GgaALTD0005022-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000012513 | STAM2
Description
NA
Coordinates
chr7:37040789-37042759:-
Coord C1 exon
chr7:37042685-37042759
Coord A exon
chr7:37042671-37042684
Coord C2 exon
chr7:37040789-37040935
Length
14 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TATGCAATTTTGTCTTCTAGGCT
3' ss Score
9.39
Exon sequences
Seq C1 exon
GAGCCTGCGTATCAAACTGTGGAAGAATATTTCACTTAGAAGTTTGTTCTCGTGATTTTGCTACTGAAGCTCGAG
Seq A exon
GTATAATAAATAAG
Seq C2 exon
GCTCATCCAAAAGTAAGTGAGAAGCTGAAAACTCTAATGGTGGAGTGGTCAGAAGAATTTCAGAAAGACCCACAATGTAGCTTAATATCTGCAACTATTAAATCTTTAAAAGAAGAAGGTGTCACTTTTCCTGCTGCTGGATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012513-7-6,8-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(23.0=100)
A:
NA
C2:
PF0079014=VHS=PD(28.9=79.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTGCGTATCAAACTGTGG
R:
GCTTCTCACTTACTTTTGGATGAGC
Band lengths:
99-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]