C A G A G T A A A G T A C G T G A A A A G C A T A A G A T T A G C A A T C C A T C G A T A T G C A A A A G T C A A A T A T T A A T G A G A G A T T A T C A T T T T G A T G A A G C A A A A G T A G T A A T G C A A G A G T T A A T T G A A G A T G T T G C T A G C A G A G T T C G A G C A A G A A A A A A A G T G G C A A G A A C G A T A C A T T T T G C C T T T G G C T A T A G T G A T G A A G G C G G T G T A C A T A A G C A A T A T A C T T T G A A A G A T C C A A C A A A C T T A G A A A A A G A T A T T T A T A A A G T A G T A A T G C A T T T C G C A G A T A A A T T A T G T A A T A A A C A A G C A C T A T A T C G T A C G C T A A G T A T A T C T T T G A G T C A A T T T A T T A A T G A G G A T G A G C G A C A G T T A A G T C T G T T T G A A G A T G A A T A C C A A C G C A A A C G T G A C G A A T G T C T A G C T A A A A C G A T A G A C C A A T T A T A T T T G A A A T A C G G C A A A G G T A T T G T G T C T A A A G C A G T A T C G T T T A C A G A A G C A G G T A C A A A A C A C G G C A G A T T A G G T T T A A T G G C T G G A C A T A A A A T G T A A
V
Y
N
Y
H
L
L
E
D
R
D
V
L
C
I
D
Q
K
S
F
F A S V S C I E K G L D P L E T K L A V V A D T K R Q G S V V L A A T P K L K E L G I K T G S R L F E I P H R N D I Y I I N P S M R K Y L N V S V A I S K I A L R Y I P P E D L H Q Y S I D E F F M D V T D S Y H R F S S T V H A F C E R L K R E I Y E E T G I Y C T V G I G S N M L L S K I A M D V E A K H S Q N G I A E W R Y Q D V P T K L W P I Q P L R D F W G I N R R T E A K L N K R G I F T I G D L A K Y P Y K F * K K E F G I L G V D M H L H A N G I D Q S K V R E K H K I S N P S I C K S Q I L M R D Y H F D E A K V V M Q E L I E D V A S R V R A R K K V A R T I H F A F G Y S D E G G V H K Q Y T L K D P T N L E K D I Y K V V M H F A D K L C N K Q A L Y R T L S I S L S Q F I N E D E R Q L S L F E D E Y Q R K R D E C L A K T I D Q L Y L K Y G K G I V S K A V S F T E A G T K H G R L G L M A G H K M * |
Comments=Pseudogene, TAA stop codon seen in alignment | |
| or0782, or0782 - or0783 | 68554 | 68802 | pseudogene |
A
T
G
A
T
T
G
C
A
T
T
A
C
T
C
T
T
T
A
C
A G C T A G T C C A G A A G C A G C A A A T A A A C A T A T A A C C A T G T T A A A C G A A G T T G A A G A A G A C T A T C A C T T A C G C A G A A A T A T G T G G A T T G A T T C T C T T A A A G A A A T G A T T A A T G A T A T G A G T G A A G A A G A A C T C C G C G A T G C A T A T T T A A A C A T G T T A A T T G A A C A T G G A G A A A T G G C A G A A T T A T T T G G A T T A G A T G A A G A G G A C G A A A T G T T C G A G G A C G A A T T T T A T T A A
M
I
A
L
L
F
T
A
S
P
E
A
A
N
K
H
I
T
M
L
N E V E E D Y H L R R N M W I D S L K E M I N D M S E E E L R D A Y L N M L I E H G E M A E L F G L D E E D E M F E D E F Y * |
Maingene=or0782; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or0782 - or0783, or0783 | 69055 | 69756 | pseudogene |
A
T
G
A
T
T
G
A
G
T
T
A
A
A
A
C
A
T
G
T
G A C T T T T G G T T A T A A T A A A A A G C A G A T G G T G C T A C A A G A T A T C A A T A T T A C T A T A C C C G A T G G A G A A A A T G T T G G T A T T T T A G G A G A A A G T G G C T G T G G T A A A A G T A C G C T C G C T T C A T T G G T T C T T G G C T T A T T T A A A C C T G T T A A A G G A G A A A T T T A C T T A A G T G A C A A T G C A G T G T T A C C G A T T T T C C A A C A C C C T T T A A C T A G C T T T A A C C C T G A T T G G A C G A T T G A G A C C T C A T T A A A A G A A G C G T T A T A T T A T T A C A G A G G C C T A A C T G A T A A T A C T G C T C A G G A T C A A T T A T T A A T A C A A C A T T T A T C T A C T T T T G A G T T G A A C G C G C A A T T A T T G A C T A A A T T A C C A A G C G A A G T G A G T G G C G G A C A A T T A C A A A G A T T T A A T G T C A T G C G T T C G T T A T T A G C A C A G C C T C G C G T T T T A A T A T G T G A T G A G A T A A C T T C A A A T T T A G A T G T T A T A G C T G A A C A A A A T G T A A T A A A T A T A T T A A A A G C G C A A A C G A T T A C G A A C T T A A A T C A T T T T A T C G T T A T T T C T C A T G A T T T A T C C G T G T T A C A A C G C T T A G T C A A T A G A A T T A T C G T T C T T A A G G A T G G C A T G A T A G T C G A T G A T T T T A C A A T A G A G G A A T T A T T T A A T G T T G A T A G A C A C T C T T A T A C A A A A G A A T T A G T G C A A G C A T T T T C A T A T T A G
M
I
E
L
K
H
V
T
F
G
Y
N
K
K
Q
M
V
L
Q
D
I N I T I P D G E N V G I L G E S G C G K S T L A S L V L G L F K P V K G E I Y L S D N A V L P I F Q H P L T S F N P D W T I E T S L K E A L Y Y Y R G L T D N T A Q D Q L L I Q H L S T F E L N A Q L L T K L P S E V S G G Q L Q R F N V M R S L L A Q P R V L I C D E I T S N L D V I A E Q N V I N I L K A Q T I T N L N H F I V I S H D L S V L Q R L V N R I I V L K D G M I V D D F T I E E L F N V D R H S Y T K E L V Q A F S Y * |
Maingene=or0783; Extension FAILED; Comments=Pseudogene, failed extension, extended gene >100aa and <50% median/second shortest homolog | |
| or0837, or0837 - or0838 | 122029 | 122649 | pseudogene |
A
T
G
C
G
T
C
A
C
T
T
T
A
G
T
A
A
T
A
A
T T T C G G T A A T G T T A T T A A A A A C G C T A T T G G T G T G G T G G G T A T C T C T G G C T T A C T A G C T A G T T T C T G G T T C T T C A T T G C C A A A C G T C G T C G T A A A G A A G A T G A A G A G G A A G A A T T A G A A A T A A G A G A T A A T A A T A A A G A T T C A A T A A A A G A G A C T T T A G A C G A T A C A A A A C A T T T A C C A C T T T T A T T T G C G A A A C G T C G C A G A A A A G A A G A T G A A G A A G A T G T T A C T G T T G A A G A A A A A G A T T C G T T A A A C A C T G G C G A G T C A C T C G A T A A A G T T A A A C A T A C G C C G T T C T T C T T A C C A A A A C G C C G T C G T A A A G A A G A T G A A G A A G A T G T G G A A G T T A C A A A T G A A A A C A C A G A T G A A A A A G T G T T G A A A G A T A A C G A A C A T T C A C C A C T C T T A A T C G C A A A A C G A C G C A A A G A T A A A G A G G A A G A T G T T G A A A C A A C A A C T A G T A T T G A A T C T A A A G A T G A G G A C G T T C C T T T A T T A T T G G C T A A A A A G A A A A A T C A A A A A G A T A A C C A A T C C G A A G A C A A A A A G T C A G C A T C A A A A A A T A C T T C T A A A A A G G T A G C A G C T A A A A A G A A G A A A A A G A A A T C T A A G A A A A A T A A A A A A T A A
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I S G L L A S F W F F I A K R R R K E D E E E E L E I R D N N K D S I K E T L D D T K H L P L L F A K R R R K E D E E D V T V E E K D S L N T G E S L D K V K H T P F F L P K R R R K E D E E D V E V T N E N T D E K V L K D N E H S P L L I A K R R K D K E E D V E T T T S I E S K D E D V P L L L A K K K N Q K D N Q S E D K K S A S K N T S K K V A A K K K K K K S K K N K K * |
Maingene=or0837; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene >100aa and <50% median/second shortest homolog | |
| or0839 - or0841, or0841 | 148115 | 152893 | pseudogene |
G
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T C A A A A G T T T A G T A T T C G T A A A T A T A C A G T T G G T A C A T T T T C A A C T G T C A T T G C G A C A T T G G T A T T T T T A G G A T T C A A T A C A T C A C A A G C A C A T G C T G C T G A A A C A A A T C A A C C A G C A A G C G T G G T T A A A C A G A A A C A A C A A A G T A A T A A T G A A C A G A C T G A G A A T C G A G A A T C T C A A G C A C A A A A T T C T C A A A A T T C A C A A A A T G G T C A A T C A T T A T C T G C T A C T C A T G A A A A T G A G C A A C C A A A T A T T A G T C A A G C T A A T T T A G T A G A T C A A A A A G T A G C G C A A T C A A C T A C T A C T A A T G A T G A A C A A C C A G C A T C T C A A A A T G T A A A T A C A A A G A A A G A T T C G G C A A C G G C T G C G A C A A C A C A A C C A G A T A A A G A A G A A A T T A A G C A T A A A C A A A A C G A A A G T C A A T C T G C T A A T A A A A A T G G A A A C G A C A G T A G A G C G G C T C A T G T A G A A A A T C A T G A A G C A A A T G T A G T A A C A G C T T C A G A T T C A T C T G A T A A T G G T A A C G T A C A A C A T G A C C G A A A T G A A T T A C A A G C A T T T T T T G A T G C A A A T T A T C A T G A T T A T C G C T T T A T T G A C C G T G A A A A T A C A G A T T C T G G C A C A T T T A A C T A T G T A A A A G G C A T T T T T G A C A A G A T T A A T A C G T T A T T A G G T A G T A A T G A T C C A A T T A A C A A T A A A G A C T T G C A A C T T G C A T A C A A A G A A T T G G A A C A A G C T G T T G C T T T A A T T C G T A C A A T G C C T C A A C G T C A A C A A A C T A G C C G T C G A T C A A A T A G A A T T C A A A C G C G T T C G G T T G A G T C A A G A G C T G C A G A G C C T A G A T C A G T A T C A G A C T A T C A A A A T G C A A A C T C A T C A T A T T A T G T T G A A A A T G C T A A T G A T G G T T C G G G C T A T C C T G T T G G T A C A T A T A T C A A T G C T T C T A G T A A A G G G G C G C C A T A T A A T T T A C C A A C T A C A C C A T G G A A T A C A T T G A A G G C C T C T G A C T C A A A G G A A A T T G C T C T T A T G A C A G C G A A A C A A A C T G G A G A T G G C T A C C A A T G G G T T A T T A A G T T T A A T A A A G G A C A T G C T C C A C A T C A A A A T A T G A T T T T C T G G T T T G C A T T A C C A G C A G A C C A A G T G C C A G T A G G A A G A A C T G A C T T T G T A A C A G T T A A T T C A G A T G G A A C A A A T G T A C A A T G G A G T C A T G G A G C A G G A G C A G G T G C A A A T A A A C C A C T T C A A C A A A T G T G G G A A T A T G G A G T A A A T G A T C C T G A T C G T T C A C A T G A C T T T A A A A T A A G A A A T A G A A G T G G C C A A G T A A T A T A T A G C T G G C C A A C T G T C C A T G T T T A T T C T T T A G A A G A T T T A T C T A G A G C G A G T G A T T A T T T T A G T G A A G C T G G A G C A A C A G C T G C T A C T A A A G C A T T T G G T A G A C A A A A T T T T G A A T A T A T T A A T G G T C A A A A A C C T G C T G A A T C A C C G G G T G T T C C T A A A G T T T A T A C T T T C A T C G G T C A A G G T G A T G C A A G T T A T A C A A T T T C G T T T A G A A C G C A A G G T C C A A C A A C A A A T A A A T T G T A C T A T G C A G C A G G T G G G C G T G C T T T A G A G T A C A A T C A A T T A T T T A T G T A C A G T C A A C T A T A C G T C G A A T C A A C G C A A G A C C A T C A A C A A C G T C T T A A T G G T T T A A G A C A A G T G G T T A A T C G T A C A T A T C G C A T A G G T A C A A C T A A A C G T G T A G A A G T G A G T C A A G G A A A T G T A C A A A C G A A A A A G G T A T T A G A A A G T A C A A A C C T A A A T A T A G A T G A T T T T G T T G A T G A T C C T T T A A G T T A T G T T A A G A C G C C G A G T A A T A A A G T G T T A G G T T T T T A C C C A A C T A A T G C A A C T A C T A A C G C T T T T A G A C C G G G G G G C G T T C A A G A A T T A A A T G A A T A T C A A T T A A G T C A A T T A T T T A C T G A T C A A A A A T T A C A A G A A G C A G C A A G A A C T A G A A G C C C A A T A A G A T T A A T G A T T G G A T T T G A C T A T C C T G A T G C T T A T G G T A A C A G T G A A A C T T T A G T T C C T G T T A A C T T A A C G G T A T T A C C T G A A A T C C A A C A T A A T A T T A A A T T C T T T A A A A A T G A C G A T A C T C A A A A T A T T G C T G A A A A A C C A T T T T C A A A A C A A G C T G G G C A T C C A G T T T T C T A T G T A T A T G C A G G T A A C C A A G G G A A T G C T T C C G T G A A T T T A G G T G G T A G C G T A A C A T C T A T T C A A C C A T T A C G T A T T A A T T T A A C A A G T A A T G A G A A T T T T A C A G A T A A A G A T T G G C A A A T T A C A G G T A T T C C G C G T A C A T T A C A C A T T G A A A A C T C G A C A A A T A G A A C T A A T A A T G C T A G A G A A C G T A A C A T T G A A C T T G T T G G T A A T T T A T T A C C A G G G G A T T A C T T T G G T A C G A T A C G T T T T G G A C G T A A A G A A C A A T T A T T T G A A A T T C G T G T T A A A C C A C A T A C A C C A A C A A T T A T A A C G A C A G C T G A G C A A T T A A G A G G T A C A G C A T T A C A A A A A G T T C C T G T T A A T A T T T C G G G A A T A C C G T T G G A T C C A T C A G C A T T G G T T T A T T T A G T T G C G C C A A C A A A T C A A A C T A C G A A T G G T G G T A G T G A G G C A G A T C A A A T A C C A T C T G G T T A T A C G A T A C T T G C G A C T G G T A C A C C T G A T G G G G T A C A T A A C A C A A T T A C T A T A C A A C C A A A A G A T T A C G T A G T A T T T A T A C C A C C A G T A G G T A A A C A A A T T A G A G C A G T A G T T T A T T A T A A T A A A G T A G T T G C A T C T A A T A T G A G T A A T G C T G T T A C T A T T T T G C C A G A T G A C A T T C C A C C A A C A A T C A A T A A T C C T G T T G G A A T A A A T G C G A A A T A T T A T C G T G G T G A T G A A G T T A G C T T T A C T A T G G G G G T T T C A G A T A G A C A T T C T G G A T T A A A A A G T A C A A C T A T T A C G A C A T T G C C A A G T G G T T G G A C A T C A A A T T T A A C T A A A T C C G A C A A C A A A A A C G G C T C A T T A T C T A T T A C T G G T A G A G T G A G T A T G A A T C A G G C A T T T A A C A G T G A T A T T A C A T T T A A A G T G T C A G C G A C A G A T A A T G T C A A T A A T A C G A C A A A T G A T A G T C A A T C T A A A C A T G T G T C A A T T C A T G T A G G T A A A A T T A G T G A A G A T G C T C A T C C G A T T G T A T T A G G A A A T A C T G A G A A A G T T G T A G T A G T C A A T C C G A C T G C T G T A T C T A A C G A T G A A A A G C A A A A C A T A A T T A C T G C C T T T A T G A A T A A A A A C C A A A A T A T A A G A G G A T A T T T A G C A T C A A C T G A T C C A A T A A C A G T C G A T A A T A A T G G T A A T G T C A C A T T A C A T T A C C G T G A T G G C T C A T C A A C A A C G C T T G A T G C T A C A A A T G T G A T G A C A T A C G A A C C A G T T G T G A A A T C T G A A T A T C A A A C T G C C A A T G C T G C T A A A A C A G C A A C G G T A A C G A T T G C T A A A G G A C A A T C A T T T A A T A T T G G T G A T A T T A A A C A A T A T T T T A C T T T A A G T A A T G G A C A A G C T A T T C C A A G T G G A A C A T T T A C A A A T A T T A A A T C T G A T A G A A C T A T T C C A A C T G C A C A A G A A G T T A G T C A A A T G A A T G C A G G T A C A C A G C T A T A T C A T A T A G T T G C T T C A A A T G C A T A T C A T A A A G A C A C T G A A G A T T T C T A T A T T A G T T T A A A A A T C G T T G A T G T G A A A C A A C C T G A A G G C G A T C A A C G T G T A T A T C G T A C G T C A A C A T A T G A T T T A A C T A C T G A T G A A A T C T C A A A A G T A A A A C A A G C T T T T A T T A A T G C A A A T A G A G A T G T A A T T A C T C T T G C C G A A G G T G A T A T T T C A G T T A C A A A T A C A C C T A A T G G T G C T A A T G T A A G T A C T A T T A C A G T A A A T A T T A A T A A A G G T C G A T T A A C G A A A T C A T T C G C G T C T A A C C T A G C T A A T A T G A A T T T C T T G C G T T G G G T T A A T T T C A C A C A A G A T T A T A C A G T G A C A T G G A C G A A T G C A A A A A T T G C A A A C A G A C C A A C A G A T G G T G G T T T A T C A T G G T C C G A T G A C C A T A A A T C T T T A A T T T A T C G T T A T G A T G C T A C A T T A G G C A C A C A A A T T A C A A C T A A T G A T A T T T T A A C G A T G C T A A A A G C G A C T A C T A C A G T G C C T G G T T T G C G T A A T A A T A T T A C T G G T A A T G A A A A A G C A C A A G C A G A A G C A G G T G G A A G A C C A A A C T A T A G A A C A A C T G G T T A T T C A C A A G C A A A T G C A T C A T C T G A T G G C C A A A G A C A A T A T A C G T T G A A T G G T C A A G T G A T T C A A A T A T T A G A C A T C A T C A A C C C T T C A A A C G G T T A T G G T G G G C A A C C T G T T A C A A A T T C A A A T A C T C G T G C A A A C C A T A G T A A C G C A A C T G T T G T T A A T G T A A A C G A A C C G G C A G C T A A T G G T G C T G G C G C A T T T A C A A T T G A C C A C G T T G T A A A A A G T A A T T C T A C A C A T A A T G C A A G T G A T G C A G T T T A T A A A G C A C A G T T A T A C T T A A C G C C A T A T G G G C C A A A A C A A T A T G T T G A A C A T T T A A A T C A A A A T A C G G G A A A T A C T A C T G A T G C T A T T A A C A T T T A T T T T G T A C C A A G T G A T T T A G T G A A T C C A A C A A T T T C A G T A G G T A A T T A C A C T A A T C A T C A A G T G T T C T C A G G T G A A A C A T T T A C A A A C A C T A T T A C A G C G A A T G A T A A C T T T G G T G T G C A A T C G G T A A C T G T A C C A A C T A C A T C A T A A A T T A C A G G T A C T G T T G A T A A T A A C C A T C A A C A T G T T T C A G C A A C A G C A C C A A A T G T G A C A T C A G C A A C T A G T A A G A C A A T C A A T T T A T T A G C A A C T G A T A C A A G T G G T A A T A C A G C T A C A A C T T C A T T C A A T G T A A C A G T G A A A C C T T T G C G T G A T A A A T A T C G A G T T G G T A C T T C A T C A A C G G C T G C T
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S T V I A T L V F L G F N T S Q A H A A E T N Q P A S V V K Q K Q Q S N N E Q T E N R E S Q A Q N S Q N S Q N G Q S L S A T H E N E Q P N I S Q A N L V D Q K V A Q S T T T N D E Q P A S Q N V N T K K D S A T A A T T Q P D K E E I K H K Q N E S Q S A N K N G N D S R A A H V E N H E A N V V T A S D S S D N G N V Q H D R N E L Q A F F D A N Y H D Y R F I D R E N T D S G T F N Y V K G I F D K I N T L L G S N D P I N N K D L Q L A Y K E L E Q A V A L I R T M P Q R Q Q T S R R S N R I Q T R S V E S R A A E P R S V S D Y Q N A N S S Y Y V E N A N D G S G Y P V G T Y I N A S S K G A P Y N L P T T P W N T L K A S D S K E I A L M T A K Q T G D G Y Q W V I K F N K G H A P H Q N M I F W F A L P A D Q V P V G R T D F V T V N S D G T N V Q W S H G A G A G A N K P L Q Q M W E Y G V N D P D R S H D F K I R N R S G Q V I Y S W P T V H V Y S L E D L S R A S D Y F S E A G A T A A T K A F G R Q N F E Y I N G Q K P A E S P G V P K V Y T F I G Q G D A S Y T I S F R T Q G P T T N K L Y Y A A G G R A L E Y N Q L F M Y S Q L Y V E S T Q D H Q Q R L N G L R Q V V N R T Y R I G T T K R V E V S Q G N V Q T K K V L E S T N L N I D D F V D D P L S Y V K T P S N K V L G F Y P T N A T T N A F R P G G V Q E L N E Y Q L S Q L F T D Q K L Q E A A R T R S P I R L M I G F D Y P D A Y G N S E T L V P V N L T V L P E I Q H N I K F F K N D D T Q N I A E K P F S K Q A G H P V F Y V Y A G N Q G N A S V N L G G S V T S I Q P L R I N L T S N E N F T D K D W Q I T G I P R T L H I E N S T N R T N N A R E R N I E L V G N L L P G D Y F G T I R F G R K E Q L F E I R V K P H T P T I I T T A E Q L R G T A L Q K V P V N I S G I P L D P S A L V Y L V A P T N Q T T N G G S E A D Q I P S G Y T I L A T G T P D G V H N T I T I Q P K D Y V V F I P P V G K Q I R A V V Y Y N K V V A S N M S N A V T I L P D D I P P T I N N P V G I N A K Y Y R G D E V S F T M G V S D R H S G L K S T T I T T L P S G W T S N L T K S D N K N G S L S I T G R V S M N Q A F N S D I T F K V S A T D N V N N T T N D S Q S K H V S I H V G K I S E D A H P I V L G N T E K V V V V N P T A V S N D E K Q N I I T A F M N K N Q N I R G Y L A S T D P I T V D N N G N V T L H Y R D G S S T T L D A T N V M T Y E P V V K S E Y Q T A N A A K T A T V T I A K G Q S F N I G D I K Q Y F T L S N G Q A I P S G T F T N I K S D R T I P T A Q E V S Q M N A G T Q L Y H I V A S N A Y H K D T E D F Y I S L K I V D V K Q P E G D Q R V Y R T S T Y D L T T D E I S K V K Q A F I N A N R D V I T L A E G D I S V T N T P N G A N V S T I T V N I N K G R L T K S F A S N L A N M N F L R W V N F T Q D Y T V T W T N A K I A N R P T D G G L S W S D D H K S L I Y R Y D A T L G T Q I T T N D I L T M L K A T T T V P G L R N N I T G N E K A Q A E A G G R P N Y R T T G Y S Q A N A S S D G Q R Q Y T L N G Q V I Q I L D I I N P S N G Y G G Q P V T N S N T R A N H S N A T V V N V N E P A A N G A G A F T I D H V V K S N S T H N A S D A V Y K A Q L Y L T P Y G P K Q Y V E H L N Q N T G N T T D A I N I Y F V P S D L V N P T I S V G N Y T N H Q V F S G E T F T N T I T A N D N F G V Q S V T V P T T S * I T G T V D N N H Q H V S A T A P N V T S A T S K T I N L L A T D T S G N T A T T S F N V T V K P L R D K Y R V G T S S T A A |
Maingene=or0841; Extension SUCCEEDED with start of type START; Comments=Pseudogene, normal stop not found. For manual analysis, putative pseudo, gene has hits to fusion genes | |
| or0892 - or0893 | 207977 | 208381 | complement (join (207977..208243, 208245..208313, 208313..208381)) | pseudogene, missed gene |
G
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A
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A G A C A T A G C A G A A T T G A A C G G T T A T T G G G T T T A T C A A G A T A T A A A T G A A A T G A T A G A T T T T A A A G T A A A T G A A A A A C G G T T C A A A C A A A T A G A A A A T T A T A A T A T G A A A G G T A C A C C T A A T A T A G A A A T A T A C G A G T T T C T T G A T A A T C A G G G G A A T C T A A C T G G T C A A C A G A T A A T A A T C T A T T A A G A A A C T T C A A A T G A G G C A G T A A A T A C T A A T A A C C C A T T G A A A T C T T T A G G T A A T G G A T A T G A T T G G C T T C A A A A T G C T A A A T C A A T G G A T A A T T A A A T A A A A T T C A G A G A T T G T T T A A C G C A A G T A G A T G T A T T T G A A G A T T T A T A T A G A G C T A A A C T A A A T G A A G C A A A T A A A T T A G G T T A G T A T A A T T A T T T G T A A
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I N E M I D F K V N E K R F K Q I E N Y N M K G T P N I E I Y E F L D N Q G N L T G Q Q I I I Y * E T S N E A V N T N N P L K S L G N G Y D W L Q N A K S M D N * I K F R D C L T Q V D V F E D L Y R A K L N E A N K L G * Y N Y L * |
Comments=Pseudogene, >1 frameshift are present. Found common hit with non-adjoining gene: or0894 |
| or0908, or0908 - or0909 | 221218 | 221406 | putative pseudogene |
G
T
G
T
T
T
G
A
A
G
A
A
T
T
T
A
C
A
G
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G C T G G A T A T T T T A G G C G A T A T T T C T G T A G A T C A A A T T T C A G A C A G T A C A T T A T A T T A T A C T T G T G A A A A A T T C A A A C T A C T T G T G T T G C A A G G A A A T G T G C T G G G T G T A C A A A T A A T A A C T A A T A A T G A T G A A T C A A C A T G C G A A G T G A A A T A T A G A A A G A T G T T T T A A
V
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E
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D S T L Y Y T C E K F K L L V L Q G N V L G V Q I I T N N D E S T C E V K Y R K M F * |
Maingene=or0908; Extension SUCCEEDED with start of type NOSTART; Comments=For manual analysis, pseudo, failed extension, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or0918 - or0919 | 230628 | 230846 | pseudogene, missed gene |
A
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G
A
A
A
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A
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T
C
A
A
A
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T T T T C G T A T T T T C T A T G T C A A C T T A A C T G G G T G T A G C T C A C A T T G T C C A T T A G A A T G T A T A A C T A A C A T A A T A A A A T T A A T T A A A C G T A C A T C A T T T G A T T A T G G A A G T T A C A A T C A T T T G C G C A A T C G A A T A T T A T T A T G T T C A A A A C T T T A A G C T C C A A A A A C T A A A A A G A A A G T T A T A C A A T G T T T A G T T G C C T A A
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H C P L E C I T N I I K L I K R T S F D Y G S Y N H L R N R I L L C S K L * A P K T K K K V I Q C L V A * |
Comments=Pseudogene, TAA stop codon in frame | |
| or0921, or0922 | 231827 | 233043 | complement (join (231827..232432, 232432..233043)) | putative pseudogene |
A
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A
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A
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A
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G T T T A A T A A A A A C T T T A C T T T T T A T T T A A T A G G G G T A G C T T T T T C T A A C A T G G G C A G T G C T T T T A C T A C G T T T G T T T T T C C T T T A A T G A T T T T A A A G C T T A C T G G C T C T G C A T T T C A A G T T G G C A T A G T T T C T G C A C T A A G T T T T A T A C C T T A T G C A A T T T T A G G A T T G C C A G C T G G T G T T T T A A T T G A C A G A T T G A A T A A G A A G A G C A T A A T G A A A T G T G C T G A T A T A A T T A G G T T C G T T T C A T A T T T A A G T A T A C C A G T A T T A A G T T T T T T C A A T A T G T T A A G C A T C T T T C A A A T T T A T G T A G T T G C A A T C A T T T C A G G T A T T G G A T T A G T A T T T C A C A G T A T T T C T G A G G T T T C G A T A A T C C C T A G T A T T G T A A A A G A A G A A G A T T T G G C G A G T G C A A A C A G T T A T A T A T A C G C T A C T C A A A A T G T T T C G G A A T T T T T G G G C C C T A T A A T T G G A G G T T T A C T T T A T A C A T A T A T G G G A T A T T C A A T A T T A A T T T T T A T A G A T T C T A T G A C T T T T T T A C T C T C G T T T T T C A G T T T G A T A T T A A T T A A A A T T G A A A G T A A G A G T A T A T T C A A T C A A G A A A A G T T G A G T G G A A A A A A A T T T T T G A G C G A T G T T A A A G T T G G G T T T G A T T A T C T A T T A T C T A A T T C A A C T A T T A G A G T A A T G G C T G T T G T T G T A A G T T T A T C C A A T C T A A T T A T C T C A C C T T A T T A T A T T T A T A T A G T T A T G T T T G T A A A G G A A G A C A T G A A T C A A T C A T C T C A A G T A T T G G G G T T A G T T T T A G G C A T C T C A T C T C T A G G T G C G C T A A T C G G T T C A T T A T C T G C T A G T T T T C T C T T G A A A T T A T T T A A T T T C G G A A A A C T A A T T G T A A T T A T A T T A T T T T T A G A T A C A A T T T T T A G A T T A A T G T T A C C G T T T A G T A C T T A T A T T T T T A T A C T C A T C T C A C T T T T A G G G T T G A C G T A T A T G A C A C A A T C C A T T A T A A A T A T A G C G A T A A T C A C A C T G A G G C A A A A G A A A T G T T C A G A A C A T A T G T T A G G A C G C G T T A A T A G T G T T T T T A A A A C A A T G G T T T T T G C A T T C A G A C C T A T A G G C C T C T T T T T A G G T G G T A T A T T A C T T G A A A A T A A A G G T G G A T T T T A T G C A C T T A C G A T C A G T G C T G T G T T A T T T A T A C C A T T A G T G T T A T A T A T T C T G A A A A A T A G A T T T T A T C A A G T T G A A G A A T A T T A A
M
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F
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N
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A
F S N M G S A F T T F V F P L M I L K L T G S A F Q V G I V S A L S F I P Y A I L G L P A G V L I D R L N K K S I M K C A D I I R F V S Y L S I P V L S F F N M L S I F Q I Y V V A I I S G I G L V F H S I S E V S I I P S I V K E E D L A S A N S Y I Y A T Q N V S E F L G P I I G G L L Y T Y M G Y S I L I F I D S M T F L L S F F S L I L I K I E S K S I F N Q E K L S G K K F L S D V K V G F D Y L L S N S T I R V M A V V V S L S N L I I S P Y Y I Y I V M F V K E D M N Q S S Q V L G L V L G I S S L G A L I G S L S A S F L L K L F N F G K L I V I I L F L D T I F R L M L P F S T Y I F I L I S L L G L T Y M T Q S I I N I A I I T L R Q K K C S E H M L G R V N S V F K T M V F A F R P I G L F L G G I L L E N K G G F Y A L T I S A V L F I P L V L Y I L K N R F Y Q V E E Y * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or0950 - or0951, or0951 | 260504 | 260881 | putative pseudogene |
A
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T
T
G
G
T
T
A
T
A
A
G
T
A
T
A
A
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T T T A C T A A T T G T T C C A G A C T T A A T T A G A C T T A G C A A A A C T T T T C T A A A T G A A A G T A G G G A A T T A A C A A C T G T A G A T T T C G A A T T T T T C T C A A G A G A T A T T C T A G A G G A T T T T A A A G G T G T A G A T A G A A A C G A T A T T G A A A T T A G G C A A C A G C G T A T C A T T T T A C A T A A A G G T G A A G A A A T G A T C G A A T A C A A A T T A A T A A A T A A C A A A A T T A T T A A A G T T G T A A A T G A C A G A G G A A A T A T A A C A A T G C T T A A T A A T G T T A C A G C A T T T A C T G C A A A T A T C T A C T A T A A A T C C A T T A T T A A A A T A A C G A T A A C A G T T A A A G T C G G T A C A A A T G T G C A G A C T A A A A C T A T T T A T G C A T A A
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F L N E S R E L T T V D F E F F S R D I L E D F K G V D R N D I E I R Q Q R I I L H K G E E M I E Y K L I N N K I I K V V N D R G N I T M L N N V T A F T A N I Y Y K S I I K I T I T V K V G T N V Q T K T I Y A * |
Maingene=or0951; Extension FAILED; Comments=For manual analysis, pseudo, failed extension, extended gene >100aa and between 70% median/second shortest homolog and 90% median/second longest homolog | |
| or0977, or0977 - or0978 | 282198 | 282794 | putative pseudogene |
A
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C
A
T
C
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A
A
A
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T
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T
T
A
A
A
A
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T C A A G G A C C C A T T A C T G G T G A A C A A A T A G C A G A T A A G T T G A A T T T A A C A A G A G C A A C G C T T A G A C C A G A T T T A G C G A T A T T A A C A A T G T C A G G T T T T T T A G A A G C G C G T C C C C G A G T T G G A T A T T A T T A T T C A G G T A A A T C A A A A G G T A A A T T T T T T A A T G A A A A A C T T C G A C A A T T T G A A G T T A A G G A C T A T A T G T C T C A A C C T G T T G T G C T A A G A G A G A A T A C A A C A G T T T A T G A C G C T A T T T G T A C A A T T T T T T T A G A A G A T G T A A G T A C A T T A T T T A T T A T T A A T G A A G A T A A C G A T T T T G T T G G T G T G T G T T C A A G A A A A G A T T T A T T A A G A G C T T C A A T G A T T G G A G C A G A T A T T C A T A C A G T A C C T A T C A G T G T T A A T A T G A C A C G T A T G C C T A A T G T C A C T T A T T T A G A G G G A A G C G A A T T A G T C A T A T A C G C A G C A G A T A G A A T G A T T G A A A A A G A A A T T G A T T C G A T T C C A A T T G T A A G A A A A A A A G A T A A T C A A A A G T A T G A A G T A A T T G G A A G A A T T T C C A A A A C A A C A A T A G C T A A G T T A T T A G T A G C A T T A T A T A A A G A A T A G
I
I
E
I
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N L T R A T L R P D L A I L T M S G F L E A R P R V G Y Y Y S G K S K G K F F N E K L R Q F E V K D Y M S Q P V V L R E N T T V Y D A I C T I F L E D V S T L F I I N E D N D F V G V C S R K D L L R A S M I G A D I H T V P I S V N M T R M P N V T Y L E G S E L V I Y A A D R M I E K E I D S I P I V R K K D N Q K Y E V I G R I S K T T I A K L L V A L Y K E * |
Maingene=or0977; Extension SUCCEEDED with start of type NONCANSTART; Comments=For manual analysis, pseudo or non-canonical start codon, extended gene >80% median/second shortest homolog | |
| or0996 - or0997 | 301325 | 301477 | pseudogene, missed gene |
A
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G
G
G
G
C
C
C
C
A
A
C
A
C
A
G
A
G
A
A T T T C G A A A A G A A A T T C T A C A G G C A A T G C G A G T T G G G G T G T G G G C C C C A A C A C A G A G A A A T T G G A T T C C C A A T T T C T A C A G A C A A T G C A A G T T G G C G G G G C C C C A A C A T A A A G A A A T A C T T T T T C T T T A G A A A
M
G
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H
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E
F
R
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E
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A
M
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V
G
V
W A P T Q R N W I P N F Y R Q C K L A G P Q H K E I L F L * K |
Comments=Pseudogene, start/stop is absent | |
| or1015, or1016 | 317966 | 319196 | complement (join (317966..319015, 319017..319196)) | putative pseudogene |
A
T
G
G
G
G
A
G
A
A
A
T
T
T
A
A
A
G
C
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T A A A A A A G A A A G T G A C T T T G A A T T C A C A A A A A A T C A T A A A A G G T T A T T A T T A G G T T C T G T A T T T T T G A T G G C A A C T T C T G C A A T T G G G C C A G C A T T T T T A A C G C A A A C A G C A G T A T T T A C A T C A C A A T T T T T T T G C A A G T T T C G C A T T T G C C A T A T T A C T T C T A T C A T C A T T G A C A T T G G T G C A C A A A T T A A T A T A T G G C G C A T A T T A G T T G T A A C T G G T T T A A G A G G T C A A G A A A T A T C A A A T A A A G T T G T T C C T G G G C T T G G T A C T G T T A T C T C A A T A T T G A T T G C A T T T G G T G G T C T A G C T T T T A A T A T T G G T A A T A T T G C T G G T G C C G G T T T A G G T T T A A A T G C A A T T T T T G G A T T A G A T G T A A A A T G G G G C G C A G C T A T T A C T G C A A T C T T T G C A A T A T T A A T C T T T G T A A G T A A A A G T G G C C A A A A A A T T A T G G A C G T T G T T T C A A T G A T T C T T G G T A T T G T G A T G A T A T T A G T T G T G G C A T A T G T G A T G T T T G T T T C T A A T C C A C C T T A T G G T G A T G C T T T T G T G C A T A C A T T T G C A C C A G A A C A T C C A A T G A A A T T A G T C T T G C C A A T C A T T A C G T T A G T T G G T G G A A C T G T A G G T G G T T A T A T T A C C T T T G C A G G T G C A C A T C G T A T A T T A G A C T C T G G C A T T A A A G G T A A G C A A T A T T T A C C A T T T G T A A A T C A A T C A G C A A T T G C A G G T A T T T T A A C T A C A G G T A T T A T G A G A A C G T T A C T A T T C C T A G C G G T A T T A G G A G T T G T T G T A A C A G G T G T G A C A C T A A G T T C T G A A A A T C C A C C A G C G T C A G T T T T T G A A C A T G C A A T C G G A C C A A T T G G A A A G A A T A T T T T T G G T A T T G T G T T A T T T G C T G C A G C T A T G T C A T C A G T A A T T G G C T C A G C A T A C A C A A G C G C A A C A T T T T T A A A A A C A C T T C A T A A A T C A C T T A A C A A A A G A A G T A A T T T A A T T G T C A T T G T G T T T A T C G T T A T T T C A A C A A T G A T T T T T T T A T T T A T T G G A A A A C C A A T C A G C C T T T T A A T T A T A G C A G G C G C G A T A A A T G G A T G G A T T T T A C C T A T T A C G T T A G G T G C A A T T T T G A T T G C A A G T A A A A A G A A A T C A A T T G T C G G T G A T T A T A A A C A C C C A A A T T G G A T G T T C A T C T T T G G T A T C G T T G C A G T A C T T G T T A C A A T A T T G A C A G G T A T A T T C T C A T T C A A A G A A G T A C T T C A G T T A T T T T A A
M
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L
K
K
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E
F
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R L L L G S V F L M A T S A I G P A F L T Q T A V F T S Q F F C K F R I C H I T S I I I D I G A Q I N I W R I L V V T G L R G Q E I S N K V V P G L G T V I S I L I A F G G L A F N I G N I A G A G L G L N A I F G L D V K W G A A I T A I F A I L I F V S K S G Q K I M D V V S M I L G I V M I L V V A Y V M F V S N P P Y G D A F V H T F A P E H P M K L V L P I I T L V G G T V G G Y I T F A G A H R I L D S G I K G K Q Y L P F V N Q S A I A G I L T T G I M R T L L F L A V L G V V V T G V T L S S E N P P A S V F E H A I G P I G K N I F G I V L F A A A M S S V I G S A Y T S A T F L K T L H K S L N K R S N L I V I V F I V I S T M I F L F I G K P I S L L I I A G A I N G W I L P I T L G A I L I A S K K K S I V G D Y K H P N W M F I F G I V A V L V T I L T G I F S F K E V L Q L F * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or1033, or1034 | 335874 | 336991 | complement (join (335874..336416, 336416..336991)) | putative pseudogene |
T
T
G
T
C
A
A
A
T
A
A
A
G
A
T
A
T
A
C
G
T G T T G T C G T T G G T A T G T C A G G C G G T G T A G A T A G T T C T G T A A C A G C C C A C G T C T T A A A A G A A C A A G G T T A T G A T G T C A T T G G C A T A T T T A T G A A A A A C T G G G A T G A C A C T G A C G A A A A T G G C G T A T G T A C T G C A A C T G A A G A T T A C A A C G A T G T T A T T G A A G T G T G T A A T C A A A T T G G C A T T C C A T A T T A C G C T G T T A A T T T T G A A A A A G A A T A T T G G G A T A A A G T C T T T A C G T A T T T C T T A G A T G A A T A C A A A A A A G G T C G T A C T C C A A A T C C A G A C G T T A T G T G T A A T A A A G A A A T T A A G T T T A A A G C C T T T T T A G A T C A T G C G A T G A A T T T A G G T G C A G A T T A T G T A G C A A C A G G A C A T T A C G C A C G C A T A C A T C G T C A T G A A G A T G G T C A T G T T G A A A T G T T A C G T G G T G T A G A T A A T A A T A A A G A T C A A A C A T A C T T C T T G A A T C A A T T A T C T C A A C A A C A A C T T T C A A A A G T G A T G T T C C C A A T T G G T G A C A T C G A A A A G A G T G A A G T G C G T C G A A T T G C T G A A G A A C A A G G A C T T G T T A C T G C T A A G A A A A A A G A T T C T A C A G G C A T T T G T T T T A T C G G C G A A A A A A A C T T T A A A A C A T T T T T A T C A C A A T A T T T A C C T G C A C A A C C G G G T G A T A T G A T A A C A C T T G A T G G T A A G A A A A T G G G T A A A C A T A G T G G T T T G A T G T A T T A C A C A A T A G G A C A A A G A C A T G G T T T A G G T A T A G G T G G A G A T G G C G A T C C T T G G T T T G T T G T C G G T A A A A A T C T A A A A G A T A A T G T T T T A T A T G T A G A A C A A G G A T T C C A T C A C G A T G C A T T A T A C A G T G A T T A C T T A A T T G C T T C A G A C T A T T C A T T T G T A A A T C C A G A A G A T A A T G A C T T A G A T C A A G G T T T T G A A T G T A C A G C T A A A T T T A G A T A T C G C C A A A A A G A T A C G A A A G T T T T T G T G A A A C G T G A A A A C G A C C A T G C A C T G C G T G T T A C T T T T G C T G A G C C A G T A A G A G C A A T C A C A C C T G G A C A A G C A G T T G T T T T T T A T C A A G G T G A T G T G T G T C T T G G T G G T G C A A C A A T T G A C G A T G T G T T C A A A A A T G A A G G T C A A T T A A A T T A T G T T G T A T A A
L
S
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K
D
I
R
V
V
V
G
M
S
G
G
V
D
S
S
V
T A H V L K E Q G Y D V I G I F M K N W D D T D E N G V C T A T E D Y N D V I E V C N Q I G I P Y Y A V N F E K E Y W D K V F T Y F L D E Y K K G R T P N P D V M C N K E I K F K A F L D H A M N L G A D Y V A T G H Y A R I H R H E D G H V E M L R G V D N N K D Q T Y F L N Q L S Q Q Q L S K V M F P I G D I E K S E V R R I A E E Q G L V T A K K K D S T G I C F I G E K N F K T F L S Q Y L P A Q P G D M I T L D G K K M G K H S G L M Y Y T I G Q R H G L G I G G D G D P W F V V G K N L K D N V L Y V E Q G F H H D A L Y S D Y L I A S D Y S F V N P E D N D L D Q G F E C T A K F R Y R Q K D T K V F V K R E N D H A L R V T F A E P V R A I T P G Q A V V F Y Q G D V C L G G A T I D D V F K N E G Q L N Y V V * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or1063, or1063 - or1064 | 365722 | 366196 | complement (join (365722..366105, 366107..366196)) | putative pseudogene |
A
T
G
A
G
A
T
T
G
A
T
A
T
T
T
A
G
T
A
T
G A T T A A A A A C A T T A T A G C A G T A A T A G C A A T T G T G A T A A T T G T T T A T A T C G C C T T G A A A T A C G C A C C T T T T T T A A A A G A A C A A G A T T G G A A T C C T G T A A A T C A C G A T A A T G A T C A A A C G A A T C A A G T T A C G C A A C C C A C T A A T G A T G C C C A A C A T G T T T A T G T A A G T G G T G A G A A A T A T T T A T T A A A A G A A A A T G A T T T A A T A A A G A A T G T A C C A T T A A G C C A A A T T A A A A A T G T A T T T A A A A T G A T A G A T A A A C A A G A G T T T A T G G C T G T G T C T G G A A T G A A T C G C A T G G C T T A T A A T G A T C A A T A T A T T A T A G G T C A A A G A G G A G A C G A A T T T A T T C T T T A T A A A T T T G G A G A T G A G T C A A T G C G T G T T T A C A A T A C T G A A T T T G A A A T G C A A C A A G A C T T A A A T G A A T T A G G G C A A A A T T T A C A A C T A A A A C C T G A A A A T G C T T A T C A A T A G
M
R
L
I
F
S
M
I
K
N
I
I
A
V
I
A
I
V
I
I
V Y I A L K Y A P F L K E Q D W N P V N H D N D Q T N Q V T Q P T N D A Q H V Y V S G E K Y L L K E N D L I K N V P L S Q I K N V F K M I D K Q E F M A V S G M N R M A Y N D Q Y I I G Q R G D E F I L Y K F G D E S M R V Y N T E F E M Q Q D L N E L G Q N L Q L K P E N A Y Q * |
Maingene=or1063; Extension SUCCEEDED with start of type START; Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or1063 - or1064 | 366425 | 366553 | putative pseudogene, missed gene |
T
T
G
C
G
A
T
T
T
T
T
A
A
T
T
T
A
T
G
T
C G G A C T T G T T T T A T T A T G T A T T T A C T T A G G A T A T C A A G G T T T A A T A T G G T T G C T C G A T T T T T T T C A A A T A A A T A G T G G G T T T T T A C C A C A C T T T C A A T T T A A C A A T T A A
L
R
F
L
I
Y
V
G
L
V
L
L
C
I
Y
L
G
Y
Q
G
L I W L L D F F Q I N S G F L P H F Q F N N * |
Comments=For manual analysis, pseudo, good start found, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or1063 - or1064 | 366425 | 366553 | putative pseudogene, missed gene |
T
T
G
C
G
A
T
T
T
T
T
A
A
T
T
T
A
T
G
T
C G G A C T T G T T T T A T T A T G T A T T T A C T T A G G A T A T C A A G G T T T A A T A T G G T T G C T C G A T T T T T T T C A A A T A A A T A G T G G G T T T T T A C C A C A C T T T C A A T T T A A C A A T T A A
L
R
F
L
I
Y
V
G
L
V
L
L
C
I
Y
L
G
Y
Q
G
L I W L L D F F Q I N S G F L P H F Q F N N * |
Comments=For manual analysis, pseudo, good start found, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or1085, or1086 | 387366 | 387927 | complement (join (387366..387638, 387640..387927)) | putative pseudogene |
T
T
G
C
T
T
G
G
T
G
C
A
A
A
T
T
T
C
G
T
A A A A A T T T T G G A G G T G T C A A C C A T A G C A A A A G A T C A A A C T C A A A T C A A T G A C A A A A T T C G T G C A A A A G A A T T A C G T T T A A T C G G T C A A G A T G G T G A A C A A A T T G G T G T T A A A T C A A A G C G T G A A G C T T T A G A A A T G G C T G A A C G T G T A G A T T T A G A C T T A G T G G T C G T T G C A C C G A A T G C G A A A C C A C C A G T T G C A A G A A T T A T G G A T T A C G G T A A A T T C A A A T T C G A A C A A C A G A A A A A A G A A A A A G A A A T G A A A A A G A A A C A A A A A A T T A T C A A T G T T A A A G A A A T T C G T T T A A G T C C A A C A A T T G A G G A A C A T G A T T T C C A A A C T A A G T T G A A A A A C G G A C G T A A A T T C T T A A C T A A A G G C G A T A A A T G T A A A G T A T C T A T T C G T T T C A G A G G G C G T G C C A T T A C G C A T A A G G A A A T T G G T C A A C G T G T G C T A G A A A A A T A T G C A G A T G A A T G C A A A G A T A T A G C A A C A G T T G A A C A A A A A C C T A A A A T G G A C G G G C G T C A A A T G T T T A T T A T G T T A G C G C C A A C A G C T G A A A A A T A A
L
L
G
A
N
F
V
K
I
L
E
V
S
T
I
A
K
D
Q
T
Q I N D K I R A K E L R L I G Q D G E Q I G V K S K R E A L E M A E R V D L D L V V V A P N A K P P V A R I M D Y G K F K F E Q Q K K E K E M K K K Q K I I N V K E I R L S P T I E E H D F Q T K L K N G R K F L T K G D K C K V S I R F R G R A I T H K E I G Q R V L E K Y A D E C K D I A T V E Q K P K M D G R Q M F I M L A P T A E K * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or1116 | 2944 | 3129 | pseudogene |
A
T
G
A
A
A
C
A
A
A
T
T
A
G
G
A
T
T
G
G
T T A T G A A G A A A T C T A T G G G G A T A G A A T T T T T C A T T G C C A T T T T T T A A A A G A G C A A G A A G T A A A A A A T T G G A A A A C C G T C A A T C A A A T A A T T G A A A A A G A A C A C T T G G A C A A A A A T G A A T A T G A A G C C G A G C C A C C G T T G T T C T T C T T T T C G G G A T C G T T G G A T T A G
M
K
Q
I
R
I
G
Y
E
E
I
Y
G
D
R
I
F
H
C
H
F L K E Q E V K N W K T V N Q I I E K E H L D K N E Y E A E P P L F F F S G S L D * |
Maingene=or1116; Extension FAILED; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or1172, or1173 | 19078 | 19991 | complement (join (19078..19833, 19833..19991)) | putative pseudogene |
A
T
G
G
C
A
A
C
T
C
C
A
A
C
A
T
A
C
A
C
G C C A G G C A A T G T T A T T T T A T C G G A T T T T A A A A A C G G C G T T A T T C C A G C A G A A C A A G G T A C T T T A A T C A T G A A A G A C A T T A T G G C T A A T T C A G C A A T T A T G A A A T T A G C T A A A A A T G A G C C A A T G A C A G C A C A A A A G A A A A A A T T T A C T T A C T T A G C A A A A G G T G T A G G C G C C T A C T G G G T A T C A G A A A C G G A A C G T A T T C A A A C T T C T A A G C C T G A A T A T G C A C A A G C A G A A A T G G A A G C T A A G A A A A T T G G T G T A A T T A T T C C G T T A T C A A A A G A G T T T C T T A A A T G G A C T G C A A A A G A T T T C T T T A A T G A G G T T A A A C C T C T A A T T G C A G A G G C A T T T T A C A A A G C G T T T G A C C A A G C T G T T A T C T T T G G T A C T A A A T C A C C T T A C A A C A C T T C A A C T A G T G G T A A A C C G C T T G T T G A A G G C G C A G A A G A G A A A G G T A A C G T T G T T A C A G A T A C T A A T A A T T T A T A C G T A G A C C T T T C G G C A T T A A T G G C T A C T A T T G A A G A T G A A G A G T T A G A T C C A A A C G G A G T A T T A A C T A C A C G T T C A T T C A G A A G T A A A A T G C G T A A T G C T T T A G A T G C T A A T G A C A G A C C A T T A T T T G A T G C T A A C G G G A A C G A G A T T A T G G G A T T A C C A C T A T C T T A T A C T G G A G C G G A T G T A T A C G A C A A A A A G A A A T C G T T A G C A C T A A T G G G T G A T T G G G A T T A C G C A C G T T A C G G T A T C T T A C A A G G T A T T G A G T A T G C A A T T T C T G A A G A T G C C A C G T T A A C G A C G T T A C A A G C A T C A G A T G C T T C T G G C C A A C C A G T A T C A T T A T T T G A A C G T G A T A T G T T C G C T T T A C G T G C G A C G A T G C A T A T T G C A T A C A T G A A C G T T A A A C C A G A A G C G T T C G C A A C G C T T A A A C C A A C T G A A T A G
M
A
T
P
T
Y
T
P
G
N
V
I
L
S
D
F
K
N
G
V
I P A E Q G T L I M K D I M A N S A I M K L A K N E P M T A Q K K K F T Y L A K G V G A Y W V S E T E R I Q T S K P E Y A Q A E M E A K K I G V I I P L S K E F L K W T A K D F F N E V K P L I A E A F Y K A F D Q A V I F G T K S P Y N T S T S G K P L V E G A E E K G N V V T D T N N L Y V D L S A L M A T I E D E E L D P N G V L T T R S F R S K M R N A L D A N D R P L F D A N G N E I M G L P L S Y T G A D V Y D K K K S L A L M G D W D Y A R Y G I L Q G I E Y A I S E D A T L T T L Q A S D A S G Q P V S L F E R D M F A L R A T M H I A Y M N V K P E A F A T L K P T E * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or0099 - or0100 | 44720 | 44887 | putative pseudogene, missed gene |
T
T
G
A
G
A
C
A
A
G
T
G
C
A
A
T
G
C
A
T
T A T C T G T G A T G C A A A A G T A T T T A T A G A T G A G C G C A C A A C T G A G T C T A A A C G A C T T A A A A A C A A T C C T A T T C G A A C A T T T A T G T G C G A T G A T T G T A A A A G T C G A T T A G A C A C C C C T A A A C A A C G T G C G C A A C A C T A T C C G C T C G A T T A A
L
R
Q
V
Q
C
I
I
C
D
A
K
V
F
I
D
E
R
T
T
E S K R L K N N P I R T F M C D D C K S R L D T P K Q R A Q H Y P L D * |
Comments=For manual analysis, pseudo, good start found, extended gene <=100aa, >70% median/second shortest homolog, <80% median/second longest homolog | |
| or0120, or0121 | 64542 | 66238 | join (64542..65555, 65555..66238) | putative pseudogene |
a
t
g
a
a
a
c
a
a
t
t
a
c
a
t
c
c
a
a
a
t g a a g t a g g t g t a t a t g c a c t t g g a g g t c t a g g t g a a a t c g g t a a a a a t a c t t a t g c a g t t g a g t a t a a a g a c g a a a t t g t c a t t a t c g a t g c a g g t a t c a a a t t c c c t g a t g a t a a c t t a t t a g g g a t t g a t t a t g t t a t a c c t g a c t a c a c a t a t c t a g t t c a a a a c c a a g a t a a a a t t g t t g g c c t a t t t a t a a c a c a t g g t c a c g a a g a c c a t a t a g g c g g t g t g c c c t t c c t a t t a a a a c a a c t t a a t a t a c c t a t t t a t g g t g g t c c t t t a g c a t t a g g t t t a a t c c g t a a t a a a c t t g a a g a a c a t c a t t t a t t a c g t a c t g c t a a a c t a a a t g a a a t c a a t g a g g a c a g t g t g a t a a a a t c t a a g c a c t t t a c g a t t t c t t t c t a c t t a a c t a c g c a t a g t a t t c c t g a a a c t t a t g g c g t c a t c g t a g a t a c a c c t g a a g g a a a a g t a g t t c a t a c c g g t g a c t t t a a a t t t g a t t t t a c a c c t g t a g g c a a a c c a g c a a a c a t t g c t a a a a t g g c t c a a t t a g g c g a a g a a g g c g t t c t a t g t t t a c t t t c a g a c t c a a c a a a t t c a c t t g t g c c t g a t t t t a c t t t a a g c g a a c g t g a a g t t g g t c a a a a c g t a g a t a a a a t c t t c c g t a a t t g t a a a g g t c g t a t t a t a t t t g c t a c c t t c g c t t c t a a t a t t t a c c g a g t t c a a c a a g c a g t t g a a g c t g c t a t c a a a a a t a a c c g t a a a a t t g t t a c g t t c g g t c g t t c g a t g g a a a a c a a t a t t a a a a t c g g t a t g g a a c t t g g t t a t a t t a a a g c a c c a c c t g a a a c a t t t a t t g a g c c t a a t a a a a t t a a t a c c g t a c c g a a g c a t g a g t t a t t g a t a c t a t g t a c t g g t t c t c a a g g t g a a c c a a t g g c a g c a t t a t c t a g a a t t g c t a a t g g t a c t c a t a a g c a a a t t a a a a t t a t a c c t g a a g a t a c c g t t g t a t t t a g t t c a t c a c c t a t c c c a g g t a a t a c a a a a a g t a t t a a c a g a a c t a t t a a t t c c t t g t a t a a a g c t g g t g c a g a t g t t a t c c a c a g c a a g a t t t c t a a c a t c c a t a c t t c a g g g c a t g g t t c t c a a g g t g a t c a a c a a t t a a t g c t t c g a t t a a t c a a g c c g a a a t a t t t c t t a c c t a t t c a t g g t g a a t a c c g t a t g t t a a a a g c a c a t g g t g a g a c t g g t g t t g a a t g c g g c g t t g a a g a a g a t a a t g t c t t c a t c t t t g a t a t c g g a g a t g t c t t a g c t c t a a c a c a c g a t t c a g c a c g t a a a g c t g g t c g c a t t c c a t c t g g t a a t g t a c t t g t t g a t g g t a g t g g t a t t g g t g a t a t c g g t a a t g t t g t a a t a a g a g a c c g t a a g c t a t t a t c t g a a g a a g g t t t a g t t a t c g t t g t t g t t a g t a t t g a t t t t a a t a c a a a t a a a t t a c t t t c t g g t c c a g a c a t t a t t t c t c g a g g a t t t g t a t a t a t g a g a g a a t c a g g t c a a t t a a t t t a t g a t g c a c a a c g c a a a a t c a a a a c t g a t g t t a t t a g t a a g t t a a a t c a a a a t a a a g a t a t t c a a t g g c a t c a g a t t a a a t c t t c t a t c a t a g a a a c a t t a c a a c c t t a t t t a t t t g a a a a a a c a g c t a g a a a a c c a a t g a t t t t a c c a g t c a t t a t g a a g g t a a a c g a a c a a a a a g a a t c a a a c a a t a a a t a a
M
K
Q
L
H
P
N
E
V
G
V
Y
A
L
G
G
L
G
E
I
G K N T Y A V E Y K D E I V I I D A G I K F P D D N L L G I D Y V I P D Y T Y L V Q N Q D K I V G L F I T H G H E D H I G G V P F L L K Q L N I P I Y G G P L A L G L I R N K L E E H H L L R T A K L N E I N E D S V I K S K H F T I S F Y L T T H S I P E T Y G V I V D T P E G K V V H T G D F K F D F T P V G K P A N I A K M A Q L G E E G V L C L L S D S T N S L V P D F T L S E R E V G Q N V D K I F R N C K G R I I F A T F A S N I Y R V Q Q A V E A A I K N N R K I V T F G R S M E N N I K I G M E L G Y I K A P P E T F I E P N K I N T V P K H E L L I L C T G S Q G E P M A A L S R I A N G T H K Q I K I I P E D T V V F S S S P I P G N T K S I N R T I N S L Y K A G A D V I H S K I S N I H T S G H G S Q G D Q Q L M L R L I K P K Y F L P I H G E Y R M L K A H G E T G V E C G V E E D N V F I F D I G D V L A L T H D S A R K A G R I P S G N V L V D G S G I G D I G N V V I R D R K L L S E E G L V I V V V S I D F N T N K L L S G P D I I S R G F V Y M R E S G Q L I Y D A Q R K I K T D V I S K L N Q N K D I Q W H Q I K S S I I E T L Q P Y L F E K T A R K P M I L P V I M K V N E Q K E S N N K * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or0158 - or0159 | 106674 | 106799 | pseudogene, missed gene |
A
T
T
T
C
A
C
A
A
A
T
A
A
A
T
A
A
T
G
C
A C G T T G C G A A T T G A T T G A A G C A A G A T G T C A A T G T T T A T C G G A A G T C G A A T T A G A T A A T T T A A A T C A A T T A C T T G A T A A G T T A A A T C A A C G A C G C A T A T C G T T G T A A
I
S
Q
I
N
N
A
R
C
E
L
I
E
A
R
C
Q
C
L
S
E V E L D N L N Q L L D K L N Q R R I S L * |
Comments=Pseudogene, non-canonical start found, extended gene <=80% median/second shortest homolog | |
| or1207, or1208 | 34 | 1178 | complement (join (34..924, 927..1178)) | pseudogene |
A
T
G
A
T
T
C
G
A
A
T
T
C
A
A
G
A
T
A
A
T A C A A T A A G G G A T G G T A T G C A A C A A A G T A A T G T T C G A A A A A G T C T A T T T A T A A A A A A A G A A G T A T T G A A A C A A A T T A A C A A G T T A A A T A T A A A T T C T G T T G A A G T A G G C A T G T G T A C T A C T A T C G A G G A T G A A T T T A A T A T T C A T C A A T T C A G A G A C A T T T T A A G C C C T G A A A A A G A A T T A G T A G T A T T G A C T A G G C T T A A T G A A A A A G A A A T A A A A A A A T A G T C A A A T T G A A T T C A T A A T T T A G T G G T A A A A A T A C T A T T G C C A A T A T C T G A C T T G C A T A T A A A A G A A A A G C T T A A T T T T T C A A A T A A A T A T T A T A T T C A G A A A A T C A A A G A C T G C T T G G A T A T A T T A A A G A A A G A T A A A A A A G G A G T A G A T A T T T G T T T T G A A G A T G C A A C A A G G A C T T C T A G A G A A A A A T T G A A A G A A T A C A T G G A A A T T A T T T C A A A A T A T C A A G T T A G A A C A G T T A C A T T T G C G G A C A C T G T A G G A T G T T C G A C A C C A T T A G A A T A C G G A G A T A T T T T T A A T T A C T T T G T A A A A A A A T A T T C T A A C A T A A T T T T T T C T G C T C A T T G T C A T A A C G A T C T A G G G T T G G C T A C T G C A A A T A C A T T A G C T G C A A T T T T A A A T G G T G C A A A G C A A A T A G A A A C T A C A T T T T T G G G A A T T G G T G A G A G A G C G G G T A A T G C T C C T A T T G A G G A A A T A A T T A C T A T T T T G A C A A A A A A A C A A A T A G A A A G T A C G G A A T T C A C T T T A C C C G A C G T A T A T A A A A C T A G T A T T A A T A T T T C T A A A A T T C T C G A T T T T C A A A T A T C A G A A A A C A A A C C T A T A A T T G G T G A A A A T A T A T T T A A A C A T G A A T C A G G A A T T C A T C A A G A T G G T A C T A A A A A A A A T A T A A A T A T G T A T C A A T A T T T A G T T C C T A G T G A T T T A G G A T T G A A A A A T T C A C A A G T T G T T C A G T T T C C A A T A A G T A A T A T T T C T A G T A A G A A A A T C T T G C A C A A T A A A T T T A A A T C A A T A G T T A A C A C T G A A G A A A T T G A T G A A A A T A T T T C T T T C T A T A A A C T T G T G A A C A A G T T T T C A C C T G A A G T A G C A C C T G A A G A T A C A G T G G A T T T A C T T C A G A T A A T A A A A A G G A G G A G T A A A G A T G G A A A T T T T A A A T G A
M
I
R
I
Q
D
N
T
I
R
D
G
M
Q
Q
S
N
V
R
K
S L F I K K E V L K Q I N K L N I N S V E V G M C T T I E D E F N I H Q F R D I L S P E K E L V V L T R L N E K E I K K * S N * I H N L V V K I L L P I S D L H I K E K L N F S N K Y Y I Q K I K D C L D I L K K D K K G V D I C F E D A T R T S R E K L K E Y M E I I S K Y Q V R T V T F A D T V G C S T P L E Y G D I F N Y F V K K Y S N I I F S A H C H N D L G L A T A N T L A A I L N G A K Q I E T T F L G I G E R A G N A P I E E I I T I L T K K Q I E S T E F T L P D V Y K T S I N I S K I L D F Q I S E N K P I I G E N I F K H E S G I H Q D G T K K N I N M Y Q Y L V P S D L G L K N S Q V V Q F P I S N I S S K K I L H N K F K S I V N T E E I D E N I S F Y K L V N K F S P E V A P E D T V D L L Q I I K R R S K D G N F K * |
Comments=Pseudogene, both frameshift and stopcodon in gene |
| or1223, or1224 | 23723 | 24929 | join (23723..24019, 24021..24929) | putative pseudogene |
a
t
g
a
a
a
g
a
g
a
a
a
a
t
t
g
t
t
t
t
a g c a t a t t c a g g a g g a c t a g a t a c a a g t g t g g c c g t t c a a t g g c t t a t c g a c a a a g g a t a c g a c g t t g t a g c t t g t t g c c t a g a t g t t g g t g a a g g t a a a g a t t t a g a c a t c g t t t a t a a a a a a g c t t t a g a t a t g g g a g c t a t t g a a t g t c a t a t t a t t g a t g c c a c a a a a g a a t t t a g t g a t g a g t a t g t a a g t t a t g c a a t c a a a g g a a a t t t a a t g t a t g a a a a t g c a t a t c c a t t a g t t t c t g c t t t a t c a a g a c c g t t a a t t g c t a a a a a a t t a g t a g a g a t t g c t g a g a a a a c a a a t t c a g t a g g t a t t g c a c a t g g t t g t a c t g g t a a a g g g a a t g a c c a a g t a c g t t t c g a a g t t g c c a t t a a a g c a t t a a a c c c a t c a t t g a a a g c a t t c g c a c c t g t a c g t g a g t g g g c a t g g a g t c g t g a a g a a g a a a t c g a t t a t g c a a t t a a a c a t a a t a t c c c t g t a t c a a t c a a c c a t g a t t c a c c t t a t t c t a t c g a t c a a a a t c t a t g g g g c a g a g c g a a t g a a t g t g g t a t t t t a g a a g a t c c t t a t g c t g c g c c a c c a g a g g a t g c g t t c g a t c t a a c a a a t g c t t t a g a a g a a a c a c c a g a t a c t g c t g a t g a a a t c a t t t t a a c g t t t g t t a a a g g t a t c c c a g t t c a a a t t g a t g g c a a a a c a t a t g a a t t a g a c g a t t t a a t t t t a a c g t t g a a t g c a t t a g c t g g t a a g c a t g g t a t c g g a a g a a t t g a c c a t g t a g a a a a t a g a c t t g t a g g t a t c a a a t c a a g a g a a a t t t a t g a a g c a c c t g c t g c a g a a g t t a t t t t a a a a g c g c a t a a a g c a t t a g a a a c g a t t a c g t t a a c g a a a g a t g t c g c a c a c t t t a a a c c a a t c a t t g a g a a g c a a t t t g c t g a a c a a c t a t a t a a t g g a c t t t g g t t c t c a c c t t t a a c t g a t a g c t t g a a a t t a t t t a t t g a t a g t a c t c a g c a a t a c g t a a g t g g t g a t g t c a g a a t t a a a t t a t t c a a a g g t a a t g c c a t c g t g a a t g g t a g a a a a t c a c c t t a c a c a c t a t a t g a t g a a a a a t t a g c a a c t t a t a c a a a a g a a g a t g c a t t t a a t c a a g a c g c t g c t g t t g g c t t t a t c g a t a t c t a t g g t t t a c c t a c t c a a g t a a a t g c g a t g t t a c a t g g a g g c t a t a g c a a t g a g c a a t a a
M
K
E
K
I
V
L
A
Y
S
G
G
L
D
T
S
V
A
V
Q
W L I D K G Y D V V A C C L D V G E G K D L D I V Y K K A L D M G A I E C H I I D A T K E F S D E Y V S Y A I K G N L M Y E N A Y P L V S A L S R P L I A K K L V E I A E K T N S V G I A H G C T G K G N D Q V R F E V A I K A L N P S L K A F A P V R E W A W S R E E E I D Y A I K H N I P V S I N H D S P Y S I D Q N L W G R A N E C G I L E D P Y A A P P E D A F D L T N A L E E T P D T A D E I I L T F V K G I P V Q I D G K T Y E L D D L I L T L N A L A G K H G I G R I D H V E N R L V G I K S R E I Y E A P A A E V I L K A H K A L E T I T L T K D V A H F K P I I E K Q F A E Q L Y N G L W F S P L T D S L K L F I D S T Q Q Y V S G D V R I K L F K G N A I V N G R K S P Y T L Y D E K L A T Y T K E D A F N Q D A A V G F I D I Y G L P T Q V N A M L H G G Y S N E Q * |
Comments=For manual analysis, pseudo or ribosomal slippage, gene with one frameshift, >80% median/second shortest homolog |
| or1279 - or1280 | 4096 | 4257 | pseudogene, missed gene |
T
C
T
T
G
T
A
A
C
A
A
G
C
T
C
A
T
T
T
C
A A T A C C A G T G G G C T C C A A A C A T A A A G A A A T T G G A T T C C C A A T T T C T A C A G A C A A T G C A A G T T G G C G G G G C C C A A A C A T A G A G A A T T T C A A A A A G G A A T T A T A T A G A A G T G G T G C T T T A T C G T G T C T G T C C C A C T T C C T A T A A
S
C
N
K
L
I
S
I
P
V
G
S
K
H
K
E
I
G
F
P
I S T D N A S W R G P N I E N F K K E L Y R S G A L S C L S H F L * |
Comments=Pseudogene, start/stop is absent | |
| or1291 - or1292 | 17890 | 18213 | complement (join (17890..18051, 18051..18191, 18193..18213)) | pseudogene, missed gene |
A
T
G
C
G
A
G
T
T
G
G
G
G
T
G
G
G
G
C
C
C A A C A A A G A A G C T G A C G A A A A G T C A G C T T A C A A T A A T G T G C A A G T T G G C G G G G C C C C A A C A T A G A G A A A T T G G A A T G C C A A T T T C T A C A G A C A A T G C A A G T T G G G G C G G G C C C C C A A C A T A A A G A A A T A C T T T T T C T T T A G A A A A T T A G T A T T T C T T A T G C A T G A G T G T A A C T C A T G C A A T C C T A T T T T T A A G T A C A C A T T A G C T G T G A C T A A T G A T A A A G A A T C G C T A C A T A A T C A A C C A T T A G T C G T T C T T T A T C A T T T C C G T C T C A C T C T C A A T A A A T G T A A G T C T A T C T C A T T A T T A T A A
M
R
V
G
V
G
P
N
K
E
A
D
E
K
S
A
Y
N
N
V
Q V G G A P T * R N W N A N F Y R Q C K L G R A P N I K K Y F F F R K L V F L M H E C N S C N P I F K Y T L A V T N D K E S L H N Q P L V V L Y H F R L T L N K C K S I S L L * |
Comments=Pseudogene, >1 frameshift are present |
| or1300 - or1301, or1301 | 31565 | 32173 | pseudogene |
A
T
G
C
A
A
T
T
A
T
T
T
G
A
A
A
C
A
A
T
G A A A A T T G A T A A T G G A C A T A T C C C T A G A C T T A C T T A T C A T A C T A A T C G C A T A A A A T G T T C T T C C G A G C G A T T A A A C T T T A A A T T T G A T G A A C A T G C A T G G C G A A A T G A A T T A A A T G A T G T A A C A A C A A A G T A T C A C A G T G G C C A A T A T A G A C T T A A A A T C G T A T T A A A T G C T G A A A G C G A A T T T G A A A C G A T A G T G T C A C C T T T A C C T G A G A A A A G T A G T T T T A C A G C A A A A T T T C A A G T A T T G C C C A A A A C A G T T A A T C C A A C T T T T A T A A A T A A T A A A A C G A C A G A A C G A A A G C A T T T A G C A C A C A A T C A T G A A A C A G A T T T A A T A T T G A T A A C T T C A G A G G A C G G C A A G G T C C T T G A A T T T G A T A T T G G C A A C A T T G T C A T T G A A G A G G A T G G A A A A T G G T A C A C A C C A A G T T A T A A A A A T G A T T T C T T A A A A G G A T G C A T G C G T G A T T A T T T A A T A G A T A G T G A C A A G C T T G T T G A A A A A G A C T T T A A T A A A A A C G A A T T G A T T T A T A A A T A T C A T A A C A A T G A G A T A C G T T T A T T T T T G A T A A A T A G T T T A C G A G A G G T T G C C G A T G T C C A C C T T T G C C T T T A A
M
Q
L
F
E
T
M
K
I
D
N
G
H
I
P
R
L
T
Y
H
T N R I K C S S E R L N F K F D E H A W R N E L N D V T T K Y H S G Q Y R L K I V L N A E S E F E T I V S P L P E K S S F T A K F Q V L P K T V N P T F I N N K T T E R K H L A H N H E T D L I L I T S E D G K V L E F D I G N I V I E E D G K W Y T P S Y K N D F L K G C M R D Y L I D S D K L V E K D F N K N E L I Y K Y H N N E I R L F L I N S L R E V A D V H L C L * |
Maingene=or1301; Extension FAILED; Comments=Pseudogene, failed extension, extended gene >100aa and <50% median/second shortest homolog | |
| or1375 - or1377, or1377 | 26490 | 26675 | pseudogene |
A
T
G
G
A
A
T
C
A
T
A
T
G
A
A
G
A
A
A
T
T G A G C A T A T A C A C A T T A A C A C T G G T A G A A A A A A A C T T A C A C A A G A A C A A A T A G A A G A A G C C A A A G C T T T T A T A G A C A G T C A A G G A T T T A A A G A T A T G A T T C G A G A A G C T A A A G A G T C A C G T C A A A G A G T T A T G G A G T C T A A A A T T A C C G A T A G A A C T A A A A T G T G A
M
E
S
Y
E
E
I
E
H
I
H
I
N
T
G
R
K
K
L
T
Q E Q I E E A K A F I D S Q G F K D M I R E A K E S R Q R V M E S K I T D R T K M * |
Maingene=or1377; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene <=100aa and <70% median/second shortest homolog | |
| or1399 - or1400 | 3405 | 3626 | pseudogene, missed gene |
A
T
G
A
A
A
T
T
A
T
C
T
T
C
A
G
T
C
A
T
A A A T A C G G A T T T T G A A G T T A C T A C T C T T T C A T A T T T A C A A A A A T T A A T A A T T G T T A T G A T G A A C T T A A A C A T G A A A A T A A G C A A A A G T G A A A T A G C T A G A C A C A T G G G T G T T G A T A T A A G A G C A G T T G A T A A A T A T T C A A A T G T C T T T G A T C T T T A T T T T A T A A A T T C T T C C A T A A A A A T A A C C A C A C T C C T A A A T C A A T A G
M
K
L
S
S
V
I
N
T
D
F
E
V
T
T
L
S
Y
L
Q
K L I I V M M N L N M K I S K S E I A R H M G V D I R A V D K Y S N V F D L Y F I N S S I K I T T L L N Q * |
Comments=Pseudogene, good start found, extended gene <=100aa and <70% median/second shortest homolog | |
| or1400 - or1401 | 5351 | 5555 | join (5351..5422, 5422..5475, 5474..5485, 5487..5555) | pseudogene, missed gene |
t
t
c
a
a
t
t
c
a
a
g
t
c
a
g
g
g
g
c
c
c c a a c a c a g g g a a t t t c g a a a a g a a a t t c a a c a g a c a a t g c a a g t t g g g g t g g g g g c c c c a a c a c a g a g a a t t t c g a a a a g a a a t t c t a c a a a c a a t g t a a g t t g g g g g g t g g g g c c t a a c a a a g a g a a a t t g g a t t c c c a a t t t c a a c a g a c a a t g c a a t a t a t g t a t g a c a a a t c a a c g c t a t a g
F
N
S
S
Q
G
P
Q
H
R
E
F
R
K
E
I
Q
Q
T
M
Q V G V G A P T Q R I S K R N S T N N V S W G V G P N K E K L D S Q F Q Q T M Q Y M Y D K S T L * |
Comments=Pseudogene, start/stop is absent |
| or1403 - or1403 | 10128 | 11099 | pseudogene, missed gene |
A
T
G
A
A
A
A
A
T
A
A
A
A
A
A
C
G
T
G
T
T T T A A T A G C G T C A T C A T T A T C A T G T G C A A T T T T A T T G T T A T C A G C A G C A A C G A C T C A A G C A A A T T C A G C T C A T A A A G A C T C G C A A G A C C A A A A T A A G A A A G A A C A T G T T G A T A A G T C T C A A C A A A A A G A C A A A C G T A A T G T T A C T A A T A A A G A T A A A A A T T C A A C A G T A C C T G A T G A T A T T G G G A A A A A C G G T A A A A T C A C A A A A C G A A C T G A A A C A G T A T A T G A T G A G A A A A C A A A T A T A C T C C A A A A T T T A C A A T T C G A C T T T A T C G A T G A T C C A A C T T A T G A C A A G A A T G T A T T A C T T G T T A A A A A A C A A G G C T C A A T T C A T T C A A A T T T A A A G T T T G A A T C T C A T A A A G A A G A A A A A A A T T C A A A T T G G T T A A A G T A T C C A A G T G A G T A C C A T G T A G A T T T T C A A G T A A A A A G A A A T C C T A A A A C T G A A A T A C T A G A T C A A T T G C C G A A A A A T A A A A T T T C A A C T G C G A A A G T A G A C A G T A C A T T T T C A T A T A G C T C A G G T G G T A A A T T C G A T T C A A C G A A A G G T A T T G G A C G A A C T T C A T C A A A T G G C T A C T C C A A A A C G A T T A G T T A T A A T C A G C A A A A T T A T G A C A C A A T T G C C A G C G G T A A A A A T A A T A A C T G G C A T G T A C A C T G G T C A G T T A T T G C G A A T G A C T T G A A G T A T G G T G G A G A A G T G A A A A A T A G A A A T G A T G A A T T A T T A T T C T A T A G A A A T A C G A G A A T T G C T A C T G T A G A A A A C C C T G A A C T A A G C T T T G C T T C A A A A T A T A G A T A C C C G G C A T T A G T A A G A A G T G G C T T T A A T C C A G A A T T T T T A A C T T A T T T A T C T A A T G A A A A G T C A A A T G A G A A A A C G C A A T T T G A A G T A A C A T A C A C A C G A A A T C A A G A T A T T T T G A A A A A C A G A C C T G G A A T A C A T T A T G C A C C T C C A A T T T T A G A A A A A A A T A A A G A T G G T C A A A G A T T A A T T G T C
M
K
N
K
K
R
V
L
I
A
S
S
L
S
C
A
I
L
L
L
S A A T T Q A N S A H K D S Q D Q N K K E H V D K S Q Q K D K R N V T N K D K N S T V P D D I G K N G K I T K R T E T V Y D E K T N I L Q N L Q F D F I D D P T Y D K N V L L V K K Q G S I H S N L K F E S H K E E K N S N W L K Y P S E Y H V D F Q V K R N P K T E I L D Q L P K N K I S T A K V D S T F S Y S S G G K F D S T K G I G R T S S N G Y S K T I S Y N Q Q N Y D T I A S G K N N N W H V H W S V I A N D L K Y G G E V K N R N D E L L F Y R N T R I A T V E N P E L S F A S K Y R Y P A L V R S G F N P E F L T Y L S N E K S N E K T Q F E V T Y T R N Q D I L K N R P G I H Y A P P I L E K N K D G Q R L I V |
Comments=Pseudogene, start/stop is absent | |
| or0 - or1407 | 2 | 247 | pseudogene, missed gene |
A
T
G
A
C
T
T
T
C
G
A
A
G
A
A
A
A
A
C
T
A A G T G A A A T G T A C A A C A A G A T T G C G A A T G A G A T T A G T G G A A T G A T A C C A G T A G A G T G G G A A A A A G T A T A T A C A A T T G C A T A C G T A G A T G A T G A A G G T G G A G A A G T T G T T T T T A A T T A T A C T A A A C C T G G A A T T G A A G A T T T G A A T T A T T A C A C C G A T A T A C C T A A G G A G T A T A A T A T T T C T G T G C A A G T A T T T G A T G A T T T A T G G A T G A A T T T A T A T G A T T T G T T T
M
T
F
E
E
K
L
S
E
M
Y
N
K
I
A
N
E
I
S
G
M I P V E W E K V Y T I A Y V D D E G G E V V F N Y T K P G I E D L N Y Y T D I P K E Y N I S V Q V F D D L W M N L Y D L F |
Comments=Pseudogene, start/stop is absent | |
| or1408, or1408 - or1408 | 1202 | 1522 | pseudogene |
A
T
G
G
G
T
A
C
G
A
T
T
T
C
A
A
T
C
A
T
A A T T A G C T A T T T A T T A T T A G T A A T T G G C G G A A T G T T T A C G T T G T T A A A A T T A C C T A A A G T A A C A A A A C G C T G G G G T G G T A A A A C T A A A A C A C A T T T C G G T T T A T T A T T A A C T G C G T T G A G C T C A T T T A T A T A T A T T G A A A A A A T T A T C G A A T A T A T A T T G A T T C C T A A T G T C G T A G A A T C C A A G T T T A T A A T T A T T G T G A G C A T G T T G G T T A T C G C T G G A G C A C A A T T T G T G G C A T T T C A A T T T A T T A T G C A A T A C A G T A G A T T C T A T A T T T T T G A A T T A A A T A C A G A A G A T G A T G A C T A A
M
G
T
I
S
I
I
I
S
Y
L
L
L
V
I
G
G
M
F
T
L L K L P K V T K R W G G K T K T H F G L L L T A L S S F I Y I E K I I E Y I L I P N V V E S K F I I I V S M L V I A G A Q F V A F Q F I M Q Y S R F Y I F E L N T E D D D * |
Maingene=or1408; Extension SUCCEEDED with start of type NOSTART; Comments=Pseudogene, failed extension, extended gene >100aa and <50% median/second shortest homolog | |
| or0162 - or0163, or0163 | 1634 | 2086 | putative pseudogene |
A
T
A
C
A
A
C
A
A
A
C
A
C
C
A
C
A
A
A
A
T C A T A C A C C A T C T T T T A A A A A A T A T A A T A T T A G C T A T A A T T A T G A T G A G T A T T A T C A A C T A C T C T T G A T A A A A A T G T G G C A A T T G A G T C A G A T A T A T A A A C C C T C A A G C A A G C A A T C T T T A T C C T C T T T T T T A T T C A C T C G A T T A A A T T T T C A C C T T A T C G A T T T A T T C A G A C A A C A A A A T C A A T T A A A A G A T G T C A T T T T A T G T G A G A A T A A T T C A C C A A C A T T A A C T G A A C A A C C A A C A T A C T T T A A T G A A C A T G A C C T T C G T T T A C A A G A T A T C T T C A A G T T T T T A A A T C A T A G A G A A A G A C T A T G G C T C A A A C T A T A C C T T G A A G G A T A C A A G C A A T T T G A A A T T G C T G A A A T C A T G T C A T T A T C G C T T T C A A C G A T T A A A T T A A T T A A G A C A T C C G T T A A G C G T A A A T G C C A A C A T A A T T T T A A T T A G
I
Q
Q
T
P
Q
N
H
T
P
S
F
K
K
Y
N
I
S
Y
N
Y D E Y Y Q L L L I K M W Q L S Q I Y K P S S K Q S L S S F L F T R L N F H L I D L F R Q Q N Q L K D V I L C E N N S P T L T E Q P T Y F N E H D L R L Q D I F K F L N H R E R L W L K L Y L E G Y K Q F E I A E I M S L S L S T I K L I K T S V K R K C Q H N F N * |
Maingene=or0163; Extension SUCCEEDED with start of type NONCANSTART; Comments=For manual analysis, pseudo or non-canonical start codon, extended gene >80% median/second shortest homolog | |
| or1439, or1440 | 3738 | 4957 | join (3738..4280, 4280..4957) | putative pseudogene |
a
t
g
t
g
g
t
t
a
g
a
a
a
a
a
t
t
t
a
a
a a a t a a g a a t a a a g a a a c t a a a t a t a g a t a t t a c g a g a a g t a c a a a g a c c c t c t c a c t g c c a a a t g g a g a c g t g t t a g c g t g g t a c t t a a t a a g a a t g g t a a g c a a t c a c a a a a a g a a g c t c a a a g g c t c t t a a a t g a g c g t a t a g a a g c g a a a c t g a a t g a t a a g a c a c c t a c t a c a c t t a a g t c a c t a a c t t t c c a t g t c g c a t g t g a t g a g t g g t t t c a g a a t t a t a t c a a a a c g t c t g g g t c a a a a a g a a c a a c t a t t a a a a c t a a a t t g a g t a a g c t a a a c a c t t t g a a g a a a t t t g t a g a t g a a g a t a t t t t a a t c a a t a a a a t a a c a c t t t c a t a t g c g c a a c a a g t t t t c g a t g a a a t g g a t a a t a a a g g t t a t g t a t a t c a a g t a a a c a a a g a t g c g t t a a g c a t a t t c a a a a a t g t a t t t g a a t a c a c t a g a c g t a t c t a t a a a c t g c a a g a t t t a g a a t t t t t a a a a g a t a t a a c g t t a a a t a a a a g a a t t a a g t c t t a t g a t g a a g t g a a g g c t a a a c g t a a t a a g t a c c t c g a a t t a a a t g a a a t a c a a t c t a t c a t c a a a g a t a t t a a t a c g a a g g c t c a g a a g a t g c a c t c a g g t a t c c a t a a g c g g t t t t a t t t a t t c g t t g c a c t c a t g a c a g a a t t c c a a g c c t t a a a t g g t a t g c g t a t t g g t g a a a t g t t a g c c a t t c a a a a t g a a g a t a t a g a c t t t g a t a a t a a g a g t t t a a a t a t t a a c g g a a c a a t c c a t t g g t t t c a c g a t g a a t c t g g t g g a t t c g g t g t a a a a g a t a c c a c t a a a a c a g a g t c t a g t t a t a g a a c a a t t g g a t t g a g t a g c a g a a g t t g c g a g a t a t t a a a g a a a g c a a t a c t g g a g a a c a a a a a g g a t t c a a a a t g g a a t g a t g g a t a t c t a a a t a g a a a t t t t g t a t t t a c t a a t c a t a a a g g c a a c c c a a t g c a g a c t g a a a g a t t c a a t a a a a t c c t t a g g g a a g c a g c t a a a g a t g t t g g t a t t g a t a a a g a a g t t t c t t c a c a t a t a t t a a g a c a t a g c c a c a t a t c a t t a c t c t c t c a a c a a g g c g t g t c a c t t a a a g c t a t t a t g g a t c g t g t a g g c c a t t c c g a c c a c c g t a c a a c a c t t t c c a t t t a t t c t c a c g t t a c t g a a c a g a t g g a t a a g g a t a t g a t g a a c a a a c t t |