HsaINT0178677 @ hg19
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:12619]
Coordinates
chr9:132631951-132632826:+
Coord C1 exon
chr9:132631951-132632123
Coord A exon
chr9:132632124-132632731
Coord C2 exon
chr9:132632732-132632826
Length
608 bp
Sequences
Splice sites
5' ss Seq
ACGGTGCGC
5' ss Score
8.67
3' ss Seq
CACTCCTTTTCTGTCTGTAGGTT
3' ss Score
10.8
Exon sequences
Seq C1 exon
GTATCCACCACAGTGGAAACGTTCCAGGACTTATCACTGCCCATTCCTGGAAAGGAGGACCTGGCCAAGCTCCATTCAGCCATCTACCAGAATGTGCCGGCCAAGCCAGGCGCCTGTGGGGACAGCTATGCCGCCCAGGGCTGGCTGGCCTTCATTGTGGAGTACATCCGACG
Seq A exon
GTGCGCCCACCTTGCCACTACTGGGCGACATGGGCTGGGCCTGTCCTGGTTTTCCTGGGCGGGAGACAGTACACAGTGAAGTCCATGCATTTGGGGAACCAGGGAGGTCCTGGGAGGAGCTGGGGGCCGAAGCCTGCAGAGGAGTTGGCTTAATATGCAGGGGATTTCTTGGCTACTTTGAAGTGGCCAGGATTGGATAGTCCCTTGGAGCTGGAGGGCGATGGACAGCAGGGAGGTGACCACATGGCAGGTTGAAGGGAGGGCAGCAGCAGGACACAGGCCTGGTTGGCGGGAAGGGCAGCAGCTTTCCCAGGGCTGCCTCTCCTGCCTGAGGCCAGAGACCCGCATGACCCCAGGGAGGGGGTAGCATGATCATGGCCGCAACACAGATGAAGGAGGCCAGGCTTGCGGAGAGATGATGTCACTCGGCCCAGGACACGGACGTGTCTGGCTCCAGGCCTCTGCCCCGACCCGCCGTGCCCGGCTGCTTCTCTGGGCCTTCAGGGTCCTTCTGCGGCTCAGGCCTGACAGACCTCAGCCAGAGTCCCTTCAGCTCCTGTTCTTGCCCAGGCCCTGGCAGCACCCCTGCACTCCTTTTCTGTCTGTAG
Seq C2 exon
GTTTGTGGTATCCTGTACCCCCAGCTGGTTTTGGGGGCCTGTCGTCACCCTGGAAGACTGCCTTGCTGCCTTCTTTGCCGCTGATGAGTTAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878-USP20:NM_001110303:14
Average complexity
IR-S
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(10.6=100)
A:
NA
C2:
PF0044324=UCH=FE(5.9=100)
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:
TCCAGGACTTATCACTGCCCA
R:
CCTTTAACTCATCAGCGGCAA
Band lengths:
246-854
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)