DreALTA0013818-1/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000062049 | hmha1b
Description
histocompatibility (minor) HA-1 b [Source:ZFIN;Acc:ZDB-GENE-071213-2]
Coordinates
chr22:17587216-17587825:-
Coord C1 exon
chr22:17587732-17587825
Coord A exon
NA
Coord C2 exon
chr22:17587216-17587316
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACGGTACTA
5' ss Score
5.07
3' ss Seq
GCTCTGTCGTGTGTCAGCAGAGA
3' ss Score
5.09
Exon sequences
Seq C1 exon
CAGAGCAGCATTGATGAAGAACGCTGCTCTAATGATGAACAAGGCCTCCCAGATGAACCTGCAGCTGTTGAATTAGACAAGCTGGAGGACCACG
Seq A exon
NA
Seq C2 exon
AGAGTTGTACAGGAACCCCAGACTCTCTGGAGCACAGTCTGGACTTGGATTCAGACCCAGAGGCAGAGCAGCCTGTTGATGAAACGTCTATCCAAAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062049-21-30,21-29,21-28-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
TGAACAAGGCCTCCCAGATGA
R:
TCCAGACTGTGCTCCAGAGAG
Band lengths:
102-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]