DreINT0172489 @ danRer10
Intron Retention
Gene
ENSDARG00000027501 | usp20
Description
ubiquitin specific peptidase 20 [Source:ZFIN;Acc:ZDB-GENE-040426-1219]
Coordinates
chr5:32710061-32710410:+
Coord C1 exon
chr5:32710061-32710207
Coord A exon
chr5:32710208-32710297
Coord C2 exon
chr5:32710298-32710410
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
3' ss Seq
TATAATTGTTTCTCTAATAGCTC
3' ss Score
7.58
Exon sequences
Seq C1 exon
AACCTGATAATGAAGCTTCCATGCACTGTCCATCCTCTCGCCCCTGTAGCCCCGCTCACAGTGTACAGGAGCTTCACTCCAGACTCTCTAGTAACCCACCAAGATCCAGCCCTCTCAGAACTGGACCCACGTATACTTTCAAGAAAG
Seq A exon
GTTTGCTTGCTTATTTAATTTACACATATACAGCATTGATGTAATATTTTCCTTTGTACTAATTAACCATTATAATTGTTTCTCTAATAG
Seq C2 exon
CTCAGATGCTACTGAGCACCAAGAAGAAGAAGCAGTCCCGTTTCCGTAGTGTTATTTCCGATATCTTTGATGGATCCATTCTGAGTCTTGTTCAGTGTTTGACATGTGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027501:ENSDART00000006021:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.880 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(9.1=100)
A:
NA
C2:
PF0044324=UCH=FE(6.9=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:
TCCATGCACTGTCCATCCTCT
R:
GGAAACGGGACTGCTTCTTCT
Band lengths:
175-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]