HsaINT0178688 @ hg19
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:12619]
Coordinates
chr9:132641852-132642568:+
Coord C1 exon
chr9:132641852-132641923
Coord A exon
chr9:132641924-132642391
Coord C2 exon
chr9:132642392-132642568
Length
468 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GTGCCTCTCGTGCCCTGCAGGAG
3' ss Score
10.75
Exon sequences
Seq C1 exon
AGCCCCCCGGGCCCATTGACAACAGCAGGATTGCACAGGTCAAAGGAAGCGGCCATGTCCAGCTGAAGCAGG
Seq A exon
GTGAGTTCCCCCTGGGGTCAGCCAGGCTCCTCTCTGCCCTTCCTGGCTGCCAGGCTGCTGCCCAGTCCCGTCCTTCCAGGAGCCCCCTTACCACCTGTCTTAGAGTCAGGCTGAGACGTCCACCTGAGTCCAGACCCAGGCGGCTGAGAGATGGCCCAAGGGGCTTGGTCTCTGCTTGTGTCCTCCAGGTCCCACCCCTCTGCCTGCTGCTGGCCTTGCCCACCCTGCTGTTTATGTCAGCCCCACCCCCAGGAACAAGGGACACAGCCAGAGATGTGTTATCCGGGGCCCTTAGCGGGATGGACATTCCTCTGGGAAATCCTGATTTCCATCTGACAGCTTTGCATAGAAGCCCTGGTTGCCGTCTTCCCGCTTCGGGGCCTGGCCCTGCGGAGCCCCCACTGCCCAGGCCGGTGGCTTCCTTGAGGAGGCAAAGGTGAGCCTAGGGGTGCCTCTCGTGCCCTGCAG
Seq C2 exon
GAGCTGACTACGGGCAGATTTCGGAGGAGACCTGGACCTACCTGAACAGCCTGTATGGAGGTGGCCCCGAGATTGCCATCCGCCAGAGTGTGGCGCAGCCGCTGGGCCCAGAGAACCTGCACGGGGAGCAGAAGATCGAAGCCGAGACGCGGGCCGTGTGATCTGCTGGGCTAGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878-USP20:NM_001110303:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=0.396
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(31.2=100)
A:
NA
C2:
PF063377=DUSP=PD(37.7=53.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCATTGACAACAGCAGGAT
R:
AGACTAGCCCAGCAGATCACA
Band lengths:
239-707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)