RnoINT0161423 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9849634-9850016:+
Coord C1 exon
chr3:9849634-9849814
Coord A exon
chr3:9849815-9849889
Coord C2 exon
chr3:9849890-9850016
Length
75 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
AACCCTTCCTTGTCTCTCAGGTG
3' ss Score
10.39
Exon sequences
Seq C1 exon
ATTCTGTGTGTCCACCTGAAGCGCTTCCGGCATGAGGTGATGTACTCCTTCAAAGTCAGCAGCCATGTCTCTTTCCCCCTGGAGGGACTTGACCTACGCCCTTTTCTAGCCAAGGAGTGCACATCCCAGGTCACCACCTATGACCTCCTCTCTGTCATTTGTCACCACGGCACAGCAGGCA
Seq A exon
GTGAGTATGCCCTCAACAGACCCCTCTTGTAGTGCCTTCTCCCTGTGGTCTCCATAACCCTTCCTTGTCTCTCAG
Seq C2 exon
GTGGGCACTACATTGCCTACTGTCAGAACGTGATCAATGGGCAGTGGTATGAGTTTGATGACCAGTACGTCACCGAGGTCCATGAGACTGTGGTACAGAATGTGGAGGCCTACGTGCTCTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:18
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(11.1=100)
A:
NA
C2:
PF0044324=UCH=PD(7.6=95.3),PF063377=DUSP=PU(25.8=79.1)
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:
CGCCCTTTTCTAGCCAAGGAG
R:
CAGTCTCATGGACCTCGGTGA
Band lengths:
175-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]