MmuINT0154691 @ mm9
Intron Retention
Gene
ENSMUSG00000004626 | Stxbp2
Description
syntaxin binding protein 2 [Source:MGI Symbol;Acc:MGI:107370]
Coordinates
chr8:3633848-3634123:+
Coord C1 exon
chr8:3633848-3633926
Coord A exon
chr8:3633927-3634019
Coord C2 exon
chr8:3634020-3634123
Length
93 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GTCTCTCCCTGCCAACCCAGCAT
3' ss Score
3.43
Exon sequences
Seq C1 exon
TCGGTTCAGGCCCTGATTGCGGACTTCCAGGGAACACCAACCTTCACCTACAAAGCAGCCCATATCTTCTTCACTGACA
Seq A exon
GTGAGTGAGGCGAACCAGGGTGTAGGTTGCTGTGCTGAGGTGGGGAGTTTGATGACAGGACATTGGTCTGACGGTCTCTCCCTGCCAACCCAG
Seq C2 exon
CATGCCCTGAGCCCTTGTTCAGTGAACTGGGCCGCTCTCGCCTGGCGAAGGCGGTGAAGACATTGAAAGAGATCCACCTTGCCTTCCTCCCCTATGAGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004626-Stxbp2:NM_011503:5
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=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.7=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.3=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:
GCCCTGATTGCGGACTTCC
R:
TCATAGGGGAGGAAGGCAAGG
Band lengths:
167-260
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: