MmuINT0154666 @ mm9
Intron Retention
Gene
ENSMUSG00000026797 | Stxbp1
Description
syntaxin binding protein 1 [Source:MGI Symbol;Acc:MGI:107363]
Coordinates
chr2:32656100-32657449:-
Coord C1 exon
chr2:32657340-32657449
Coord A exon
chr2:32656202-32657339
Coord C2 exon
chr2:32656100-32656201
Length
1138 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
TGATGGGTGCTTGCTTTCAGTCC
3' ss Score
6.24
Exon sequences
Seq C1 exon
GTATCACTGAGGAGAACCTAAACAAACTCATCCAGCACGCTCAGATACCCCCAGAGGACAGCGAGATCATCACCAACATGGCTCACCTCGGCGTGCCCATCGTCACGGAT
Seq A exon
GTAAGGCCAGGCCACAGGCAGGGAGACTGTGGGAGGGAGGCTGGCATACTGTATCTTCATCACGTTCATGATTGACAGCCCATTATGATACAGCGGTATACAACATCAAGAAAGGAGAGAGAGGGAGTGGGAGGGAAGGCGAGAGAGGGAGAGAGAAGGAGAATGAGTCGGAATAGGGAGGAAGGACAGTGAAACAGTTCAAAGTCAGGAATTTGACATATCCAGGAGTCACATGGTCACTAAAGCTGAGCTGTCTCTGAACTTATCCAAAACGGGTCACCCCAACTTCCCCTGCTGTATATCCTGTGTGACACAGACTCAGCATCTCAGGTAAGGATGGCAACATTGTCAAAGGCGCTCTTTTGCTCTGCGTCTTTGGCAGTGGGGTGACCGAGAGCAAAATACAGCAGCCTGTTCAGAAGGTCAGGTCAGGGCTACATAGTGTGCTGTGAGAGAGCAGGCAGACTATCTGATTCAGTGCCTTGAACCCCAGATAGAAAAATCCCCATGTTATTACTTCCCCTTGGAAACAGGCTGCCCACCGGGCAGAGTTCACAAAGCCAATTGGGGTCTTTTTTCTTCTTTCTTTCTTTTTTTTTTGGTTTTTTTTTTGAAGACAGGGTTTCCCTGTGTAGCCCTGGCTGTCCTGGAATTCACTCTATAGACCAGGCTGGTTTCGAACTCAGAAATCCGCCTGCCTTTTCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACTGCCTGGCTCCAACTGGTGTCTCTAGGAGGGACTAGGTTCCACTGACCTGACCAGTGACCTGCAGCTGGCAGGGTTTGGTGTGTTCATACCTGGGTCACAAAAGGCTCAAAACAGTAGAACTGATTCGTTTAAAACTGCCCATGCTGCTACACAGAGAAACTCTGTCTCAAAGAATCAAAAAACAAAACAAACCCTAGAAAACCCAGACTTGCTCAAGTCTCCCTTGTTTCAGAGTTTCTTAAAGAGGTATATTTCAGGGCTACTCTGAGCAGAACCTCTCCTTTATTACTCTTTGCCATGTTAATTCTGAGGAGGGTCCTTGAGAGAATTCCTAGAAGTCACTGAGACCCAGGATGGCCCCTGACTGGCATCTAACCTGATGGGTGCTTGCTTTCAG
Seq C2 exon
TCCACACTACGCCGCCGAAGCAAACCGGAGCGGAAGGAGCGTATCAGTGAGCAGACCTACCAGCTCTCACGATGGACCCCGATCATTAAAGACATTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026797-Stxbp1:NM_009295:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.382
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(6.5=100)
A:
NA
C2:
PF0099518=Sec1=FE(5.9=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:
AGAACCTAAACAAACTCATCCAGCA
R:
TCCATAATGTCTTTAATGATCGGGGT
Band lengths:
199-1337
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: