RnoINT0161418 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9844541-9844981:+
Coord C1 exon
chr3:9844541-9844656
Coord A exon
chr3:9844657-9844808
Coord C2 exon
chr3:9844809-9844981
Length
152 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
GGCTGATCTTCACCATATAGGTG
3' ss Score
6.73
Exon sequences
Seq C1 exon
CCCAGGTGCCGAGTACTGGTGGCCGGAGGCGGAAGGAACAGAGCTACCGCAGTGTCATCTCAGATGTCTTCAATGGCTCTGTCCTCAGCCTGGTGCAGTGTCTTACCTGTGATCGG
Seq A exon
GTAGGTACCTAGGGGAGGCTGGCATCCCTTACCACCTGGGCAGGGTGGACTCTCCTGTGCCATTCCCTCCCCCAGGAGCAGGCTGTCTGCTTTGTCTGTCTAAGCAGCAGACACTGGCAGGAGTGGGCAGCAGGCTGATCTTCACCATATAG
Seq C2 exon
GTGTCTACCACAGTGGAGACATTCCAGGACCTGTCATTGCCCATCCCTGGCAAGGAAGACCTAGCCAAACTTCACTCTGCCATCTACCAGAATGTACCAGCCAAGCCGGGTGCCTGTGGGGACAGCTATTCCTCCCAGGGCTGGCTGGCCTTCATCGTGGAGTACATCCGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:13
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(10.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACAGAGCTACCGCAGTGTC
R:
TGTACTCCACGATGAAGGCCA
Band lengths:
247-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]