MmuINT0154693 @ mm9
Intron Retention
Gene
ENSMUSG00000004626 | Stxbp2
Description
syntaxin binding protein 2 [Source:MGI Symbol;Acc:MGI:107370]
Coordinates
chr8:3634475-3635530:+
Coord C1 exon
chr8:3634475-3634623
Coord A exon
chr8:3634624-3635445
Coord C2 exon
chr8:3635446-3635530
Length
822 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGG
5' ss Score
0.53
3' ss Seq
TTTGACTGCGTCACCTCCAGGGG
3' ss Score
8.26
Exon sequences
Seq C1 exon
GTGTTCTCTCTGGATGCCCCACATAGCACCTACAACCTTTACTGTCCATTCCGAGCAGGGGAGCGGGGGCGGCAGCTCGATGCACTGGCCCAGCAGATAGCCACACTGTGTGCCACTCTTCAGGAATACCCATCCATCCGATACCGCAA
Seq A exon
GTGGGGACCAATCCCCACCCCTACCTTAGTGCTACCTTTTATCTTCACTCTCACTCTGTGTCCATTTATCCCCCTGTGCGTATGCACATGTTCATGTGTGTGCATGTATGTATGTGTGGAGGTCAGAGGTCAACCTCAGGTGTCTTCCTCAGTTACCATCACCTTTATGGTTTTTTTTTTTTTTTGTTTTGTTTTGTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAGCTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGACTGCTGGGATTAAAGGCGTGCGACACCACGCCCGGCCACCTTTATGTTTTTAAAGATTGAAAAGTTTGTATGTGTGCATGTGAGGGTCCTCATGTAGTGTGGTTCAGAAGAGGGCATCAAACCCTCTGGAGCTAGAGTTACAGGTGCCTGTGAGCCTCTGGATGTGGGTGCTGGAAGCTGAGCTCAGGTCCCTTCGAAGAGCAGTTCGAGCCTTTAACCGCTTAGCTGTCTTTGTGAGAGAAGGTTCTTCCCTGGCCCAGGTTTTCCATCCAGGCCTGAGGATCTCCTGTCTCCACGTCCCCAGCACTGAAAACATCAGGGCTCTTTTAATGCTCTGGGGGATTGAACCTGGCCCTCACACTTGTATGACAGCTGTCTTACTGTCCTGTGTCCAGTCTTTAACTTAACCCTCACCCACACCCCTCACTGCCACCCTCACCCCTACCCTTGATGTCACCAGTCTGTGCCCAGTCCTCCCAGCCCCCACACCCTGATGTTCCTCTGTTTGACTGCGTCACCTCCAG
Seq C2 exon
GGGTCCAGAAGACACAGCCCAGCTGGCCCATGCTGTCCTGGCCAAGCTGAACGCCTTCAAGGCAGACACTCCCAGTCTGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004626-Stxbp2:NM_011503:7
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=0.138
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(8.8=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.1=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:
TTCTCTCTGGATGCCCCACAT
R:
ACTGGGAGTGTCTGCCTTGAA
Band lengths:
222-1044
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: