MmuINT0154661 @ mm9
Intron Retention
Gene
ENSMUSG00000026797 | Stxbp1
Description
syntaxin binding protein 1 [Source:MGI Symbol;Acc:MGI:107363]
Coordinates
chr2:32663522-32664728:-
Coord C1 exon
chr2:32664621-32664728
Coord A exon
chr2:32663583-32664620
Coord C2 exon
chr2:32663522-32663582
Length
1038 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGA
5' ss Score
5.9
3' ss Seq
TGCCTCCCCCCACTTTGCAGGGA
3' ss Score
9.85
Exon sequences
Seq C1 exon
GTATGAGACCAGCGGCATTGGAGAGGCGCGGGTGAAGGAGGTGCTACTGGATGAGGACGATGACCTGTGGATTGCGCTGCGACACAAGCACATCGCAGAGGTGTCCCA
Seq A exon
GTAAGAACTCTGCTGCCCCTTTCCCAGGGTGGGCCCTTAACCCTGGGCTGAGAGTGACCATGCACACTCAGCAACCTGGGGAGTGAGCTCATCGCCTTGGCAACATTGCCCACATGCTAGCCAAGACAGACAGGTCCCTCCTGTTCCTTGAATGTGTGCTTCTCCAGTTTCACCAGCTTAAAAAAAATCCACCCTTTACTGGGCAGTGATGATACACATCTTAATCCCAGCAGTCAGGAAGCAGAGGCAGGAGGGTCTCAGAGTTGCAGGACAGCCTGGTCTACAGAGAGAGTTCCAGGACAGCCAGGGCTACACAGAGAAATGCTGTTTCAAAAAAAAAGAAGAAGAAGAAAAGAAAAAGAAAGGAAAACAGGAAGGAACGAAGGAAGGAAGGAAGGGGAGAGAGAGAGAGAGAAAGAGAAAGCTATTGATCCATGGGATCGGATGGGATGTAGCTTAGAAGTAAGGCCCTTTCCTGACCTTGACAAGGTCCTGGATTCAACCACCAGCTCTGCAAAAATAGTGCTTTAGTAGGGGTGGGTTTGTTCTGTTGTGGTGTTTGTTTGTTTGTTTTTGAGACAGAGTTTCTCTGTTTAGTCCTGGATGACTACAAACTCAAAGATCCCCCCCACCTCTGTTGGGATTAAAGGCCTGTGCTACCACAACTAATATTGGAGTAGGAATACTGGCCCATATTTCCTGTCGTTAAATTTATTTATCATCTAGTTATATATTACATATATTTGTATTTTCCCAACACAAAACAGGAGTGTTTCAATGTGTGTGTTTTTAGAAAGGAAGAAAGAAACTAAACACAGTGGACAGTCCCATGCTGTCCCTTTGCCCTGGAATCATGTGACACACACTGTCCTGGAGATCAGTGGTTTAGAGTGTCAGTCAGAACTATATGTTAAACGCATACCTCAGTGGGAAGAGAATCACCACTTAGTCCCAAGGAAGGCTCCACATGGCTTCAGTGGTCTCTGCAGAGAGCCCTGGGCACTGTGTTGAGCATGGCTGCCTCCCCCCACTTTGCAG
Seq C2 exon
GGAAGTCACCCGGTCTCTGAAGGACTTTTCCTCTAGCAAGAGGATGAACACTGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026797-Stxbp1:NM_009295:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100),PF140711=YlbD_coat=PU(28.0=75.7)
A:
NA
C2:
PF0099518=Sec1=FE(3.6=100),PF140711=YlbD_coat=FE(20.0=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: