MmuINT0142212 @ mm10
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95325718-95326272:-
Coord C1 exon
chr3:95326143-95326272
Coord A exon
chr3:95325884-95326142
Coord C2 exon
chr3:95325718-95325883
Length
259 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TCACACCCTTCTGTCCCCAGGAC
3' ss Score
12.06
Exon sequences
Seq C1 exon
AGTTACTGAAGGCTCTCAGAATCATGGACATAATCCTCCCATGAAGTCTGAAGGGCTTCGCCGATCAGCTAGTAAAATGTCTGTGCTCCAGAGCCAGCGAGTTGTGACTTCTACTCAGTCAAACCCTGAT
Seq A exon
GTGAGTGACTGTCTTATGCTTATGCTGCCTTCTGTTTTATTCAGTCCAAGTAAAGGAGCACACAATAGTCCACCTCAAGTCCTTGGCTAGAGTGACTGTTAAGTCTCTTCTTGGGCTTTGACTTTGTGTTTTGTTCTCCAGCATCTAATCATTATCTTATTATAACCAAAGCCCCTCTTGCCAAATCATGGGTAAAAGCATTAACTTGAGCAGCCTTTCCATGAGCTGCTCATCCTTCTTCACACCCTTCTGTCCCCAG
Seq C2 exon
GACATCCTGACACTGTCCAGCAGCACAGAGAGTGAGGGGGAAAGTGGAACCAGCCGAAAGCCCACTGCTGGTCACACTTCAGCCACAGCTGTTGATAGTGATGACATCCAGACCATCTCTTCTGGCTCTGACGGTGATGACTTTGAGGACAAGAAGAACTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697:ENSMUST00000107170:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(9.5=100)
A:
NA
C2:
PF0085623=SET=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTACTGAAGGCTCTCAGAATCA
R:
CAAGTTCTTCTTGTCCTCAAAGTCA
Band lengths:
292-551
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