RnoINT0161419 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9844809-9845509:+
Coord C1 exon
chr3:9844809-9844981
Coord A exon
chr3:9844982-9845414
Coord C2 exon
chr3:9845415-9845509
Length
433 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGC
5' ss Score
8.56
3' ss Seq
TCTCTTTCCTGTGTATCTAGGTT
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTGTCTACCACAGTGGAGACATTCCAGGACCTGTCATTGCCCATCCCTGGCAAGGAAGACCTAGCCAAACTTCACTCTGCCATCTACCAGAATGTACCAGCCAAGCCGGGTGCCTGTGGGGACAGCTATTCCTCCCAGGGCTGGCTGGCCTTCATCGTGGAGTACATCCGACG
Seq A exon
GTATGCCCATCCTGCTAGCTGGGGCTTCCAGTCTGGTCTGGCTTTCCTGGGTCTACCAGCAATTCAGGGACAAGCATTCATGGGGTCATGGATCAGGGGAGCTGGAGGCCAGAAGATAAAGAGGAGTTTGCTGGGTTCAGGGTCTTGGTCACTTTGGAATAGCCTGGACTAGACACTCCTTGAAGGTGGAGGACAAGTGACAACCTAGAGAGTGACCAAGCAGCAGGTAGAAATGAGGCACCTGCCAAGCTCTGGTCTGAAGAATCACCAGATACTTCCTTAATCCCCGAGGCGCTGGCTTAGGGAAGAGCGCCAAACCCCTCCCCACCAGCCTATGTACACAAGATGTCCAGCCCCAGTCAGGTTGAAACCGACCTCAGCATGCCCATACCCAAGGACGACAGCACCTGTCATCTCTTTCCTGTGTATCTAG
Seq C2 exon
GTTTGTGGTATCCTGTACCCCCAGCTGGTTTTGGGGACCTGTTGTCACACTGGAAGACTGCCTGGCTGCTTTCTTTGCTGCTGATGAGCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:14
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(10.6=100)
A:
NA
C2:
PF0044324=UCH=FE(5.9=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:
GTGTCTACCACAGTGGAGACA
R:
GCTCATCAGCAGCAAAGAAAGC
Band lengths:
262-695
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]