MmuINT0142214 @ mm9
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95158464-95160124:-
Coord C1 exon
chr3:95159856-95160124
Coord A exon
chr3:95158616-95159855
Coord C2 exon
chr3:95158464-95158615
Length
1240 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGCATGTGTTCCAATATCAGGGA
3' ss Score
6.72
Exon sequences
Seq C1 exon
GGCCAAAGCATGTCCTCCCTCCCTGGGTGCATGAGTTTGGCTGCAGCGCCAGCTGCAGCTGACTCTGCAGAGATTGCTGAGCTGCAGCAGGCGGTGGTTGAAGAGCTGGGTATCTCTATGGAGGAACTTCGTCAGTACATTGATGAGGAACTGGAAAAGATGGACTGCATACAGCAGCGCAAGAAGCAGCTCGCAGAGCTGGAGACGTGGGTACTACAGAAAGAGTCTGAAGTGGCTTATGTTGATCGGCTGTTTGATGATGCATCCAG
Seq A exon
GTAGGGATTCCAGGAAGCAGAAGTAAATGTCCATCTGTGTCCTCCTTGGAGTGACTGTTGTTGTCATTGTCCTAAGCACTTTATACTTTGGCGACTTCAGTCAGGTGGGGCCTTACTCTTCCTCTGAGTTTGTAATGCAGAGTTGCAACAGAACACTTTTTCCCTGTGGGTAGCTGCTATGTGATCAGCAGTAGTTAGGTTAAAGGCTTGAATTCCCTTCTCTTCCTCCTGGACTGAACTTCCTTCCTAAGATCCCCAGAAAGTGAAGATTGTAGAGTTGCTGTCTTTTCTGTTTTTCTGAGACAGAATCCCAATACCTAAATCTTGCTGGCCTGCAACTTGCAGAGATCTGCCGACTTTTGCCTCCTAAGAGCTGCAATGAAATGATCCTAGCTTATGCTTGTTGAGTTGATTGGGGTTTCATTCGTTCATCCATTTTTGATACAAAGTCTCTTTACGTAGAATTGGCTGCCCTAGAACTCACCATATAAACCATATTGAGCTGGACTCATAGAGACCCATCTGCCTTTGTTTCTCCAGTGGTGAGATTAAAGGGATGTTTCACAGCACCCAGCAAAATGAAGTTGATATTTAAAGCTGTCTTCTTAGTTCCCAAAGCCACATAGATAATAAATATCAGATATTAGGACTTTTGTAACAGCAGGTGGAAAATTGAAGTCTAGAAAATTGTTTCATAGAAGAATTACATGGAAACAAACATTCTGTGGAAAAGCATTCTAAATAGGTACTTTGGAACATGTAGAGCAAACAGTCTATATTTAAATATACATAATTTCCTGTTACTGTGTTGTGTTTTGTATGTGGGGGGGGTTGTTTTTTGTTTTTGTTTCTGTTTTTGTTTTGTTTTATTTTTGAGACCGTTTCTTTGTAACTCTGGCTGTCCTGGAACTACCTCTGTACACCAAATTGGCCTGGAATTCAGAGATCTGCTTGCCTCTGCCTCCTGAGTGCTGGGTTCTGTTTTTGTTCTGTCTAAAGGTTTCTTACTCTGTAGGCCATGCTGGCCATGAACTGTATTGACCATGAACTCTATTGACCATGAACTCTATTGACCAAAGTGACCTCAAACCTAGCTAGTCTTGGTTCCTCAGGCTAAGGACTAGGATTACATGTGTGAGCTCAGAGGCTAGGTATTGTATAAATGTATATACATTGTAATGCTCTTGTACTGCACTGTCTCCACTGGCTTTGATCTTTTCTGCATGTGTTCCAATATCAG
Seq C2 exon
GGAAGTGACTAACTGTGAGTCTTTGGTGAAGGATTTCTACTCTAAGCTGGGACTACAGTATCATGACAGTAGCTCTGAGGATGAAGCTTCCCGGCCCACAGAGATCATTGAGATTCCTGATGAAGATGATGATGTCCTCAGTATTGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697-Setdb1:NM_001163642:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF114733=B2=WD(100=71.3),PF072276=DUF1423=PU(68.4=89.7)
A:
NA
C2:
PF072276=DUF1423=PD(30.7=67.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCTGGGTGCATGAGTTTG
R:
GGGAAGCTTCATCCTCAGAGC
Band lengths:
343-1583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: