DreINT0172490 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32710298-32710865:+
Coord C1 exon
chr5:32710298-32710410
Coord A exon
chr5:32710411-32710692
Coord C2 exon
chr5:32710693-32710865
Length
282 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
AAAACTATTTGGCTTTGCAGGTT
3' ss Score
7.59
Exon sequences
Seq C1 exon
CTCAGATGCTACTGAGCACCAAGAAGAAGAAGCAGTCCCGTTTCCGTAGTGTTATTTCCGATATCTTTGATGGATCCATTCTGAGTCTTGTTCAGTGTTTGACATGTGACCGG
Seq A exon
GTGAGCAGGGATGCCAGCATCTTTTATTTTGTCTCTAGAGGGCGCCAAGCATCAAATTACATTTAAAACACTTCAAAATGCACTACTACAGTTTATTCGCGACTGTGCTCATTTATAAACCATGTAGTTCATTTAAGGTCACATCTAGAAAAAAACTGCAATGCATAGCAGCACAGAACAGCCCTTATATACATGAATCATATTGAGGATATTTTTCAAAAATACAGTATGTTTAAGACTGCAGACACACAAAAGGTTTAACAAAACTATTTGGCTTTGCAG
Seq C2 exon
GTTTCGACAACTGTGGAGACGTTTCAGGACCTTTCTTTGCCTATACCCGGTAAAGAAGATTTGGCTAAGCTTCATTCCTCCATTCACCAGAGTGCACCTGTTAAAGCTGGTGTCTGCACTGATGGCTATGCTGCACAGGGCTGGATCTCCTACATCATGGACTCTATACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:12
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(6.9=100)
A:
NA
C2:
PF0044324=UCH=FE(10.6=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:
ACTGAGCACCAAGAAGAAGAAGC
R:
CTTCGTATAGAGTCCATGATGTAGGA
Band lengths:
276-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]