GgaALTA0005236-1/2 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000009920 | COCH_CHICK
Description
NA
Coordinates
chr5:36614845-36615364:+
Coord C1 exon
chr5:36614845-36614978
Coord A exon
NA
Coord C2 exon
chr5:36615302-36615364
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTCGTAGGT
5' ss Score
4.63
3' ss Seq
TTCTTCCAATATTTTAGCAGGTA
3' ss Score
5.57
Exon sequences
Seq C1 exon
AGGGGTGATCACCAACGCAGGAGGAGCTGTAAGAGTACAGACTCTCCCAGGACAGGAAAACTACCCGGCTGTACATGCCAATGGGATCCAGTCTCAGGTGCTCTCTAGATGGGCTTCATCTTTCTCAGTGACTC
Seq A exon
NA
Seq C2 exon
GTACCAACAACCTAGCGCTTGAAGCAGTGGGACGATCAGTTGCAACAGCACGACCTGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009920-5-4,5-3-1/2
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=0.000 A=NA C2=0.217
Domain overlap (PFAM):
C1:
PF0381514=LCCL=PD(45.6=89.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
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:
GGATCCAGTCTCAGGTGCTCT
R:
GTTGCAACTGATCGTCCCACT
Band lengths:
97-100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]