GgaINT0124254 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5722786-5723250:+
Coord C1 exon
chr17:5722786-5722966
Coord A exon
chr17:5722967-5723123
Coord C2 exon
chr17:5723124-5723250
Length
157 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGCTGTGTTTCCTGTTACAGGTG
3' ss Score
12.52
Exon sequences
Seq C1 exon
ATTCTCTGCATCCACTTGAAACGGTTCCGGCATGAGGTGATGTATTCCTTCAAGATCAACAGTCACGTCTCCTTCCCCTTGGAAGGGCTGGATCTGCGGCCTTTCCTGGCCAAGGAGTGTGTCTCCCAGATCACCACCTATGATCTACTGTCAGTCATCTGCCATCATGGCACAGCAGGCA
Seq A exon
GTAAGTCCTTCTTGTGACTGTGTGGCAGAAGGGAGCGAGAACAAGAGGAGTATGAGCAAAGCAGAAGCACGTTCCAGGGCTGGGCAGCAGCTCTTCTGGGAGAGCCTGAGTTTCATCTGCACTCTGAATTTCAGCTGTGCTGTGTTTCCTGTTACAG
Seq C2 exon
GTGGGCATTACATAGCCTACTGTCAGAACGTGATCAATGGGCAGTGGTACGAGTTTGATGACCAGTATGTCACTGAGGTCCATGAGACTGTGGTACAGAATGCAGAAGCCTATGTCCTGTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:17
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(11.3=100)
A:
NA
C2:
PF0044324=UCH=PD(7.7=95.3),PF063377=DUSP=PU(25.8=79.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCGGCATGAGGTGATGTA
R:
ACCACAGTCTCATGGACCTCA
Band lengths:
252-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]