RnoALTA0035432-4/4 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3876431-3876944:-
Coord C1 exon
chr3:3876746-3876944
Coord A exon
chr3:3876476-3876605
Coord C2 exon
chr3:3876431-3876475
Length
130 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TGCTTGATCTCTTTCCCAAGAGT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GCCTGAGAAATGTGATGATCACTGGAGGTATGACCCTCGCTTCACTGGGAGCTTCGATGATGACACTGAGCTCCACAGGGACCCCTATGGAGAAGAAGTAGACAGACGCAGCATCCACAGCGAGCACTCAGCCCGGAGCCTGCGCAGTACTCACAGCCTGCCCAGCCGCCGCAGCAGCCTCAGCTCCCATTCACACCAG
Seq A exon
AGTCAGATTTACAGAAGCCACCATGTGACTGGCGGTTCCTTTGAGGCCCCCCATGCCCCAGGCTCATTTCATGGTGATTATGCCTATGGTACCTATGCCAGCAATTTCAGCGGTGCCCATGGTTTTCCAG
Seq C2 exon
AGTACAGCTACCCTGCAGACACCTCCTGGCCTGCTGCGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122-11-13,11-12,11-11,11-10-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.687 A=NA C2=0.525
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCACTGGAGGTATGACCCT
R:
GCAGGCCAGGAGGTGTCT
Band lengths:
218-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]