MmuINT0171412 @ mm9
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:30872649-30873031:+
Coord C1 exon
chr2:30872649-30872829
Coord A exon
chr2:30872830-30872904
Coord C2 exon
chr2:30872905-30873031
Length
75 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
GCCTCTTGCTTGTCTCTCAGGTG
3' ss Score
10.44
Exon sequences
Seq C1 exon
ATTCTGTGCGTCCACCTGAAGCGCTTCCGGCATGAGGTGATGTACTCCTTCAAGGTCAGCAGCCATGTCTCTTTCCCCCTCGAGGGACTGGACCTACGCCCTTTTCTGGCCAAGGAGTGCACGTCCCAGGTCACCACCTATGACCTCCTCTCTGTCATCTGTCACCATGGCACAGCAGGCA
Seq A exon
GTGAGTATGGCCCACCAGGCCCCGCTTGCAGTGCCTAGTCCCTGTGGTCTCCATAGCCTCTTGCTTGTCTCTCAG
Seq C2 exon
GTGGGCACTACATTGCCTACTGTCAGAACGTGATCAATGGGCAGTGGTACGAATTCGATGACCAGTACGTCACCGAGGTCCATGAGACGGTAGTACAGAACGTGGAGGCCTACGTGCTGTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854-Usp20:NM_028846:18
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=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(52.8=97.9)
A:
NA
C2:
PF0044324=UCH=PD(46.1=95.3),PF063377=DUSP=PU(25.8=79.1)
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:
CTTTTCTGGCCAAGGAGTGCA
R:
ACTACCGTCTCATGGACCTCG
Band lengths:
175-250
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: