MmuINT0138999 @ mm10
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89301843-89302377:-
Coord C1 exon
chr15:89302182-89302377
Coord A exon
chr15:89301971-89302181
Coord C2 exon
chr15:89301843-89301970
Length
211 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
CTCTGCTTGGCCTGTTTAAGTGG
3' ss Score
3.51
Exon sequences
Seq C1 exon
CCCAAGCTGCTGAGGCCACGCCTGTTGCCTGGTGAGGAGTGTGTCCTCGATGGCCTTCGAGTGTATCTGCTGCCAGACGGGCGTGAGGAGGGTGTAGGAGGCAGTGGAGGGGGCCCTGCTCTACTCCCAGCTGAGGGTGCTGTCTTCCTTACCACATACCGCGTCATCTTCACGGGGATGCCTACTGACCCCCTGG
Seq A exon
GTAAGCCTTTGGACCTTTCTTGTGCCTCTGCCAGCTCTTTGCAGGAGATAAGACTTCCCTTTCCCTTCCCTTTTCTCAAAGAATCAAAGCCTAATGGGAGATGGGCTCATGTGTGGGCCTTTCCTACCACCCCAGACTTCTGTATTTGGTACCCTGAGATAGTATGCTTTTCTTCTCCCTTCCCGTCATGACTCTGCTTGGCCTGTTTAAG
Seq C2 exon
TGGGGGAGCAGGTGGTAGTCCGCTCCTTCCCCGTGGCTGCCTTGACCAAGGAGAAGCGCATTAGTGTGCAGACCCCTGTGGACCAGCTTCTGCAGGATGGGCTGCAGCTTCGTTCCTGCACATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529:ENSMUST00000123791:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0289315=GRAM=PU(74.7=98.5)
A:
NA
C2:
PF0289315=GRAM=PD(24.1=48.8)
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:
GTTGCCTGGTGAGGAGTGTG
R:
GGAATGTGCAGGAACGAAGCT
Band lengths:
299-510
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