MmuINT0154685 @ mm10
Intron Retention
Gene
ENSMUSG00000004626 | Stxbp2
Description
syntaxin binding protein 2 [Source:MGI Symbol;Acc:MGI:107370]
Coordinates
chr8:3641111-3641820:+
Coord C1 exon
chr8:3641111-3641206
Coord A exon
chr8:3641207-3641734
Coord C2 exon
chr8:3641735-3641820
Length
528 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAC
5' ss Score
5.99
3' ss Seq
CTTCCTGTCTGGCTCCCCAGGAT
3' ss Score
10.13
Exon sequences
Seq C1 exon
GGCTCAGGGACCTCTAGCCGGCTGGAGCGGAGAGAGCGCATGGAGCCCACCTACCAGCTGTCTCGCTGGTCCCCAGTCATCAAGGATGTGATGGAG
Seq A exon
GTACACAAGTTGGGGGCCCCTATTCCTCTCCACTGATCCCATTAGCCACTAAGCCCTCCACCCCACCCGCCCAGGCTCTCAGTGGTAAGCCTTGGGGCTTAGTGGAAAATCCCTCATTATCAGCATACCCCTGGCACCCTATCTGCTCTACATGGGTGGGGGCACACAAAACTGCACCCCAGGAACTGGGGCAGCGAGGAATTCCTTGCTTGTGACTCTAGCTTTCTCTACCCCCTGTGTTCCCCTGTAAGCTCTCTCCTGTCCTCCAGAAGCCTCTCATGCTGGCCCCTGGCCCCCCACACTCCAAAGCCTCATAACCAAATAATAATCTATCAGAGGCTCTGTCTTTATCAGTTTGTGGAAATGTCCTGGTACCTCCTGCTTGGGGACCCAACAACCTTGCACCTTAGCTTCCTGGATTCCTGGGTCCCCAAGAGACAAGGAAGCATAGACAGTGGTACCATGGTCATTTCAGTTGCTGAGCTCCACTGGCTGGGGTTCTTTAACCCTTCCTGTCTGGCTCCCCAG
Seq C2 exon
GATGTGGTGGAGGACCGGCTAGACCGAAAGCTGTGGCCCTTTGTGTCTGACCCTGCCCCTGTGCCTAGCTCCCAGGCAGCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004626:ENSMUST00000160708:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.385 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(5.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(26.1=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GGCTCAGGGACCTCTAGCC
R:
CTGACAGCTGCCTGGGAGC
Band lengths:
182-710
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