MmuINT0142219 @ mm9
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95150918-95152017:-
Coord C1 exon
chr3:95151918-95152017
Coord A exon
chr3:95151044-95151917
Coord C2 exon
chr3:95150918-95151043
Length
874 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
ATAACAACTCTTGTTTATAGGAA
3' ss Score
6.84
Exon sequences
Seq C1 exon
CTTCGTGAAGCTATGGCTGCCTTAAGAAAATCAGCTCAAGATGTCCAGAAGTTCATGGATGCTGTCAACAAGAAAAGCAGTTCTCAAGATCTACATAAAG
Seq A exon
GTTAGTGTGAGAAGTGCCTGCATAGGTGAGAGGTGAGTTCTTTCTGGAATGTTACTGACAGTCAGCTTTCCATCTCAGAATGCTGTTTGACTTGTCAGTCTCTTTTTTTGTTGGTGGTGGGTTTTTGTTTGTTTGTTTTTCGAGGCAGGATTTCTCTGTATAGTCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCTGCCTGCCTCTACCTCCCAAGTGTTGGGATTAAAGGCCTGTGCCACCACCGCCCGGCTCTGACTTGTCAGTCTCTTTTTAACATTAATTTTATGTCCACAGTCAGTCTGAGAGTTATTGATTGATGCGGTGGCTCAGGCTGTTAACTGTTGATACTGTTGCTGTCAATAAGGAGTTGTCGATAGTCGTTCGTGGCATAGGCTGGTAGACTATGCCAAAGGAGTTAGAAATGTGCTAAAGTTCTGTATTCATTTCTCCTGTTAGCATAAACAGTGGATTGTCTTGTGCTTCTGCCTCTATCCAAGAGTTTAGCAAGAGTTGCTAATGGTCACAGAATTTCAGTTTCCTCTGTTTCTACACCACCTTCTGTTTTTGAGATAGTATCTTCTATATCCTAGGCTGGCCTTGAATTTTCTGTGTTACTGAGGATGACTGTAAACTTTTGATCCTCTTGTCTTCTCTGAGAACTTGAGATTACAGGCATGAGCTATTATGCCAGGTGTATGCAGTGCTGAGGTTCAAATCCAGGGCATTGTGCTTGCTAGGCAGGCAGTCCAGCAGCTGAGCTACAGCCCATCCTACCTTACTGTCCTCTTGACCTTACCTTTCTCCATCCAACCACTCAAATCACTCTTTATAACAACTCTTGTTTATAG
Seq C2 exon
GAACCTTGGGTCAGGTGTCTGGAGAACTGAGCAAAGATGGGGACCTGATAGTCAGCATGCGGATTCTGGGCAAGAAGAGGACTAAGACATGGCACAAAGGCACCCTTATTGCCATCCAGACTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697-Setdb1:NM_001163642:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.116
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150571=DUF4537=PU(17.4=48.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGGCTGCCTTAAGAAAATCA
R:
CAGTCTGGATGGCAATAAGGGT
Band lengths:
214-1088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: