DreINT0172502 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32725010-32725355:+
Coord C1 exon
chr5:32725010-32725078
Coord A exon
chr5:32725079-32725197
Coord C2 exon
chr5:32725198-32725355
Length
119 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
ATCTGTGGATGGGTTTTCAGGAG
3' ss Score
5.64
Exon sequences
Seq C1 exon
AGCCACCAGGCCCCATTGACAACAGCAAGATTGCAGTAATGAAAGGCGGTCATATCCAGCTTAAACAAG
Seq A exon
GTCAGGACTGTATGTGTGCGTGTGCCTCTCTGCTAATTGACATGTCTGTGACTAATCATTTGTCAAAACTTTCTCTGACTCACTTGAGTGTTATTCATTATCTGTGGATGGGTTTTCAG
Seq C2 exon
GAGCAGACTATGGGCAGATATCTGAAGAAACGTGGCAGTACTTGTTAAGTATTTATGGCGGTGGGCCAGAGATTGCAGTGCGGCAAACCATCAGCCCCCCAGACACTGACACACACGGGGAGAGGAAAATAGAGGCAGAGACCAGAGCCCTCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.480
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(29.9=100)
A:
NA
C2:
PF063377=DUSP=PD(39.0=57.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAGGCCCCATTGACAAC
R:
AGAGGGCTCTGGTCTCTGC
Band lengths:
219-338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]