DreALTA0013817-3/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000062049 | hmha1b
Description
histocompatibility (minor) HA-1 b [Source:ZFIN;Acc:ZDB-GENE-071213-2]
Coordinates
chr22:17587732-17590042:-
Coord C1 exon
chr22:17589808-17590042
Coord A exon
chr22:17587818-17587825
Coord C2 exon
chr22:17587732-17587817
Length
8 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGATGTTTGTCTGTGTGCAGCAG
3' ss Score
7.56
Exon sequences
Seq C1 exon
GATTGCAGAACTGGAAGACGACAATAAGATGAGTCCCAGTAATCTGGGGATCGTGTTTGGCCCGTCACTGATGCGGCCCCGGCCCTCGGGAGCCACAGTGTCTCTGTCCTCTCTGGTGGATTACCCATATCAGGCCCGCATAGTGGAGACCCTCATCGTGTTTTATCCCTCCATTTTTCAGTCAGAGTCCAGTCGGCCTGCAAGCAGCAGCACCCGCACACAGTCTCTACAGCAG
Seq A exon
CAGAGCAG
Seq C2 exon
CATTGATGAAGAACGCTGCTCTAATGATGAACAAGGCCTCCCAGATGAACCTGCAGCTGTTGAATTAGACAAGCTGGAGGACCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062049-20-27,20-26,20-25-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(18.1=40.5)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCACACAGTCTCTACAGCAG
R:
CGTGGTCCTCCAGCTTGTCTA
Band lengths:
107-115
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]