MmuINT0171426 @ mm10
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:31006384-31007857:+
Coord C1 exon
chr2:31006384-31006497
Coord A exon
chr2:31006498-31007778
Coord C2 exon
chr2:31007779-31007857
Length
1281 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CAGATTTGGTCTCCCCACAGGCC
3' ss Score
9.42
Exon sequences
Seq C1 exon
CCCCCCGCTCACCCAGTTCTTCCTGGAGTGTGGTGGTCTGGTGCGCACAGACAAGAAGCCAGCCTTGTGCAAAAGTTACCAGAAGTTGATCTCTGAGGTGTGGCACAAGAAGCG
Seq A exon
GTGAGTCTGACCTTGGTTAGAAGTGTGGCAGGCCTTGCCTGTCTTCTCAGTGGATCGCTTCCTCTGGGTTCTTCCCTGGCACATGCGCACTCACAGCAGCCTGCACTGAGCCTGCACATGTGTCTAGTTTTATCTAGTTCCCTTGGTGAGTGGGGAGACAGATAAGGAGCATGAGGCGTCCATCGTGTTCCCAACTGCAGAGCTTGTGACAGTGGAGCCAGGGTCTGAGCTGACAGCAAGCCTGGGGGCAGCTGTTTTGACAGTTGTCTCTCCTGAGGCCTGGAAATCACCATCTTGCCAGTGTCAGGTCTCAGCTGAGGCTGGGGGTGGGGGTGGGGTAGGGTGTTGGGTGCCTGCCAAGCCAGGGTTGTGGCAGAGTGAAGTGAATTTAAAGGTGAAGATTGTGCTGGGTCTCCTCTGGAAGTGGAAGGTGAAGCAGTTGCGTACACACCCTCATTACTTCCCTCTCTCTATTCCTGCTTCATATCCTGGCCCAGACCCTCACCTTGCTTGTCCTGATCCTCTGGCTTTCCTGGCCTTTCCCTGAAGGCTCCTGTTAGTCACTTTTGGACCTCCGTTGTTGAGCCTGCCTGCTTTCTTAGTCCCTGACTCAGGACCAACTCTACCTCTTCCTCCTGTCCCTCTTCCCAGCAACTGCAAAGGTCTACAGTACTCCTGCCTTGTCCTTTTGCTCCCAAACTGTAACAAAATGGGCCTCAGGCTTTCATGAGCAAGCAGACAAACAGCAGATGTAAAAATGAAAAAGAGCAGAATTGGGAGCTCTTGAACATAAGCCACAGGCACGCACTAGGTTGGAAGTGAACTAAGAAGCTGATAGTGTGCTGTTCCATGGGTCAGAGGTCCAAGTTCCTGTGAGGTGCCTGTGTGCATCTTAGCCTGTTCTTCTAGGAACAATGCTGTGGTCCTACTGTGCAGCACTCGTGGGCGGGGACATCTTGATGATAGATAGTATTTCATTGTACTTTTGTGAGGTTTAAGTTTTTCAGCAATGGACATATATTGTTCATAATGAGAAAAGCTATGTATACATTTTACCGTGAAGTTAAATAAACACACTGCCCCTGGGACCTCTGCTAGCTCGGACAGCATTGGCGTCTTGCTTCTGGGTGTGGATGCTATGGACTTATCTCCTGGTTAGTGGGGCGAGTGGAGGTGGTGGGGACAGCCCCTATGGGGTCTGATCTGCCTTGCCCTCTTGCCTTTCCAAATGGTGTCACTTAAGGCTGGCCACCTAGGCTAGCAGATTTGGTCTCCCCACAG
Seq C2 exon
GCCAAGCTATGTGGTCCCCACCAGCCTGTCCCATGGGATCAAGTTGGTCAACCCGATGTTCCGAGGCTATGCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854:ENSMUST00000102849:9
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=0.037
Domain overlap (PFAM):
C1:
PF0044324=UCH=PD(32.4=78.6)
A:
NA
C2:
PF0044324=UCH=FE(4.8=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:
CGCTCACCCAGTTCTTCCTG
R:
GGCATAGCCTCGGAACATCG
Band lengths:
182-1463
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