DreINT0172495 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32714737-32715132:+
Coord C1 exon
chr5:32714737-32714917
Coord A exon
chr5:32714918-32715005
Coord C2 exon
chr5:32715006-32715132
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CATCGATTTCTGTTGGGCAGGTG
3' ss Score
7.16
Exon sequences
Seq C1 exon
ATATTGTGCATTCACCTGAAGCGCTTCAGACATGAAGTCATGTACTCGTTCAAAATAAATAGCCACGTGTCATTCCCATTGGAGGGTTTGGATCTCAAACCGTTCCTGGCTAAGGAAAGCCCGTCCCAGATTACTACCTATGACCTGCTGTCTGTCATCTGTCATCACGGCACTGCTGGAA
Seq A exon
GTAAGTTATTTCTTCAAAATATTACAAAGTATAATAGGAACTTTGAAGAACATGGACTGACATTCATTCATCGATTTCTGTTGGGCAG
Seq C2 exon
GTGGGCATTACATAGCGTACTGCCAGAATGTGATCAATGGACAGTGGTACGAGTTTGACGATCAGTATGTAACAGAAGTGCACGAGACAGTAGTCCAGAATGCTGAAGCATATGTCCTATTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:17
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(11.2=100)
A:
NA
C2:
PF0044324=UCH=PD(7.6=95.3),PF063377=DUSP=PU(25.4=79.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAGGAAAGCCCGTCCCAGAT
R:
TGGACTACTGTCTCGTGCACT
Band lengths:
168-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]