DreINT0172494 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32714615-32714917:+
Coord C1 exon
chr5:32714615-32714660
Coord A exon
chr5:32714661-32714736
Coord C2 exon
chr5:32714737-32714917
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
GAGTGTGATCTCTTTTGCAGATA
3' ss Score
9.58
Exon sequences
Seq C1 exon
ATTAAGAAATGGTGTGAAATATTGTAAAGTTCTGCGTCTACCAGAA
Seq A exon
GTAAGTATCCTGCTTTGTTATGTTCTGCTCTTAATATTGCAATTTACATTGTTAGTGAGTGTGATCTCTTTTGCAG
Seq C2 exon
ATATTGTGCATTCACCTGAAGCGCTTCAGACATGAAGTCATGTACTCGTTCAAAATAAATAGCCACGTGTCATTCCCATTGGAGGGTTTGGATCTCAAACCGTTCCTGGCTAAGGAAAGCCCGTCCCAGATTACTACCTATGACCTGCTGTCTGTCATCTGTCATCACGGCACTGCTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:16
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(2.8=100)
A:
NA
C2:
PF0044324=UCH=FE(11.2=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:
GGTGTGAAATATTGTAAAGTTCTGCG
R:
GGTAGTAATCTGGGACGGGCT
Band lengths:
174-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]