MmuINT0171407 @ mm10
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:31011381-31011795:+
Coord C1 exon
chr2:31011381-31011496
Coord A exon
chr2:31011497-31011622
Coord C2 exon
chr2:31011623-31011795
Length
126 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
GGCTGATCTTCACCATTTAGGTG
3' ss Score
7.31
Exon sequences
Seq C1 exon
CCCAGGTGCCAAGCACTGGTGGTCGGAGGCGGAAGGAGCAGAGCTACCGCAGTGTCATCTCAGACGTCTTCAATGGCTCTGTCCTCAGCCTGGTGCAGTGTCTTACCTGTGACCGG
Seq A exon
GTAGGTACCTAGGGGAGGCTGGCATCGCTTACCACCTGGGCAGGATGGACTCTCCCATGGCATTGCCCCTCCCAGGAGCAGCAGACCCTGGCAGGAGTGGGCAGCAGGCTGATCTTCACCATTTAG
Seq C2 exon
GTGTCTACCACAGTGGAGACATTCCAGGACCTGTCATTGCCCATCCCTGGCAAGGAAGATCTAGCCAAACTCCACTCTGCCATCTACCAGAATGTACCAGCCAAGCCGGGTGCCTGTGGGGACAGCTATTCCTCCCAGGGCTGGCTGGCCTTCATCGTGGAGTACATCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854:ENSMUST00000102849:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(7.0=100)
A:
NA
C2:
PF0044324=UCH=FE(10.5=100)
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:
AGAGCTACCGCAGTGTCATCT
R:
TGTACTCCACGATGAAGGCCA
Band lengths:
243-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types