HsaINT0178680 @ hg38
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr9:129873699-129874756:+
Coord C1 exon
chr9:129873699-129873744
Coord A exon
chr9:129873745-129874575
Coord C2 exon
chr9:129874576-129874756
Length
831 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CGCTCTCTCTGTCCCCGCAGATC
3' ss Score
14.73
Exon sequences
Seq C1 exon
GCTGCGGAACGGAGTGAAGTACTGCAAAGTCCTGCGGTTGCCCGAG
Seq A exon
GTGAGCCAGTGGCCTCGGCAGCCTCCTCCTCAGCTATCTCGGGATGCACACCAGCACACACCAGGCAGGGGCTGAGCCTGCTCCACTGCTCGGGCACTTCTGTGCTGCAGGGGCCGTGGAGACTCCATAGCTTTGGCTGAGAAACCTCTGGGAAGGGTTGGCAGGGGGCACATTTTTCCAACTGTGACTTGGTGCCCTCTCTCGGTAGCCTCAGCACATGTTGTCTAACATGTTGTATGAGGGCCCAATGGGAGGCAGGTGTGTGGGACACTGGGTTACCACCCCCAGTGAGACAGCTATGGCTCCTGCCAGCTGCAGAGTGGCGGGAGGAGAGCTGGTCCAGCTGGGGCTGTTGCCAGGGGTCTTTCTGAGGAGTAACGTCTGAGTGGGGCCTGGAGGGTGTAGGCTGGTGTCAGCGTCGTGGATGGAAGGCACAGAAGGAACAGACAAAACCCCAGTGCAGGAGCAGGCTTGTCCGCACCAAGGAAGGCACGTGTGGCTGGAGCAAAGAGGAGAGGGCCCTGGCAGAGGGGGCCCAGGTTGGGGCTGTGGTGGCTCGGGGAGGCTTTGTGGCTTCTCAAAGGTAGTGCCGACAGAACTGGTAAACTTGATGGCTCATTGCAGCTCTTGGGGTCCAGTTCTCAGCAGTGGAGCTGGGAGTGATCTGTGTGACTTAGAGCGAGCCCAGTCTGGCCCCCACGTGGAACTCTTGGATTTGTTCCAATGGAGTCAGCTTGCATGATCCCATCAGCTGTCCTGGGCCCGTGGGCAAGGCTGCGAGGGCCCGCATCATTTCTTCCTAGATGACCGGCGCTCTCTCTGTCCCCGCAG
Seq C2 exon
ATCCTGTGCATTCACCTAAAGCGCTTTCGGCACGAGGTGATGTACTCATTCAAGATCAACAGCCACGTCTCCTTCCCCCTCGAGGGGCTCGACCTGCGCCCCTTCCTTGCCAAGGAGTGCACATCCCAGATCACCACCTACGACCTCCTCTCGGTCATCTGCCACCACGGCACGGCAGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878:ENST00000372429:17
Average complexity
IR
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(2.8=100)
A:
NA
C2:
PF0044324=UCH=FE(11.1=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:
GGAACGGAGTGAAGTACTGC
R:
TGGTGGCAGATGACCGAGAG
Band lengths:
208-1039
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains