RnoINT0161431 @ rn6
Intron Retention
Gene
ENSRNOG00000007710 | Usp20
Description
ubiquitin specific peptidase 20 [Source:RGD Symbol;Acc:1305621]
Coordinates
chr3:9831886-9833064:+
Coord C1 exon
chr3:9831886-9831981
Coord A exon
chr3:9831982-9833010
Coord C2 exon
chr3:9833011-9833064
Length
1029 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
CTCCTACCACTCTCCCACAGGGG
3' ss Score
9.73
Exon sequences
Seq C1 exon
GGGAGGCTGGCCAGAATGGGGGACGCCAGAGACATCTGCCCTCACCTGGACTCCATAGGGGAGGTGACCAAAGAGGACTTGCTGCTTAAATCTAAG
Seq A exon
GTAGAGGAACAGTCCTCAGGTACTAGCGCCCAGCCTAGGGCTGTCATGTGCTCGGGGACCTTTATGAGGCAGGGCAGTATCGCCCTGCCCCCAGCTCTGCAGAGCCTTCTCTATGTAATGGCCCTGCTGGCACCTGCTCTGAAGCTTTCTTCCAGACATTGGGTCCTGCTACCATTAATCAGTTTAGAGAAAACCCCCTGAGGGCCACTAATGGCTCCATCCATTTCCACTGGCTGGGTACACAGCCTTCCTAAGGCAGCGAAGAGCGCACAGAGGTGGTTCTTGGTTTGTTTTTTTTTTTTTTTTTTCTGCACTCTGGGCAAGTGCAGTGCTGCCTAGCCACACCCTAGCCTTCCATGTGTACAGATGTAGACCCTGCGTTGCTTGGGGCATCTGCAGGGGAAGATGAGCTTCCTCCCTAAGTCACACATAGCCACTGTTGTCTTCTGATTGCTGAGTTGAAATTCTGTAAAAAGTCCAAGGACTGAGGATGTAACTCCATGCTGGAGGGAAAGCAAGGCCCTAGGCTGTCAGCTCTTGGGAAGCAGAGACAGGTAGATCTTTAGGAGTTCCAGGTCAGCCTGATCTACAGAGCGAGTTTCAGGCCAGCCCCGGCTACATAGTGAGTCCCTGTCTCAAAATAAAACAAAGGAAGTGAGCAGCCTAGAAAGTTTTTCTTCAAATGAGCAGGAAGTAGGGAATCTGAGTGTGAGGATCAGCTGAGTCTGTCTTCAGCCTCTCTCTGGATACCCAGAGATTTCCAGAATAAGGCCAGTGTGTTTAATAAGCCTCTGAGGGAAGGTGGGGCTCAATGGGAGTGGTCTGCTTGCTAGTCCTTTTAAGGTTTAGCTGGGGTGATCTGAAATACCTTTACAGACATGCTATTTAAAAACCCACTCAGATGCAGTACAGAAAAGGCCTCTGAAGCCAAGGCCTTTGGGGTTAGTGAGTTGCGGCTGACAGGAGAGGATGCCCTGTGCTTCCCTCCCTAGGCCACTTACACCCTTCTCTCCTACCACTCTCCCACAG
Seq C2 exon
GGGACCTGCCAGTCCTGTGGTGTTGCTGGACCTAACCTATGGGCTTGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007710:ENSRNOT00000010786:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]