GgaINT0124245 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5715021-5716325:+
Coord C1 exon
chr17:5715021-5715134
Coord A exon
chr17:5715135-5716246
Coord C2 exon
chr17:5716247-5716325
Length
1112 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TTTCCTCCATATCTAAACAGGCC
3' ss Score
10.06
Exon sequences
Seq C1 exon
CCCACCTCTCACACAGTTTTTTCTGGAATGTGGTGGTCTGGTCCGTACAGATAAGAAACCAGCACTATGCAAAAGTTACCAGAAGCTGGTGTCTGAGGTTTGGCATAAGAAACG
Seq A exon
GTGAGTGGTCACTCTGTTCTCATCTGTACAGATTTCATATTTATGTTAGTTCTGAAATGTCATCAGCAAAAAGAAATGGTGTCTTCATTGATAAGTGCATCTTCTAAGGCAGACAATTCAAATGCTATACAGACAGGTATGCTTGGATTCCCTCTTATCTAGGAGATCCTGTGTCATGCTGCCAGTGATAAAAACGGGTGGTGGTGGTAGTGATGGAAAGAACACATTCTTAATGTTGTAACTTTAAAAAGGGAGAGATTTCTTTATAGCTTTCCTGGTGGCAGTGAAGAAAAAAATGGTGTGATGAGGGAACACTTTGCTATTTCTGAGTAGTTTGCATGGACTAACCAGCACTTGAAGGAAGTGCTCTTGATCGTCAGAGGGACCGATGATTTGGATGGAAGAAGTGATAGAGATCTGACACTGAGGTTTTACCAAAAACTGAAAAATACAGGTGACTTTTTGAGAAATGTTTTCTATTGGTTCAAATTCTAGACTGGCGCAACACAGTGTAAAATAACACAGCTCTGTTGAAATTTAAAGATGTCCGTTCTGTGAAACTAATAAATTGGGGAAAAATTCAAGCTAGGAATCTGCATGGCATTGTGTGTTTGCTTTGTGTTAGTTATTAACAAGGGATAAGCAAGATGCAGAGCAATACTGTGTATTTAGGCAGCAGGCTGTAGCCATTGAAGCACTATCACGTCAATTTCATATTGGTTTTGACTTACCTCATTTACTTGTCCCCCACCAGCCCACCTGTCAAACATGCTGCTGCAAAACCAAAGCAAGTAACTCACTGCCAAACCCTGCTCTGGGGAGAATCACTTGAGACAGTTCCAGGTGTGGACAGAGCTTCAAGTTAAAGCGTGCTCTAGGGAAGGTTCTCTCTAGAAGGAGAGAGTGAGATGACTGTGAGATGTTTCCTCTCTCTTGATTTCTCTATCAGCTGGGTGATGTATAAATTAAGTCCAGGCTTTGCAGGTGCATAATAATCTTCCATCCTCCTTAACTAGTTACCACACCCTGTTCTGTTGCTTATTACACAAACTGGCTCCAGGCCTGATAAGCAAGCTGACTTTTGTTGTTTTTTTTCCTCCATATCTAAACAG
Seq C2 exon
GCCAAGTTATGTTGTTCCAAGCAGTCTGTCCCATGGAATTAAACTCGTCAACCCCATGTTCCGAGGCTATGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:8
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=0.019
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(42.7=100)
A:
NA
C2:
PF0044324=UCH=FE(29.2=100)
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:
CCCACCTCTCACACAGTTTTT
R:
CTGTGCATAGCCTCGGAACAT
Band lengths:
190-1302
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]