DreINT0172492 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32714260-32714462:+
Coord C1 exon
chr5:32714260-32714354
Coord A exon
chr5:32714355-32714428
Coord C2 exon
chr5:32714429-32714462
Length
74 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
TTCATTTTCTTTCCAAACAGGAG
3' ss Score
10.83
Exon sequences
Seq C1 exon
GTTTGTAGTGTCCTGTATTCCAAGTTGGTTTTGGGGCCCCATGGTAACGCTAGAGGACTGTCTGGCAGCTTTCTTTGCTGCTGATGAGCTGAAAG
Seq A exon
GCAAGTACACTGCGTCTAACATAAAAAAAAATGTTGTTCTGCTTGGCATTGATGTTCATTTTCTTTCCAAACAG
Seq C2 exon
GAGACAACATGTATAGCTGTGAACGGTGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:14
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(6.0=100)
A:
NA
C2:
PF0044324=UCH=FE(2.1=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:
TTGTAGTGTCCTGTATTCCAAGTTGG
R:
TTTTTACACCGTTCACAGCTATACA
Band lengths:
127-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]