MmuINT0171420 @ mm9
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:30854293-30855630:+
Coord C1 exon
chr2:30854293-30854388
Coord A exon
chr2:30854389-30855576
Coord C2 exon
chr2:30855577-30855630
Length
1188 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
CTCCTGCCACTCTCCCACAGGGA
3' ss Score
10.61
Exon sequences
Seq C1 exon
GGGAGGCTGGCCAGAATGGGGGACGCCAGAGACCTCTGCCCTCACCTGGACTGCATAGGGGAGGTGACCAAAGAGGATTTGCTGCTTAAATCTAAG
Seq A exon
GTAGAGGAATAGTCCTCAGGAACTAGGGCCCAGCCTAGGGCTGTCATTTGCTCGGGGGGGGGGGGGGGACCTTTGTGAGGCAGGGCAGTACCGCCCTGCCCCCAGCTCTGCAGAGCCCTGGATGTAATGGCCCTGCTGGCGTCTGCTTCAGAGCTTTCTTCCAGGCGTTGGATCCTGCTACCATTAATCAGTTTAGATGAACCCCCTGAGGGCCACTAATGGCTCCATCCATTTCCACTGGCTAGGTACACAGTCTTCATAAGGCAGGGCTGAGCATACAGAGGTGGATCTTGTTTTTCTTCTGGCACTCTGGGGAAGTGCAGTACTGCCCAGCCACACCCTAGCCATCCATGTCTTCTTACAGATGTAGACCTTACTTTGGGGTGTCTGCAGGGGAAGATGAGCTTCCTCCCTAAGTCACACACAGCCCCTGTTGCCTTCTGCTTGTTGAGTGAAATTCTGTAAAAAGCCCATGGACTGAGAGTGTGACTCTGTGCTGGAGGGCAAGCAAAGCCCTGGGCTGTCAGCACTCGGGAGGCAGAGGCAGGTGAATCTCTAGGAGTTCCAGGTCAGCCTGGTCTACAGAGCGAGTTTCAGGCCAGCCCCAGCTACATAGTGAGCCCCTGTCTCAAAACCAAACAAAGTGAGCAGACCAAAAAGGTTTTCTTCAAAGGAGCAGGAGGTGGGGAATCTGAGTGTGAGGATCAGCTGGTTCTGTCTTCAGCATCTCTCTAGAGATCCAAAGACTTCCAGAATAAGGCCAGAGGTGTCGAAAAAAACCTCACTGGGACAAGGACAAGAGCAGGGCTGACAGTGCAGCCACCCAGGGACTGTGTCACTGGACTCGTCCAGGGTGTTGCTGAAGAGAACTGGGAGGCAGGGCGGCAGCCCCTGTACTCGGAGCTAAGTCACAAAAGGAGAGGACCCCTGGCACTTGGGGAGGGTCAGGGGACTAGTGTGAGTGGTCTGCTTGCTAGTCCATTGAAAGTTTAACTGGGGTGGTTTGAAATACCTTTACAGACACGTTACTTAAAAAACCCACTCAGATGAAAGTGTCCACAGGTACACTGGCGAAGGTCTCTGAGGCGAAGGCCTCTGGGGTTAGTGAGCAGCTAATAGGAGAGGATGCTTCCCTGTGCTTCCCTCCCTTGGCCACTTACACCTTTCTCTCCTGCCACTCTCCCACAG
Seq C2 exon
GGAACCTGCCAGTCATGTGGGGTTGCTGGACCTAACCTATGGGCTTGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854-Usp20:NM_028846:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: