MmuINT0142216 @ mm9
Intron Retention
Gene
ENSMUSG00000015697 | Setdb1
Description
SET domain, bifurcated 1 [Source:MGI Symbol;Acc:MGI:1934229]
Coordinates
chr3:95127447-95128315:-
Coord C1 exon
chr3:95128227-95128315
Coord A exon
chr3:95128113-95128226
Coord C2 exon
chr3:95127447-95128112
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
TATTCTTTTTCGCACTTCAGGAG
3' ss Score
7.45
Exon sequences
Seq C1 exon
CACAGTTGCAGCCCCAACCTGTTTGTCCAGAATGTGTTTGTGGATACCCATGATCTTCGCTTCCCTTGGGTGGCCTTCTTTGCCAGCAA
Seq A exon
GTAAGGGGGAGAATGAGGAAGGGGCAAGTTGTGTGGAAATCGGGGTGAGGCGTACCTTCCTTTGTGGTCAGGCTTCACTTTTACCCTCTACACTTATTCTTTTTCGCACTTCAG
Seq C2 exon
GAGAATCCGGGCTGGAACAGAACTCACTTGGGACTACAACTACGAAGTGGGCAGTGTGGAAGGCAAGGAGCTGCTGTGCTGCTGTGGGGCCATTGAATGCAGAGGGAGACTTCTTTAGAGGAAGACTTCCTCACTTTGAGAACGCTTGAACTATCCTTTTCCCCAGGAACTGGGTCTTCCTGACTGTTGAACTCTGACCCCAAGTCTCTGATCTAGCTTCTTCCCAGCTCCTAGTAGATAGAGATGGGGATTCTCAATCAGGACTTTCCCAGCGTGGTGCTAGCAGGCACTAGGGTGGGTAGACATGACCACTCTAGCATCAGCCTGAGGTCCTTCTCATCTTGTATGCATTCATGATTCACATGGGCTGTGTATCTGCCATCCCTGATTTGTATGGTTTCTTGAAAGTCTTCTAACAAGATGGTAAAGTAGAGATTGTGGTTTGTCTTATCTCCTGCCTTGATCTTCCATGTCATTTCCCAGTGGGCAACTATCATTAGTTTATACCTCGATTTTATTTGCCCTGTGTAATTTTTAACTAAAAATGTTACATAACCACAAGGGAGGCCTAAGAAAAAAACTAACCCTTTCTCAAGTCTTAATAGTCTGACACAGTCATGTTTTATTTAACCTTTAATATACTTTAATTAAAAAAAATTAACAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015697-Setdb1:NM_001163642:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0085623=SET=FE(6.4=100)
A:
NA
C2:
PF0085623=SET=PD(2.9=32.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCTTCGCTTCCCTTGGGTG
R:
TCAGAGACTTGGGGTCAGAGT
Band lengths:
249-363
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: