MmuINT0139009 @ mm10
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89294144-89294504:-
Coord C1 exon
chr15:89294403-89294504
Coord A exon
chr15:89294330-89294402
Coord C2 exon
chr15:89294144-89294329
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ACATCTGCTGGTGTTGGCAGGTG
3' ss Score
7.36
Exon sequences
Seq C1 exon
ATCCACAAGCTGCTGCAGATATCGGTGCTGGTAGTGGAGCTGCTCGACTCTGGCTCCTCTGTCCTGGTGAGCCTGGAGGACGGCTGGGACATCACCACTCAG
Seq A exon
GTGTGTGCAGGTGCGGGGAAGCGGGGAGGGCAGGGTCCTCCAATGTCCTCCTGACATCTGCTGGTGTTGGCAG
Seq C2 exon
GTGGTATCCTTGGTGCAGCTGCTCTCAGACCCCTTCTACCGCACTCTGGAAGGCTTCCGACTGCTAGTGGAAAAAGAGTGGCTGTCCTTTGGCCATCGTTTCAGCCACCGCGGGGCCCACACCCTAGCTGGGCAGAGCAGTGGCTTCACACCCGTCTTCCTGCAGTTCCTGGACTGTGTACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529:ENSMUST00000123791:31
Average complexity
IR
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:
PF066029=Myotub-related=FE(7.6=100)
A:
NA
C2:
PF066029=Myotub-related=PU(54.3=98.1)
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:
ACAAGCTGCTGCAGATATCGG
R:
CACTAGCAGTCGGAAGCCTTC
Band lengths:
167-240
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