MmuALTD1013428-3/4 @ mm10
Alternative 5'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
chr2:26430474-26430592
Coord A exon
chr2:26430392-26430473
Coord C2 exon
chr2:26430077-26430251
Length
82 bp
Sequences
Splice sites
5' ss Seq
GGTGTGCTG
5' ss Score
-13.57
3' ss Seq
TGCTTGCTCTCTTTCCCAAGAGT
3' ss Score
6.68
Exon sequences
Seq C1 exon
GCCTGAGAAATGTGATGATCACTGGAGGTATGACCCTCGCTTCACTGGGAGCTTCGACGATGACGCTGAGATCCACAGGGACCCCTATGGAGAAGAAGCAGACAGACGCAGCATCCACA
Seq A exon
GTGAGCACTCGGCACGGAGCCTGCGCAGCACTCACAGTCTGCCCAGCCGCCGCAGCAGCCTCAGCTCCCATTCACACCAGGT
Seq C2 exon
AGTCAGATTTACAGAAGCCACCATGTGACTGGCGGTTCCTTTGAGGCCCCTCATGCCCCAGGCTCATTTCATGGTGATTATGCCTATGGCACATATGCCAGCAATTTCAGCGGTGCCCATGGTTTTCCAGAGTACAGCTACCCTGCAGACACCTCCTGGCCTGCTGTGGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924-17-12,18-12,19-12,20-12-3/4
Average complexity
Alt5
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
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATGACGCTGAGATCCACAG
R:
ACCGCTGAAATTGCTGGCATA
Band lengths:
176-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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