GgaINT0124239 @ galGal4
Intron Retention
Gene
ENSGALG00000004142 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr17:5712024-5712564:+
Coord C1 exon
chr17:5712024-5712127
Coord A exon
chr17:5712128-5712510
Coord C2 exon
chr17:5712511-5712564
Length
383 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
TTTTTATCATGAATACGCAGGGA
3' ss Score
5.66
Exon sequences
Seq C1 exon
GAAAACACCTTCCTGCAGTGAGAATGGGGGATACGAGAGACATCTGCCCTCACCTGGATTCCATAGGAGAGGTGACCAGGGATGATCTGCTGCTCAAATCTAAG
Seq A exon
GTACAGGGTGTTCTGCTTATCAGCTCTTCCCTTTTTGCTGTTGTGCATGCTTCCGCATGCCTGCTCTTCATAGGGAACGCTGCCTATCCCTGTACAGAAGAGGCAGAAACTCTTTTTCCACTGTTGTTGTACCTTGCACACGGCCCATCAAGTAAGCCTTTGTCAGTCCCATCTGCTGCATTTCTCACTGACGTTTTATCCTGCTCAAACATGCCGCTTATCTAACACACTGCAAAGTGTGTAATTGGAAGCACGGATTGAAGAAATGCTTTGAGCTGCAGGCGGGGGAGGCCTGTCGCATGGAGAAGTTTCTCACTCTTGAAGGATGGGGTTACTTAAAAGACAGACGTGCAAACAAACCTTTTTTTATCATGAATACGCAG
Seq C2 exon
GGAACTTGCCAGTCATGTGGAGCTGTGGGACCAAATCTCTGGGCTTGTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]