HsaALTA0009331-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:12619]
Coordinates
chr9:132630284-132631264:+
Coord C1 exon
chr9:132630284-132630728
Coord A exon
chr9:132631169-132631186
Coord C2 exon
chr9:132631187-132631264
Length
18 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
AATGATGCTCACCTACGCAGCTC
3' ss Score
5.13
Exon sequences
Seq C1 exon
GACACCCAAGAGTTCCTTCGCTGCCTGATGGACCAGCTGCACGAGGAGCTCAAGGAGCCGGTGGTGGCCACGGTGGCGCTGACGGAGGCTCGGGACTCAGATTCGAGTGACACGGATGAGAAACGGGAGGGTGACCGGAGCCCATCAGAAGATGAGTTCTTGTCCTGTGACTCGAGCAGTGACCGGGGTGAGGGTGACGGGCAGGGGCGTGGCGGGGGCAGCTCGCAGGCCGAGACGGAGCTGCTGATCCCAGATGAGGCGGGCCGAGCCATCTCTGAGAAGGAGCGGATGAAGGACCGCAAGTTCTCCTGGGGCCAGCAGCGTACAAACTCGGAGCAAGTGGACGAGGACGCTGATGTGGACACTGCCATGGCTGCCCTTGACGACCAGCCCGCGGAGGCCCAGCCCCCGTCACCACGGTCCTCCAGCCCCTGCCGGACGCCAG
Seq A exon
CTCCTCTCGCCCCTGCAG
Seq C2 exon
CCCCGTCCACCACCACGAGGGCCATGCCAAGCTGTCTAGCAGCCCCCCTCGTGCAAGCCCCGTGAGGATGGCACCGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878-15-20,15-19-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.859 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(27.5=100)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGCTGCCCTTGACGAC
R:
GCTAGACAGCTTGGCATGGC
Band lengths:
117-135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)