MmuINT0140476 @ mm10
Intron Retention
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26425476-26425884:-
Coord C1 exon
chr2:26425767-26425884
Coord A exon
chr2:26425588-26425766
Coord C2 exon
chr2:26425476-26425587
Length
179 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
GTTGCTCTGTTTCTCTTCAGCAT
3' ss Score
8.8
Exon sequences
Seq C1 exon
TGTTGTGGCGATGAGAAGTGGGGAGATTGGAGGCCACATCTTGCAATGGTTTTGTCCAACCTGAACAACAACATGGATGTTGAATCTAGGACCATGGCTACGATGGGTGATACTCTAG
Seq A exon
GTAGGTTAGGTGTGAGGTAGGCCTTTGGCTGTCATGTGATAGATCCCAGAGTCTGACTGTGTGAACAACTGTGCCAGAACCATAAGAGATGTGGCTTTCATAAGTCCAGTGTCTCTTTGGCACCTTGCCTGAAGAGTTTCCAAGGACTGATGAGATGTGGTTGCTCTGTTTCTCTTCAG
Seq C2 exon
CATCAAAAGGCCTGTTGGATGCTGCACACTTCTGCTACCTGATGGCCCAGGTTGGATTTGGGGTTTATACAAAGAAAACTACAAAACTTGTCTTGATAGGCTCAAATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924:ENSMUST00000114082:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(14.8=100)
A:
NA
C2:
PF129312=Sec16_C=FE(14.0=100)
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:
TGTTGTGGCGATGAGAAGTGG
R:
TGAGCCTATCAAGACAAGTTTTGT
Band lengths:
222-401
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