MmuINT0142209 @ mm9
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95131130-95132639:-
Coord C1 exon
chr3:95132470-95132639
Coord A exon
chr3:95131759-95132469
Coord C2 exon
chr3:95131130-95131758
Length
711 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TCAATTCTCTTGATTCTCAGGCA
3' ss Score
6.75
Exon sequences
Seq C1 exon
GGTTTATGAGTGTAACAAACGCTGCAATTGTGACCCAAACATGTGCACAAATCGGTTGGTGCAGCATGGTCTGCAGGTTCGACTACAGCTGTTTAAGACACAGAACAAGGGCTGGGGTATCCGCTGCTTGGATGATATTGCCAAAGGCTCTTTTGTCTGCATTTATGCAG
Seq A exon
GTTAGTGATTAAAAAAGGGGTTTTACCCTATGAGGTTTGGGACATGGAAGGTCAAGGAAAAGTTGAACATAGCAAAGTGTTAGTGGGTATGGTAGCACATGTCTATAATCCAAGCACTCAGAAGATGAAAACAGAAAACTTTAAGAGTAGGAGATAACCTGGGCTACAGAGTTAGATTTTACCTCACAAAAAAAAAACAAAACAAAACAGTGTTTGAGGAGTGGAAATGTAGCTCAGGAGAACAATGCATGCTTAGTTTTCAGGAGGTGCTGGATCACTCCCTAACATTAAAAAAAAGAAAGGATGGATGGATGCATAAAGTGTTTGACAGTTGAACTGGGAATAAGAGGAGGTGGGAATCTCTTCTATAAAGGACATGATAAGTGATATATACCTGAATAGGTAGGACCAGAGAGGGGCAAAGGTACTTCTTAAACAGTAGAAGGGAATCAGATTTTGGCTATTGATGTTTCTTTCAGTGAGAGACATCATTTAATTGTATTATTTTCTCCGAGAGATATTTTAACCCAGGAAGTACCAAGGAGGTAAACAAAAGAAAAAAGAAAAAAAAAAATTGGGAAGGGCAAAGCAACAAGCTGCAGTGACATTGACTTAATGTCAGAGGCAAAGGTGGCAAAGTAAGCATATAATAGATTTACCCTGCTGGTGGGTGTAGTACTGATGAAGACCATCAATTCTCTTGATTCTCAG
Seq C2 exon
GCAAAATCCTGACAGATGACTTTGCAGACAAAGAAGGCCTGGAGATGGGTGATGAGTACTTTGCAAATCTGGACCACATTGAAAGTGTGGAGAACTTCAAGGAAGGATATGAGAGTGATGTCCCCACTTCCTCTGACAGCAGTGGGGTAGATATGAAGGACCAGGAAGATGGCAACAGCGGTTCAGAGGACCCTGAAGAATCCAATGATGACAGCTCTGATGATAACTTCTGTAAGGATGAGGACTTCAGCACCAGTTCAGTGTGGCGTAGCTATGCTACCCGGAGGCAGACTCGGGGTCAAAAGGAGAATGAATTGTCTGAGATGACTTCCAAGGACTCCCGCCCCCCAGACCTCGGGCCTCCACATGTTCCTATCCCTTCCTCAGTATCTGTAGGGGGCTGCAATCCACCTTCCTCTGAAGAGACACCCAAGAACAAGGTGGCCTCGTGGTTGAGTTGCAATAGTGTCAGTGAAGGTGGATTTGCTGACTCTGACAGCCGTTCTTCCTTCAAGACTAGTGAAGGTGGAGATGGCCGTGCTGGGGGAGGCCGGGGAGAGGCTGAAAGGGCCTCTACCTCAGGATTGAGCTTCAAGGATGAAGGAGACAATAAGCAGCCTAAAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697-Setdb1:NM_001163642:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.810
Domain overlap (PFAM):
C1:
PF0503311=Pre-SET=PD(15.7=31.0),PF0085623=SET=PU(4.4=34.5)
A:
NA
C2:
PF0085623=SET=FE(46.2=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:
CTGCAGGTTCGACTACAGCTG
R:
TGGTGCTGAAGTCCTCATCCT
Band lengths:
355-1066
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: