MmuINT0154706 @ mm9
Intron Retention
Gene
ENSMUSG00000027882 | Stxbp3a
Description
syntaxin binding protein 3A [Source:MGI Symbol;Acc:MGI:107362]
Coordinates
chr3:108629944-108630540:-
Coord C1 exon
chr3:108630491-108630540
Coord A exon
chr3:108630026-108630490
Coord C2 exon
chr3:108629944-108630025
Length
465 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
CTAATTTCCTTTGTTTTAAGATA
3' ss Score
7.45
Exon sequences
Seq C1 exon
AGATAAAAACAGCCGTGTTCGATGACTGCCGGAAAGAAGGCGAATGGAAG
Seq A exon
GTAGAAGCTGTGTGATTGCTCCTCTGTGGAGGGAGGGCTTCAGTGCATTGTGCTTCCATAGGACAGAGGCCTGGAGCTTCTCCTCAGACCGAGCTTTGCCACGAGCCGTGGCACCTTAAGCAAGGCGCATAGCAGTCCCTTGCTTCCTTGTCTAGAGGATGGGACTGCAGCACATCGTAGCTGCAGATGCTAAGCGTTTGCACAGAGCTCTATAGCGATGATTCTGTAAAGGACATTACATTTTCAGAAAATTTGATGTTAAACATTGATATACTTACAATGAACAAGCTCTGCTTCAGAATAGAAATATTTCTATTTTATTACCTGTATGAAATATCTCCATGTATGTGTATTGAGAAAGGACTCCCACCAGATCAAGCTAAAAGAGGGATTTCTAAAACTCTGGGTTTTTGTTAAATCTTGACAGTCACCTTTATGCTCTTTCCTAATTTCCTTTGTTTTAAG
Seq C2 exon
ATAATGCTGTTAGATGAGTTTACCACCAAACTTTTGTCGTCATGCTGCAAAATGACAGACCTTCTAGAGGAGGGCATAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027882-Stxbp3a:NM_011504:2
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=PU(0.3=5.9)
A:
NA
C2:
PF0099518=Sec1=FE(43.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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: