MmuINT0142225 @ mm9
Intron Retention
Gene
ENSMUSG00000071350 | Setdb2
Description
SET domain, bifurcated 2 [Source:MGI Symbol;Acc:MGI:2685139]
Coordinates
chr14:60031549-60032516:-
Coord C1 exon
chr14:60032318-60032516
Coord A exon
chr14:60031649-60032317
Coord C2 exon
chr14:60031549-60031648
Length
669 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ACTTTTCTTTTCCTTTTCAGGGA
3' ss Score
13.32
Exon sequences
Seq C1 exon
GAAGGTTACTGCGCAGAGCCACTCCTGAGAAAACTAATATAGGTGAAAATGGAAGAGAGCAACAGCACATTGTGAAAAATTCATTTTCCAAAAAGAGGAAACTAGAAGTTGTGTGTTCAGATTGTGACGCACACTGTGACAGTCCTAAGGCTGAGGACTGCCCTCCCAAGCTTAGTGGTGATCTCAAAGAGCCCGCTGT
Seq A exon
GTGAGTAAAAACTCAGAATTGTGGGGTTGTCCCTCTGTGTCTTTCTCTCTTCCCACCACCCCTCCCCTAAACATCATCTTGCCCCACAATTTAAGTTTAACACTTGTAGAAATCCAGCATTCTTACCTTAATAACTAGCCAGCGCATTTCCTTCTGTACCTCATTTCTGAGTTCACTGTGGATAACTTTCATGCGATTCTTTATGAAGGCTATACTTTTAATTATCTGTATCACCATTCTATTTGAAGCCCTTTATTAGGGTCCCTTAATTGTTTAAAAACACATTTTAAAATTATATCTAATGATTATCTTTTTCTTCCTCCATTAAGTAGCATAGATATTATATAGATTCATTTCTTTAATATTTTAATTTTAAATTTATGTGCCTGTACCACTTGTGTGCCTGGTGACCTCAGGGGCCAGAAGTGGGTTTTGGATCCCCTGGAACTGGAGTTATAAATGATTATGAGCTGCCCTGTGGGTGCTGGGAATTAAACCATGTCTTCTGGAAGAGCAGCTAGTACTCTGAACTGCTGAGCCATTTCTCCAGTCCCTAGATTAATTTCTAACAATAATGGAAGTTTATGAAGTAATGATATTACCTATACTTAAGCTCTAATAAAATGAGCTTTTGGTGATATACAGAATAACTTTTCTTTTCCTTTTCAG
Seq C2 exon
GGAAATGAACCATAGAAATATTTCAAGAACTCAGCATCATTCAGTCATTAGAAGAACTAAATCCAAGACAACTGTTTTTCATTACAGTGAGAAAAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000071350-Setdb2:NM_001081024:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.463 A=NA C2=0.735
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(21.4=100)
A:
NA
C2:
PF0085623=SET=FE(10.7=100)
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:
GCAGAGCCACTCCTGAGAAAA
R:
TGTAATGAAAAACAGTTGTCTTGGA
Band lengths:
273-942
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: