HsaINT0178695 @ hg19
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:12619]
Coordinates
chr9:132623822-132625578:+
Coord C1 exon
chr9:132623822-132623891
Coord A exon
chr9:132623892-132625464
Coord C2 exon
chr9:132625465-132625578
Length
1573 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
TCTCTCTCCCCTGCACCCAGCCC
3' ss Score
7.07
Exon sequences
Seq C1 exon
GCCTCACGGGCATGAAGAACCTCGGGAACTCCTGCTACATGAACGCTGCCCTGCAGGCCCTGTCCAATTG
Seq A exon
GTAGGTCGACACTTTGTCCGAGGGCCGAGAGCTGTCCCTGGCAAAGCCCCGGAAACAGCAGCAGTAGCAGCCCCCAGCCGGTTGCCCACAAACACATGTATAGGATGCACAGCAAAATGCCTGAAAGCATGTATACCCTTTGACCCAGCAATCCTCCCAGTCAGAATGTATCCTGAGGAGATAACCGGAGATGCTGGGGAAGTTGTACGTGCAAGGAGGCTCAGTGCTCTGTTGTTTACTGGAAATGATTTAAAGGCCCATCTGCAAGAGAGTATAAATTCTCATAGCCCTTGCAGCAAGTGCAGGAAAAATGGCACAAGACAACATGCATTGAAACAAGAAGGGGTTCAGAATCTGGTGAGTGGGGGAAAAAGGAGGTTATAAAGCATTGCATGGTACAATCCCGTTTTATGGGAGAAATGCGATTTTCCATTAAGGATAAGGCTGTGAGCTCCATGAGGCCAAGGATGTCTCCTGTGTCTGACGTGCTTCTCCTACCCAGTGGAGGTTAGAGATGCAGTATATGTATGCGGGAAGCAGAGAGGGAATGGGTACAAATGCGTAGAAAAGTCTGGAAGGCTATGTCCCAAAATGTTCCTAGTAACTATCCTCAGGTGGCAGGATGCAGGTCAATTATTGTTAATAATTGACCACACCCAGGCTGGGCGCAGTAGCCCACGCCTGTAATCCCAGCACTTTGGTAGGCCGAGGCAGATGGATCACCAGGTCAGGAGATAGAGACCATTCTGGCTAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAAACTAGCTGGACGTGGTGGCACGCACCTGTAGTCCCAGCTACTGGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCTGAGATCATGCCATTGCATTCCAGCCTGGGTGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAGAAAAATTGACCGCACCCAATCCGTTTTAACTTTAATAACCTCTTTAAAGGCCCTGTCTTGGCTGGGCACCGTGGCTTACGCCTGTAATCCCAGCACTTTGGGAGGTCAAGGCAAGTGGATCGCCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACTAGTAGAGCCTGTCTCTACTAAAAATACAAAAAAATTAGCCAGGCATTGTGGCATGTGCCTGTAATCCCAGCTACTCGGGAGGCTAAGGCAGGAGAAGCACTTGAACCCGGGAGGCAGAGGTTGCAATGAACCAAGATTGCACCACTGGACTCCAGCCTGGGCAACAGAGGGAGACTCTGTTTCAAAATAATAATAATAATAATAAAAAAATAAGGTAAGATAGATAAGATGAGATAAAATAAAAATGCCCTGTCTCTGGGAGTTAGGGCTTCGCAGATGAATTTTGGAGGATACAATTTTCTCATAACTGGTAGGAGCCTTCTAGTCACCTTCAGGAGTTTCTGGGTCCAGGGCCACTGTGCTCCCTGTGCGAGCACTCAGGGCTCCCCGCTATGCAGCCCTTTCTAAACTGCCGCATGCCTCATTTGCTCTCCTGACCTGGCTCTCTCTCCCCTGCACCCAG
Seq C2 exon
CCCGCCGCTGACTCAGTTCTTCTTGGAGTGTGGCGGCCTGGTGCGCACAGATAAGAAGCCAGCCCTGTGCAAGAGCTACCAGAAGCTGGTCTCTGAGGTCTGGCATAAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878-USP20:NM_001110303:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(4.1=91.7)
A:
NA
C2:
PF0044324=UCH=FE(7.1=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:
CTCACGGGCATGAAGAACCTC
R:
CGTTTCTTATGCCAGACCTCAGA
Band lengths:
182-1755
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)