GgaINT0124259 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5725149-5725542:+
Coord C1 exon
chr17:5725149-5725251
Coord A exon
chr17:5725252-5725470
Coord C2 exon
chr17:5725471-5725542
Length
219 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
GTGTTTGTTTTTCCTCACAGAAC
3' ss Score
11.6
Exon sequences
Seq C1 exon
CTGAACAAGGCTTTCCTGGCAGAGGAGTCTCCAAGTGTCATCTATTGTATCAGCATGCAGTGGTTCCGTGAGTGGGAAGCCTTTGTCAGAGGGAAGGATAACG
Seq A exon
GTAAGAAGCCGGGGGTCGCTGGAGACTGTCAGTGCTGAGAGGTAGAATGAAAGTAAGTTCATTTTTAGGTGTCCTGCACCTGATGGAGTCTGGGCAGCAACCAGTCAGTGTCCCTGCAGGTCCCCGGGGTGGGGCAGAAATAATGAGGACTAAATGATGTGAATTGGGTGGCAGCATGGGAAGCACATTGATTCTAGATGTGTTTGTTTTTCCTCACAG
Seq C2 exon
AACCTCCAGGACCAATTGACAACAGCAAGATTGCACTGACAAAAGCGGGTGGCCACATGCATGTTAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF063377=DUSP=PU(29.9=65.7)
A:
NA
C2:
PF063377=DUSP=FE(31.2=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:
CTGAACAAGGCTTTCCTGGCA
R:
GTTTAACATGCATGTGGCCACC
Band lengths:
172-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]