HsaALTA0007561-1/5 @ hg38
Alternative 3'ss
Gene
ENSG00000148396 | SEC16A
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr9:136446855-136447364:-
Coord C1 exon
chr9:136447227-136447364
Coord A exon
NA
Coord C2 exon
chr9:136446855-136446949
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CCTCGCTCTCTCATCCCCAGATG
3' ss Score
11.76
Exon sequences
Seq C1 exon
CAGGAACCAGAGCTCGCTACGTTGACGTCCTGAACCCAAGCGGGACCCAGCGGAGCGAGCCGGCTCTCGCTCCTGCGGACTTTGTCGCTCCACTCGCGCCACTCCCAATTCCTTCTAACTTGTTCGTGCCAACCCCAG
Seq A exon
NA
Seq C2 exon
ATGCAGAAGAACCACAGCTTCCAGACGGGACTGGCAGGGAAGGGCCTGCAGCAGCTAGGGGCCTGGCCAATCCAGAGCCTGCCCCAGAGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148396-58-66,58-65,58-64,58-63,58-62-1/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTGACGTCCTGAACCCAAG
R:
GGAAGCTGTGGTTCTTCTGCA
Band lengths:
141-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains