MmuALTA0016019-3/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26430077-26430592:-
Coord C1 exon
chr2:26430394-26430592
Coord A exon
chr2:26430122-26430249
Coord C2 exon
chr2:26430077-26430121
Length
128 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
CTTGCTCTCTTTCCCAAGAGTCA
3' ss Score
-8.95
Exon sequences
Seq C1 exon
GCCTGAGAAATGTGATGATCACTGGAGGTATGACCCTCGCTTCACTGGGAGCTTCGACGATGACGCTGAGATCCACAGGGACCCCTATGGAGAAGAAGCAGACAGACGCAGCATCCACAGTGAGCACTCGGCACGGAGCCTGCGCAGCACTCACAGTCTGCCCAGCCGCCGCAGCAGCCTCAGCTCCCATTCACACCAG
Seq A exon
TCAGATTTACAGAAGCCACCATGTGACTGGCGGTTCCTTTGAGGCCCCTCATGCCCCAGGCTCATTTCATGGTGATTATGCCTATGGCACATATGCCAGCAATTTCAGCGGTGCCCATGGTTTTCCAG
Seq C2 exon
AGTACAGCTACCCTGCAGACACCTCCTGGCCTGCTGTGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924-18-15,18-14,18-13,18-12-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.687 A=NA C2=0.458
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGATCACTGGAGGTATGACCCT
R:
CTCCACAGCAGGCCAGGA
Band lengths:
226-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types