MmuINT0139028 @ mm9
Intron Retention
Gene
ENSMUSG00000038371 | Sbf2
Description
SET binding factor 2 [Source:MGI Symbol;Acc:MGI:1921831]
Coordinates
chr7:117584464-117585079:-
Coord C1 exon
chr7:117584966-117585079
Coord A exon
chr7:117584593-117584965
Coord C2 exon
chr7:117584464-117584592
Length
373 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
TCACCTTTTTTTCTTCACAGACA
3' ss Score
11.22
Exon sequences
Seq C1 exon
GATAAAGAAGTTCGAGCAGTTTTCCTTAGGTTATTTGCACAACTGTTCCAAGGATACAGGTCATGCCTCCAGCTTATCCGGATCCATGCCGAGCCTGTGATACACTTTCACAAA
Seq A exon
GTAAGGCACAGAGCCAGGTTGTCTGTCAAGTGGACTCATTTCATAGGACCGCACTATTAGCCATGTGTATTGAATTAATTTTTGAATGTCCTTAAAGTCTCTGTGTTATGTGACAAATAGAGTTGGTGTAATATTTTCCTTCAGAATATATAAGCTTAAAATTGATTTTCTCTTGTTAAAGTATTAATCAAGCATTAGTTATAAATTAATACTTGATTTTTTTTCCCCTTGTCCTTTTGGGAGAAATATATTTCATGACAGTGTTTAGTTACACGTAAAGTCATTCAACCAATCTTCAACCTTTCTATTTTTATTTTAACAATTTGGCTCTCTCCGAGTGATAAGTTATCATTTCACCTTTTTTTCTTCACAG
Seq C2 exon
ACAGCTTTCTTGGGGCAGCGTGGCTTGGTTGAGAATGATTTCCTCACTAAAGTGCTCAATGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGACCTCCCTATAGAGCCTGTGATCTCTTTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038371-Sbf2:NM_177324:11
Average complexity
IR-C
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:
PF0345514=dDENN=PU(45.8=97.4)
A:
NA
C2:
PF0345514=dDENN=PD(42.9=69.8)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGTTCGAGCAGTTTTCCT
R:
CTCATCAAAGAGATCACAGGCTCT
Band lengths:
238-611
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: