GgaALTA1015782-2/4 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000002559 | HMHA1
Description
minor histocompatibility protein HA-1 [Source:RefSeq peptide;Acc:NP_001026108]
Coordinates
chr28:2848059-2848638:+
Coord C1 exon
chr28:2848059-2848133
Coord A exon
chr28:2848534-2848536
Coord C2 exon
chr28:2848537-2848638
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CACAGCAGGCTTTGCTTTAGCAG
3' ss Score
-2.12
Exon sequences
Seq C1 exon
GGAGGGGACACCAGGTGCACAAATCCTGGCCGACCTCCACCTCCGAAGCCGACAGCAGCCTGGATTCCAGCACAG
Seq A exon
CAG
Seq C2 exon
GAGAGTTTGGGCACAAACTGCAGCGCTTGTCATCCAATGGCACCATGTCCTCCAGCGAGGAGCTGGGAGAGAAGGATGAGAACGCCGCCTCCTTTGAGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002559-18-24,18-23,18-22,18-21-2/4
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 Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACCAGGTGCACAAATCCTG
R:
GATGACAAGCGCTGCAGTTTG
Band lengths:
102-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]