MmuINT0154686 @ mm10
Intron Retention
Gene
ENSMUSG00000004626 | Stxbp2
Description
syntaxin binding protein 2 [Source:MGI Symbol;Acc:MGI:107370]
Coordinates
chr8:3641735-3642055:+
Coord C1 exon
chr8:3641735-3641820
Coord A exon
chr8:3641821-3641897
Coord C2 exon
chr8:3641898-3642055
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTACCCATCACCCCAGCAGCGC
3' ss Score
3.22
Exon sequences
Seq C1 exon
GATGTGGTGGAGGACCGGCTAGACCGAAAGCTGTGGCCCTTTGTGTCTGACCCTGCCCCTGTGCCTAGCTCCCAGGCAGCTGTCAG
Seq A exon
GTGAGGGCCCTGGAGAGGCCTGGGTTGGGGGTTGGGAGCTGCCAGCCTGGACTGACCTCTACCCATCACCCCAGCAG
Seq C2 exon
CGCTCGCTTTGGCCACTGGCACAAAAACAAAGCTGGAGTAGAGGCCCGGGCTGGGCCTAGGCTCATCGTGTACATTGTGGGTGGTGTCGCCATGTCGGAAATGAGGGCTGCCTATGAGGTGACCAGGGCCACTGAGGGCAAGTGGGAGGTGCTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004626:ENSMUST00000160708:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(26.1=100)
A:
NA
C2:
PF0099518=Sec1=FE(9.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGCCCTTTGTGTCTGAC
R:
ACCTCATAGGCAGCCCTCATT
Band lengths:
176-253
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