MmuINT0139003 @ mm9
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89130136-89130859:-
Coord C1 exon
chr15:89130652-89130859
Coord A exon
chr15:89130333-89130651
Coord C2 exon
chr15:89130136-89130332
Length
319 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GAAACCTCCAACTCCTACAGCTA
3' ss Score
5.46
Exon sequences
Seq C1 exon
TGTCAGAGGAGCTGGAGCCTAGCACACTGACCCCGTCCTCAGCCCTGAAGCCCTCTGACCGCATGACCATGAGCAGCCTGGTGGAACGGGCATGTTGCCGTGACTACCAGCGCCTTGGACTAGGTACCCTGAGCAGCAGCCTGAGCCGGGCCAAGTCTGAGCCCTTTCGCATCTCTCCTGTTAATCGCATGTATGCCATATGTCGCAG
Seq A exon
GTGAGGGCTGGCTAGAACATGCCAGGAAGATTTTGCTGGGACTGACTAGGGTGGTAGGCAGTGCTCGGACACCTTCCCTGCTTGCCATGGATCCTGGAGAAACAAGGAGCATGGACAGGAGGTGGATAGAGAGTTGGGTTGCAGGTTTGGTGGAGGCTCCCAGATAAGCATAAAGTACCTTTGGCCTTTAGAGTTGGGAGCCATGAATTTGCTCCTTGGTGCTCATCCTGTTAGCTCTTCCTGCCTCCTGTGTGTAAGGCTGCGGGTAGGCACGGGCAAGGCCTCAGAGCTGTCCTCATGAAACCTCCAACTCCTACAG
Seq C2 exon
CTATCCAGGATTGCTGATTGTTCCCCAGAGCATCCAGGACAACGCCCTGCAGCGTGTATCCCGCTGCTACCGCCAGAACCGCTTCCCTGTGGTCTGCTGGCGCAGTGGGCGCTCCAAGGCTGTCTTGCTACGCTCTGGGGGCCTGCATGGCAAAGGTGTTGTTGGTCTCTTCAAGGCCCAGAATACACCTTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529-Sbf1:NM_001081030:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.314 A=NA C2=0.159
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=PU(14.7=91.4)
A:
NA
C2:
PF066029=Myotub-related=FE(15.2=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:
CTCTGACCGCATGACCATGAG
R:
GGAGAAGGTGTATTCTGGGCC
Band lengths:
351-670
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: