MmuINT0140495 @ mm10
Intron Retention
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26430394-26431228:-
Coord C1 exon
chr2:26431105-26431228
Coord A exon
chr2:26430593-26431104
Coord C2 exon
chr2:26430394-26430592
Length
512 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TGATCCCCTGCTTACTCTAGGCC
3' ss Score
7.91
Exon sequences
Seq C1 exon
ACCCCAGCCGCTGGGATCGTTACTATGGGTCTCGCCTTAGGGATCCTCGCACCTGGGACCGGAGGTACTGGTATGACTCTGAACATGACCCATACAGGAAGGACCACTATGCTTACAGTGACAG
Seq A exon
GTTGGTGAAATGAAGGATGTTGGAGGAAGCTGAGGTGTGCTCTTGCTTGTCCTCCTCCTGTCTTTGGGAGTAATCAGCCATAGTTCTGGGGCTTCTGAGAAGTGATCTAGTGTTTGAAAGAGGAAGCACTGGCCACCCCTCCCTGCGCCCACCTAGGACTGGCTCAAACGTATTTCTTCCCAGTAGCTCTGGGAGGACCTGAGGGCTGCCTCCTGTTTTCTTTGGTGTCCCTTCTCCATCCTACTCGTATCCCAGGAAAGGGACTGCCCTCAAGTTGCACCTGCCCTGTATTCTCTGCGATTACCTGCATCTGAACCTAGGATTTGGTTTCTTGGGCCAGGCCTGCAAGGTTAGCTGTACCTTACATTCTTCAAGATGAAGACTGTCCCAGGATGGAGGGAAGGCAGTGAGCAGTGAGAGCGAGCTGCAGCCTCAGAAAGTTCTTGGTAGTTGCGTGGTGTCCCAGGGAACTGGCCTTCCAATCTCCTGCCTTGATCCCCTGCTTACTCTAG
Seq C2 exon
GCCTGAGAAATGTGATGATCACTGGAGGTATGACCCTCGCTTCACTGGGAGCTTCGACGATGACGCTGAGATCCACAGGGACCCCTATGGAGAAGAAGCAGACAGACGCAGCATCCACAGTGAGCACTCGGCACGGAGCCTGCGCAGCACTCACAGTCTGCCCAGCCGCCGCAGCAGCCTCAGCTCCCATTCACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924:ENSMUST00000114082:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.687
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCGCTGGGATCGTTACTAT
R:
CTGGTGTGAATGGGAGCTGAG
Band lengths:
318-830
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