MmuINT0154684 @ mm10
Intron Retention
Gene
ENSMUSG00000004626 | Stxbp2
Description
syntaxin binding protein 2 [Source:MGI Symbol;Acc:MGI:107370]
Coordinates
chr8:3639508-3641206:+
Coord C1 exon
chr8:3639508-3639617
Coord A exon
chr8:3639618-3641110
Coord C2 exon
chr8:3641111-3641206
Length
1493 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
CCACCTGGCCCCCTCTGTAGGGC
3' ss Score
8.71
Exon sequences
Seq C1 exon
GGGTGAGTGAGGAGAACCTGGCCAAGCTGATCCAGCATGCCAACGTGCAGTCGTACAGCAGCCTCATCCGGAATCTGGAGCAGCTGGGCGGCACTGTCACCAACTCCGCG
Seq A exon
GTACGTAGGGAGCTGATGAGCCGTGGAACATGGCCCTTACAGGATTAGGGATGATATACGCTCAGCTTTGGGTGTGCAAGCATAGCACGGCATTTTAGGGACCAAGAACTTCAAGACCTTCCCTAATTCACTAACATGGTGGACAGTGGGGTTAAATTAGGGCCCTTGGCTGGTGGTACAAGGTGTGTGTAGCCTGAGCCTTCTGGGGCAGGTGGAAGAGTGAGTCACCAATAATGGGAAACGGTAAAACTGGGGGGGTCTGAGGGATTGGTAAACTTCCCACCCCACCCAGTACACATGGTGGTTTTCTGTGCTCCACTCTGTAGTCTGCTTATCCCTAACCTATATATATGTCCAGATTTGCCAGATCCTTCTGTAACACTGGCCTGGGACCTTGTGTCTTGACCTCCTTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTATCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTTTTTCTCTCTCGCTCTTGCTCTCACTCTCACTCTCACTCTCATACACACAAACACATTACTATTTTGAGGCACATTTTACTTTATAGCTTAGGCTAGCCTTGAACTTACTCTGCAGCTAAGGCTGATCATAAACTCACTCCATAACTCAGACTGGCCTCCAATTCATGGCCATCCCATTGTATTAGCCTCCTGAGTACCTGGGATTACAGATGTGAGAGCTGTCATGTCTGTCCTGTCCCTTGCCTCTTGCTGTTTCTGTAGCCTTTACCTGACTTACATATTTCTTCTTTTTCTTTGTTCTGCTTTTCTCTTCCCATTTCTGTTTTCTTCTGTCTCCCTGTTCATCCCTACCCCTCTCTCCCTGCCTTTGTGTCCATCTCTGTATCTGTGTGTCTATATATGCCTCTCTCTGTTTCTTTGTCTTTTCTTTTTTTTTTTTTTTTTTTTTTAAGATTTATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGTCAGATCTCGTGATCAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCTGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCTTTTGTCTTTTCTTGTCTCAGTCTCTTACATCTCTGTGTTTTTCTGTCTCTTATCTCCCATGTCTGTTTGTCTTTACCTGTCTCTCTGTCTCTACACATCATTCTCTGTCTCTCTGCCTCTCTCTCTACCTCTGTTTCTGCCTCTGCCTATCTATGCTTCTCCAGTTCTCTTTGCCTCTGTCTCTCTTTGCTTTTCCTCTGTCTTTCTGTGTCTCTGTCTCTGTTTTTCTTTTCTGTCTCTTTTTGCTGCTGCTTCCCTTTGTCTCTATCTCTTCCTGCTCTATTTCTCTATCTTTCTGTGTACCTCCATAGCCCCTCCTCATCTGTGATGGACCTCCTTCCCTTCCCAATCCCATTTGGTCCCCACCTGGCCCCCTCTGTAG
Seq C2 exon
GGCTCAGGGACCTCTAGCCGGCTGGAGCGGAGAGAGCGCATGGAGCCCACCTACCAGCTGTCTCGCTGGTCCCCAGTCATCAAGGATGTGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004626:ENSMUST00000160708:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.385
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.8=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:
GAGAACCTGGCCAAGCTGATC
R:
TCACATCCTTGATGACTGGGGA
Band lengths:
190-1683
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