MmuINT0138989 @ mm10
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89304881-89305261:-
Coord C1 exon
chr15:89305163-89305261
Coord A exon
chr15:89305086-89305162
Coord C2 exon
chr15:89304881-89305085
Length
77 bp
Sequences
Splice sites
5' ss Seq
AATGTATGG
5' ss Score
3.37
3' ss Seq
GTCTGCCCATGTTCCCTCAGGAA
3' ss Score
10.71
Exon sequences
Seq C1 exon
CTGGTGGCTCATGAGGTAGCACGGATGCGAGCAGATGAGAGCCATCCCCACCGTGTCCTGCGTCATGTCCAGGAACTGGCAGAGCAACTTTATAAGAAT
Seq A exon
GTATGGTGGGTGACATGGAGGGCATGCTACCACTTTGGTCCTGGCCCACTAGCCAATGTCTGCCCATGTTCCCTCAG
Seq C2 exon
GAAAACCCGTACCCAGCTGTGGCGATGCACAAAGTGCAGAGGCCAGGAGAGGCCAGTCACCTGCGGCGGACCCACCGGCCATTCCCCCGGCTAGATGAGGGCACAATTCAGTGGATTGTGGACCAGGCTGCGGCCAAGATGCAGGGCGCACCTCCAGCTGTCAAGGCTGAGCGGAGGAGCACTGTGCCTTCAGGGCCCCCCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529:ENSMUST00000123791:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.580
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123353=SBF2=PU(2.7=8.7)
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:
ATGCGAGCAGATGAGAGCCAT
R:
AATTGTGCCCTCATCTAGCCG
Band lengths:
183-260
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