MmuINT0154665 @ mm10
Intron Retention
Gene
ENSMUSG00000026797 | Stxbp1
Description
syntaxin binding protein 1 [Source:MGI Symbol;Acc:MGI:107363]
Coordinates
chr2:32801820-32802892:-
Coord C1 exon
chr2:32802754-32802892
Coord A exon
chr2:32801930-32802753
Coord C2 exon
chr2:32801820-32801929
Length
824 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGA
5' ss Score
8.6
3' ss Seq
CCAGGAGCCTTGTTTTTCAGGTA
3' ss Score
4.83
Exon sequences
Seq C1 exon
GACCTGGCAATGGGCACAGATGCTGAGGGGGAAAAAATCAAGGACCCCATGAGAGCCATTGTCCCCATCCTGCTGGATGCGAACGTCAGCACTTACGACAAAATCCGTATCATCCTTCTCTACATCTTCCTGAAGAACG
Seq A exon
GTAGGAGCCGGCGGGGGTGAGGAGGACCAGAGGGGCGGGGTGGGGGGGAGCAGAGAGCGAACAGTGCAGATGCCAACCAGCAGCCCTGGGAAGGGGGAGAACGTGAGGCCAAGGGGCCTGCTCGGCAGCCCCAAGTGCACAGGCAGCAGGTGACACAGAGGAGCCACCCAGCTCTCCCAGCCAGCTTGCTAGCACTCAGCCTGCCAGATGCCTCTAGGTTGCATCATTAGTAGTAGAGACCTTTCAACATCTGACATTCAGCCTTTGGGAGGTAGAGGCAGGGGTATTAGGAGTTCAAGGCCAACCTTAGCTACAAAAGTAAGTTTAAGGCCAGTTTAGACTACATGAGACCCTGTCTAAAACAAACCAACAAAACAAAATTCCCCCAAACAAACAACAATAAAAACAAAACAAGCCGGGCAGTGGTGGTACATGCCTTTAATCCTAGCACTTGGGAGGCAGAGGCAGGCAGACTTCTGAGTTCGAGGCCAGCCTGGTCTAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAGCCCCCCCAAAATTGTTTTTACCCATGTCGTTGTACAAAAAACTAGGTAAGGAGTCTTTCTCATCTCGTAGGCAGGGACTGCCGGGATGCCAGGTGGACGGAACAGACTGGGAGGGCAGGCAGCCGTGGTCAGCACAGGGTGGCTCCAGGAGAGCGGAAGGCTCTTCTGACCCCACCATAGATGTAGCCGAGGAGGAGAAGGGAGGCCGAGGTTCTGCACATGGCGGTGGAAATGGCAGGGCTTGGGTACGGTGACCAGGAGCCTTGTTTTTCAG
Seq C2 exon
GTATCACTGAGGAGAACCTAAACAAACTCATCCAGCACGCTCAGATACCCCCAGAGGACAGCGAGATCATCACCAACATGGCTCACCTCGGCGTGCCCATCGTCACGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026797:ENSMUST00000050000:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(9.6=100),PF140711=YlbD_coat=PD(1.0=2.1)
A:
NA
C2:
PF0099518=Sec1=FE(6.5=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:
CCTGGCAATGGGCACAGATG
R:
ATCCGTGACGATGGGCACG
Band lengths:
247-1071
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