MmuINT0171425 @ mm9
Intron Retention
Gene
ENSMUSG00000026854 | Usp20
Description
ubiquitin specific peptidase 20 [Source:MGI Symbol;Acc:MGI:1921520]
Coordinates
chr2:30860452-30862017:+
Coord C1 exon
chr2:30860452-30860521
Coord A exon
chr2:30860522-30861903
Coord C2 exon
chr2:30861904-30862017
Length
1382 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
GCTTTCCACCTCCAACCCAGCCC
3' ss Score
3.18
Exon sequences
Seq C1 exon
GCCTCACAGGCATGAAGAACCTGGGAAACTCCTGTTACATGAATGCTGCCCTGCAGGCCTTGTCCAATTG
Seq A exon
GTAGGTTGTCATCTGAGGGAAGGGCAGGAACTGTCCCTGGCAAAACCTAGAAAGAGCAGCAGCCTCCAACCAGTGCCGTGTACATTGGTCATAGACATTCCATAAGATATACCTCAAAGCCCCTAAAACAAGGCATGCCTGGTGACTGCCGTCCCTTTGAGTTTCATGTGAGTCCTCAGATAGAGGAGAAGGCATGATAGGCAGGTCTACTCACTGGTGGAGGGTTTCCACAGCATGTGCAAGGCCCTGGGTTTCACCCCCAATACCGTGTGCATGTAACCTATCTTCAAGAAGGGAACTTCATTGTAGCCCAGTCACGTGGAGGGAATGTAGGCTGACAGGTACTGAAGTGAGCAGGCCTGATTGAGAGTGTGTGTGAGACCATTGTTTCATACACACACACACACACACACACACACACAAACACAACTGACACAGCAATGATAAAGCAAACCCAGCAGCCCTCCCCCTTTTCTATGTATAGCTGTATGTTAACACATAGGACACACAGGAAGGAGAGAAAAAGGGAACAGATATGAATACCTAGAAACGTCTGGAAGGATAGCCCCCAAAGGTTCACAGTGACTGTCTCATAGTAATATAGTCAGTTGATATGGTTTGCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGATATGAATATGTGGTTTCTTGCAGTGTGATAACTTCTAAAAATATGCAGAAAGGGGAGTGAAGGAGGTGCCCTCCTGCAGAGTGGCCACTGTAGGGAGCAGGGCTGCTCCACCCTGTTCATTCACAGTGTCCCAGCCTCAGGACCTGTGGCAGAAGCTCCCATCTGACTCAGGAGAGAGGGGTATTTGTTTCCTATAGCTGACAAGGCCTTCCTGTCTCTTGATTCTGGAAGCCCACTCTGTAGTAGTTTCTTCTCAGGCCCTTCTCTCTGTGTATGCAGCCATGCATTCATAAGGTCTTTTCCTCTGTGCACATGTCTGGTGTCCAGAATTCCTCTGGAAGGATACCAATGAGGCTGGCCTGAGACCTGCCCCAGCATCCCATAGTAATCTGATACCTACTTAAGGGTCCTGTGTCTTAGGACTTTACAATGAATTTGGGGGGTTTTGGTGTAGGCGAGCTCCTAGTCATCTGCAGGGAGTTCTGGGTATGGTGGCCCGATCTTCGGTGGCCGTTTTCACCTTCTGTTGTTAACTTTGCTCCTTAAAAAAAAGACATTCTGTTTCTTTAATGTGAGTGTGTGTGTGTGGGCATGGGTGGAGTCGGGGGTAACCTTAAGAACTGGCTGTTTCCTTCTACCATTTAGGCCATCTCTAGCTCCTCCTTAATAACACCATGTTCTTCCCATTTCTTTTCTGTCCTGGCTTTCCACCTCCAACCCAG
Seq C2 exon
CCCCCCGCTCACCCAGTTCTTCCTGGAGTGTGGTGGTCTGGTGCGCACAGACAAGAAGCCAGCCTTGTGCAAAAGTTACCAGAAGTTGATCTCTGAGGTGTGGCACAAGAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026854-Usp20:NM_028846:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(32.8=91.7)
A:
NA
C2:
PF0044324=UCH=PD(32.4=78.6)
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:
CCTCACAGGCATGAAGAACCT
R:
GCTTCTTGTGCCACACCTCAG
Band lengths:
182-1564
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: