MmuINT0142220 @ mm10
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95346615-95347121:-
Coord C1 exon
chr3:95346996-95347121
Coord A exon
chr3:95346817-95346995
Coord C2 exon
chr3:95346615-95346816
Length
179 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
TTCTCTTTTCTTTTATACAGGGC
3' ss Score
10.33
Exon sequences
Seq C1 exon
GAACCTTGGGTCAGGTGTCTGGAGAACTGAGCAAAGATGGGGACCTGATAGTCAGCATGCGGATTCTGGGCAAGAAGAGGACTAAGACATGGCACAAAGGCACCCTTATTGCCATCCAGACTGTTG
Seq A exon
GTATGTGTGTTCAGGCTGGAGGAAGGACTGAGCAAAGGTAACCTGTAGGGCATCCATTGCTGACTGTTTTTCCAAAGCCTTTTCTTTTGTCTTCTATGTTGCACCCAAGACTTAACATTGGAAATAACAGTTTTTTGATTTTCTTTTTTAAAATTTTGGTTCTCTTTTCTTTTATACAG
Seq C2 exon
GGCTAGGAAAAAAATACAAAGTGAAATTTGACAACAAAGGAAAGAGTCTGCTATCTGGGAACCATATTGCCTATGATTACCACCCTCCCGCTGACAAGCTGTTTGTGGGCAGTCGAGTGGTGGCCAAGTACAAAGATGGAAATCAGGTCTGGCTTTATGCTGGCATTGTAGCTGAGACCCCTAACGTCAAGAACAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697:ENSMUST00000107170:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.116 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=PU(17.4=48.8)
A:
NA
C2:
PF150571=DUF4537=FE(55.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGGGTCAGGTGTCTGGAGA
R:
TTTGTACTTGGCCACCACTCG
Band lengths:
256-435
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