MmuINT0171411 @ mm10
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:31016493-31017309:+
Coord C1 exon
chr2:31016493-31016538
Coord A exon
chr2:31016539-31017128
Coord C2 exon
chr2:31017129-31017309
Length
590 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACCTGCCCTCTCCCCTCAGATT
3' ss Score
12.57
Exon sequences
Seq C1 exon
GCTTCGGAATGGCGTGAAGTACTGTAAAGTCCTATGTCTGCCTGAG
Seq A exon
GTGAGTGAGCCACCCTGGCCTTGTTGGGTCAGGGTCCCTGTGGATAGGGTGTGTGAGTGGCCTATGAGGCAGGGTGAAGACTCACCTGTCCTGCACACACACAGAAGGCCGTGAAACCTGCCTGAGATACCCCAAGGATGGTTGACAGAGGGATCCGTTGTGACAGGTGTCCCTGAACTTGAATTCATTCTTCTCTTGGGGCTTGCTGAGCTCCCAACGGGAGCAGTGTAGCTGTGGCTGGTACAGTCTCCTGTAGTTGGAACAGACAAGGCCCAGGCTATGGCTGGATAGTGTGCTGCAGAGTCTCCTCAGAGTCCCCAAGCCAGTGCCAGAATTCTTGGGAAATAAGCGTGGCAGGCTGGGGTGGCATGGGCTCCCTACAGGGACCAGTCCCTCTGGCAGCCACACCATAGGCTGCCAGTCCTTAGAAGAGAAGATGGGGCTATTGGCTTCCATGTGTAGGTCTCTGACCTGTGTGATAGATTCCACGCAGGTCCAATGGCCTGGTCCTGGGCTGGAGCTTATCTGTGAGCTTCCCTGCCATCTGCCCCAGATGCCCAGCATGACTGGCACCTGCCCTCTCCCCTCAG
Seq C2 exon
ATTCTGTGCGTCCACCTGAAGCGCTTCCGGCATGAGGTGATGTACTCCTTCAAGGTCAGCAGCCATGTCTCTTTCCCCCTCGAGGGACTGGACCTACGCCCTTTTCTGGCCAAGGAGTGCACGTCCCAGGTCACCACCTATGACCTCCTCTCTGTCATCTGTCACCATGGCACAGCAGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854:ENSMUST00000102849:17
Average complexity
IR
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=FE(2.8=100)
A:
NA
C2:
PF0044324=UCH=FE(11.1=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:
GCTTCGGAATGGCGTGAAGTA
R:
CCTGCTGTGCCATGGTGAC
Band lengths:
225-815
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