MmuINT0138986 @ mm10
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89305544-89306072:-
Coord C1 exon
chr15:89305995-89306072
Coord A exon
chr15:89305658-89305994
Coord C2 exon
chr15:89305544-89305657
Length
337 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GCACCGACCTGCTCTCCCAGGAC
3' ss Score
7.11
Exon sequences
Seq C1 exon
GTCCTGGATCCAGAACTGGAGTTGGCTGACCTTGCCTTCCCACCCCCTACAACATCTGCTTCCTCCCTGAAAATGCAG
Seq A exon
GTGGGGGTCACTGCTGCTCTGGGATAGAGATTGCATTGCCTCTCATGGCTAAGCTGATGGTGTCACAGCCCTACCTCCAAGCTGACCTCAGGCTTCTCTAGCCTGGGAGCAAAGGAGCTATACAAACAGTTAGGTGTGGTGACGGTACCAGTCAGTACAGTGAACCGATCAAGGGGCTCTGAACAGGAGCTGTCTGTTCAACACTTGTAGAACTCACTGGGCTAAGAAGCACTGTTGGGAGAGGCAAAGGGGGGTGGCAGAGGTGCCTGGGAAACCTGTGTCGGGCTGTGAGTGTTTTCTGGGACCTGATACTCACTGCACCGACCTGCTCTCCCAG
Seq C2 exon
GACAAGGAGCTCCGTGCTGTCTTTCTGCGGCTCTTTGCTCAGCTCCTGCAAGGCTACCGCTGGTGCCTGCACATCGTGCGCATCCACCCAGAGCCCGTCATCCGCTTCCATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529:ENSMUST00000123791:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=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:
CAGAACTGGAGTTGGCTGACC
R:
CTTATGGAAGCGGATGACGGG
Band lengths:
182-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types