DreINT0172508 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32704147-32704453:+
Coord C1 exon
chr5:32704147-32704216
Coord A exon
chr5:32704217-32704339
Coord C2 exon
chr5:32704340-32704453
Length
123 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGC
5' ss Score
6.99
3' ss Seq
TCTTTATATTCATTTCCCAGTCC
3' ss Score
7.71
Exon sequences
Seq C1 exon
GTCTGACAGGGATGAAAAACATTGGAAACTCTTGTTATATGAATGCTGCACTGCAGGCCTTGTCCAACTG
Seq A exon
GTAGGCTTAAAATCCTGACACAGATTTGTTGAGTGACTGATTGCACTGATTGATTTCTCAGGTCTGCGCGTCCAGCTCTTTAACTGACTTTGGGTTTCCTGCTTCTTTATATTCATTTCCCAG
Seq C2 exon
TCCTCCTTTGACTCAGTTTTTCCAGGATTGCAGTGGATTGGTGCGTACGGATAAGAAGCCGGCATTGTGTAAAAGCTATCAGAAGCTTATCTCTGAACTCTGGCACAAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(16.4=91.7)
A:
NA
C2:
PF0044324=UCH=FE(28.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGACAGGGATGAAAAACATTGGA
R:
CGTTTCTTGTGCCAGAGTTCA
Band lengths:
183-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]