MmuINT0139019 @ mm10
Intron Retention
Gene
ENSMUSG00000036529 | Sbf1
Description
SET binding factor 1 [Source:MGI Symbol;Acc:MGI:1925230]
Coordinates
chr15:89306830-89307603:-
Coord C1 exon
chr15:89307493-89307603
Coord A exon
chr15:89306936-89307492
Coord C2 exon
chr15:89306830-89306935
Length
557 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGATCATTTTCTTTCTACAGAGA
3' ss Score
9.32
Exon sequences
Seq C1 exon
AATAGCCTTGGTCTCATCTATGCTATCCACGTGGAAGGCCTGAATGTGAGCCTCGAGAATGTGATCGGGAACCTGCTCACATGTACCGTCCCATTGGCTGGCGGGTCTCAG
Seq A exon
GTGGGTCTTGGAGAGTCATAGGAGGCAGGGGTGGGGTGGGGGAGTACCTATGGGTTACTGATAGTCCAAAGCCTCAGATACTCCCTTCTGCTTTTGGTGCCACCCTTTGCCATCTGTTCTTAGCCCTGTCTACTTACTTGGCTTCATACCTGTACCTTTGGGCCTTCATTTTCTGTCTCTCTATCCTCTTGATCATTGGGTGTGTTCCTGTCACTGGATGCTGTTGTCCGTGTATCTGTCTGCTTCCTACTTTGTGCCTTGTCTAATGGTGTCTCTCTGTCTGTCTGTCCTGTGCAGCTGGACTCTGTTGAGGAAGGAGCGGTATGGATTCTTTGTTTCTTCTGCCCACTCAGGCCCTGCCCCCACCCAGATCAGAGGCATTCCCCCCTTACCTTGAGTTTTCTCTGCAGCGCTGCTCAGCCAACAGAGGCAGAGTGTGACCTTTCCCTCCAGTCATCTAAGCCAGCCCCATCTCAAGATTTGTCAGCTTACCTGGGTTCAAGTGCTCAGATTTGATCCAACTATACTGCTAAACTCTGATCATTTTCTTTCTACAG
Seq C2 exon
AGAACCATCTCTTTGGGGGCTGGTGACCGGCAGGTCATTCAGACTCCACTGGTAGACTCACTGCCTGTCAGCCGCTGTAGTGTAGCCCTGCTCTTCCGCCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036529:ENSMUST00000123791:5
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:
PF0214116=DENN=FE(19.7=100)
A:
NA
C2:
PF0214116=DENN=FE(19.1=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGCCTTGGTCTCATCTATGCT
R:
CAGCTGGCGGAAGAGCAG
Band lengths:
214-771
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