GgaALTA1015781-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000002559 | HMHA1
Description
minor histocompatibility protein HA-1 [Source:RefSeq peptide;Acc:NP_001026108]
Coordinates
chr28:2847786-2848133:+
Coord C1 exon
chr28:2847786-2847934
Coord A exon
chr28:2848056-2848058
Coord C2 exon
chr28:2848059-2848133
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CAGAGCTCTTCCTCCCACAGCAG
3' ss Score
6.44
Exon sequences
Seq C1 exon
GTCCCCCTTCACCCGCGCGCGGAAGGGCAGCTTCAACGCCAGCGACTTCTCCAGCAGCGGTGGCTCTGATGGGGCCGGACTGCCCAGGGATGGGAGCAGCACGGAGGGACCCAGAGAGACCCAGGGTGGGACGCTGGCAGAGCGCAGAG
Seq A exon
CAG
Seq C2 exon
GGAGGGGACACCAGGTGCACAAATCCTGGCCGACCTCCACCTCCGAAGCCGACAGCAGCCTGGATTCCAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002559-17-20,17-19-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.784 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
CCAGGGATGGGAGCAGCA
R:
CAGGATTTGTGCACCTGGTGT
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]