HsaALTA1034382-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr9:136465962-136466462:-
Coord C1 exon
chr9:136466264-136466462
Coord A exon
chr9:136466131-136466136
Coord C2 exon
chr9:136465962-136466130
Length
6 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGC
5' ss Score
10.12
3' ss Seq
CGTTTGCTTTGTTTTCTAAGAGT
3' ss Score
6.04
Exon sequences
Seq C1 exon
GCCCGAGAAACGTGACAACAACTGGAGGTACGATCCTCGCTTCACGGGGAGTTTTGACGATGACCCCGATCCGCACAGAGACCCTTATGGGGAAGAGGTGGACCGGCGCAGCGTCCACAGCGAGCACTCGGCACGGAGCCTGCACAGCGCACACAGCCTGGCCAGCCGCCGCAGCAGCCTCAGCTCCCACTCGCACCAG
Seq A exon
AGTCAG
Seq C2 exon
ATTTACAGAAGCCACAATGTGGCTGCCGGTTCCTACGAGGCCCCGCTTCCTCCAGGCTCCTTTCACGGCGATTTTGCCTACGGCACCTACCGCAGCAATTTCAGCAGTGGCCCCGGCTTCCCAGAGTATGGCTACCCTGCCGACACCGTCTGGCCTGCCATGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396-21-19,21-18,21-17-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=0.350
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAGCTCCCACTCGCA
R:
CAAAATCGCCGTGAAAGGAGC
Band lengths:
98-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains