RnoINT0161422 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9848673-9849814:+
Coord C1 exon
chr3:9848673-9848718
Coord A exon
chr3:9848719-9849633
Coord C2 exon
chr3:9849634-9849814
Length
915 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACCTGCCCTCTCCCCTCAGATT
3' ss Score
12.57
Exon sequences
Seq C1 exon
GCTTCGGAATGGCGTGAAGTACTGTAAAGTCCTCTGTCTGCCTGAG
Seq A exon
GTGAGTGAGGCCTGCTAGCCTTGTTGGACTGGGGTCCATGTGGGTCCGGGTGTGAGTGGCCTGTGGAGCCAGCTGGACAGACCTTGCTGTCTTAGTTCGGGTCTTATTGCTGTGAACAGACACCACGACTGATGTAAGTTTTATAAAGGACAACATTTAATTGGGGCTGGCTTACAGGTTCAGAGGTTCAGTCCATTATCATCAGGGTGAGCATGGCAGCATCCAGGCAGACATGGTGCAGGAGGAGCTGAGTTCTACATCTTCACCTGAAGGAAGCCAGAAACAGACTGCACATTCTCAGGCAGCTAGGAGGGGGGTCTCCAAGTCCACCCCCATAATGACACACTTCCTCTAACAAGGCCACACCTTCTGATAGTGCCATTCCCTGGGCCAAACATATGCAAACCATCACACCTGCCCTGCATAAGCACAGGCTGTGAGTGCTTTGGCTGAGAGACCCCAGGAACAGCTGACAGAGGGATCTGTCATGACAGGTGTCCCCTAAACTTGAGTTCATTCTTTTCTTGGGGACTTGCTGACATCCCCAAGTGAGCAGTGCAGGCGTGGTTGGTACAGTCTCCTGTAGTTGGAACGGAGACAAGGCCCAGGTTACAGGGTGGATGGTGTGCTGGAGAGGCTCTTCAGAGTCCCCAAGCTAGTGTCAGAATCCTTGAGAAATAAGCATGGCAGGCTGGGCAGAGGTGGCTCCCTGCAGGGACCAGCCATGCCATAGGTTACCAGTCCCTTTGGCAGCCATGCCATAGATAGGCACCAGTCCTTATAAGAGAAGGTGGGGCTGTTAGCTCCCACGTGATAGATTCCATGCAGATCCAGCTGTGCAGGAGCTTATCTGTGAGCTTCCCTGTCATCTCCCCTAGATGCCCAGCGTGACTGGCACCTGCCCTCTCCCCTCAG
Seq C2 exon
ATTCTGTGTGTCCACCTGAAGCGCTTCCGGCATGAGGTGATGTACTCCTTCAAAGTCAGCAGCCATGTCTCTTTCCCCCTGGAGGGACTTGACCTACGCCCTTTTCTAGCCAAGGAGTGCACATCCCAGGTCACCACCTATGACCTCCTCTCTGTCATTTGTCACCACGGCACAGCAGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:17
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(2.8=100)
A:
NA
C2:
PF0044324=UCH=FE(11.1=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:
GCTTCGGAATGGCGTGAAGTA
R:
GCTGTGCCGTGGTGACAAAT
Band lengths:
222-1137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]