MmuINT1031022 @ mm10
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95339907-95340312:-
Coord C1 exon
chr3:95340162-95340312
Coord A exon
chr3:95340066-95340161
Coord C2 exon
chr3:95339907-95340065
Length
96 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
TGGTCTCCTAATCTCCCTAGAAG
3' ss Score
6.78
Exon sequences
Seq C1 exon
GTGCTGTGAGGAGCAAAGGTCCTGTTGTTCAGTATACACAGGATCTAACTGGTACTGGAATCCAGTTTAAGCCCATGGAGCCCCTACAGCCTATAGCTCCACCGGCCCCACTTCCTATACCTCCTCTTTCCCCCCAAGCAGCTGACACTGA
Seq A exon
GTAAGTGCTCATCATTATTTTTACTTCCAGTTATTCTATTTTTTTTACCACCAGTACCTTCTGAAGCCTTACTATATGGTCTCCTAATCTCCCTAG
Seq C2 exon
AAGCTTAGAAAGCCAACTTGCACAATCACGGAAACAAGTAGCCAAGAAGAGCACATCATTCCGACCAGGATCTGTGGGCTCCGGCCATTCCTCCCCTACTTCATCCACACTCAGTGAAAATGTGTCTGCTGGGAAACTTGGGATAAACCAGACATATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697:ENSMUST00000107170:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.814 A=NA C2=0.979
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGAGCCCCTACAGCCTAT
R:
TGAAGTAGGGGAGGAATGGCC
Band lengths:
181-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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