HsaINT0178690 @ hg19
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:12619]
Coordinates
chr9:132614819-132618639:+
Coord C1 exon
chr9:132614819-132614915
Coord A exon
chr9:132614916-132618585
Coord C2 exon
chr9:132618586-132618639
Length
3670 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TCTCCTCTCAACTCACACAGGGA
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTGAGCCCAGGCCAGGATGGGGGACTCCAGGGACCTTTGCCCTCACCTTGACTCCATAGGAGAGGTGACCAAAGAGGACTTGCTGCTCAAATCTAAG
Seq A exon
GTAAAGGGTCAGACCTTACGGGGCCAGGGCCCACACCCAGGGCTGCCTCTTTCCTGGGGTGTGGACATTTCTGAAGCAGTGGAAAAACTGGTTCCCTGACAGTCTCTGCTCAGCTTTCTGTGTAAATGGAAATGCTGGCATCTGCTTGGGAGGCCGCCTTCCGGAGGCTCTGTCCTAATAGCCATTAATTATAGTTTAGACAAGGCCATTTGGGAACCACTAATGCTCTCTGTCCATTAGCTGTTGGGGCGGTGCACAGAGCCTCTCCAAGGCAGGGAATGAATGCTGCTTTCCAAGTTCAGGAGCGTTTTTACACAGGTGGCTCCAGGAGGGCTCAGGGAAGCCTGAGCAGGAAGCTGGGCCTCTTCTCAGAGTAGGAGGATGTGTTGCCATCCTTTTGGTGTTGTGAAATGAAAATTTTTGAAAAGGTAATACTTGAACAGGGTTACAAATGAAACAGGACAAAAAGATAAATGTCAAGAAGTCCTTCTCTCACCCCTGTGCCCACCCTCCCCAGCCCACCCCCGGGTAAGCACTTATTCTCTTTTGTATCTTTTCAGTTTCTTTATGTGAATACAAGCAGATAAACTCATTTTAAGTTTTGCCCTTTCTTACATAAAAGATGGTATACGATCCTCTCTGTTTTGTAACTTGCTTTATTCACATGACAGTGTATCTTGGAGCTCTTTGGACATCAGTGCATAGAGACAGCTTTCACATTTGTTACCTTGAAGCTGCATCATATTTCATCATGTGGCCACAGTGACTGATGCTCTCTGGGTGGACACCTGGACCCTTTGCAGCCTCTTGCCGATACACATGATGCTGCGATGAATGGCCTTGTAGAAAAGTCATTGCATCCATGGGCAGAGCTGCATGCAGGCATGTTCCCAGGAGTGGGATTCCTGGGCATATTGGCACCTAATGCTGGTCGCCTGGCCTCGCTGCACCAGCAGGTCCTTGGTGGCCTTTGGCCTGAGCTGGTTTTGTCATGGGGCCTGGCATGGGAGCAGTTCTTCATAGTGCCTATAGCTGCTTTTGAAGTGACTTTGCCTCTTGCAGCATGAAGTGGGGCAGAGTGAGGCCCGGATGTGTTTGCACTGTCTGGTGCTGGGTTTCTCTCCACTTCTTAGGGAATCTGAGAGCAGGGGGGGGATGAAGCAGGTGGCAGAAGAGAGGTGGAGCACAGGAAGGTTTGCACTGGGCCTGGCAGCCGTTCAGAAGCCTGTTAGTGCCTCTAGATCAGAGACTGGGCTTGTCTGGGGTGCTCTGGGGCTGTGTGTCAGAGATCACAACTTCAGCTCCTCTTTGGGTATCCAGAAAGTTACAAAATAAAACCAACACCGTTCTAAAATACTCAGAAAGAGCAAGGATATGAGCAGGTCCTTCCCAGTAAAAGAGGTAGAAATGACAAGAAACTTTCTGAAAAAGATGGCTGACTTCACTCTCATTCTTATGGATATTGCTAATGAAATAGGATGATACCATTTTGCAGATGGGCGGAAAGAGACTGATCCCATTCATAGCTGACAGTTATGGAGAAAATGGGCCACTCACGTTGTGGTAGGGCTAGGAATTACCGTAACTTTTAGGGAAACAATTCTGCTTCTGGGAATTTATCCAGTAGAAATGTAATCACCAGTTATAAACATATGATACAGCAGTATTTATTGAGCGTTATTTATAAAAGGGAAAAACTGGTGGCACCTGAATATTCCTCAAGAAAGGAATGGGGGAATCAATTATGGTGTGTCCAGAGTGTGCAGTTATCACAGAGGAATGAAGTCTTCATGTACAGACTTGGGTGACCCTCAAAGGCACATTACAGAGAAATATGTATTGCATGATCTTATTTTTACTAAAAATCACCCCCTCAAGATCCAGGCATACGTGTTTTATGTAAGAAGAATGTACGGAGGGAAATATTTCATATCATACACAGCATATAGATGTCATCTGAATTGTTATAGCAAGCATTCGATACTTTTATAAATCAAATAACTGAAATGGAAAAAAAACTGGGAAGAGGAGGGTGAATTGTGAAGTCAAAAAATCATGAGAGAGATGACAAATTCAGGAAGGTTTGGGGCTGCGGTTTTGAGTCTGCTAAGCAGACTGATCTCCTGGCACCCACAGCATCCTCCGTGAGAGACCCTAAACCACAGAGTGCAGATCTCAGCTTCATCGTATGGGACAAGCTGCTTCACTTCAACCCCATGTTCAGGCTTTTTACAAACACAGCTGGAATCTGGGTGTAGTGACAATGAGAAGGAGGCCATGGAGGCCTGGGAGCCAACATGGCCACCCTGGGGGAAGCCAGGCTTTCTTGGTGAGAGGTTTGTGACCTTGCTGCACTGGGGTCCAGGCTCACTGGCTTCACCTGCTGACCTTGCTCTGTGACAAGGGTGTGACCTCTCTGAGTCCCAGTTTCTCATCAGTGAAAGGGGGATGTTGCTGGGCCCTGCTACAGAGACTGGAGGGGATTATGTGAGCAGTGTGTAAAGAACTCAGTGGGCTGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGGATCATGAGGTCAGGAGATCGAGGCCATCCTGGCTAACATGGTGAAATCCCATCTCTACTAATAATACAAAAAATTAGCCGGGCGAGGTGGTGGGTGCCTGTAGTCCCAGCTACTTGGGAGGCTAAGGCAGGAGAATGGCGTGAACCCCGGAGGCGGAGTTTGCAGTGAGCCGAGATTGCACCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCATCTCAAAACAAAAAAAAAAAAGAAGTTTCTTTTCTCTCACAGAACAGACCACAGGTAGGTAGGACTGGTAGGGTAGCTCTGCCATTCTCAACATGTGGCTTTCATCCTGAGTCCAAGGTGGTTGCTTCAGCTCCTGCCATCACATCCACATTCCAGCCAATGGTAGGAGGAGAAAGAGCAAGGGTAGCACACAGCACAGAAGTGGCACACATCGTTTTTGCTAGTTTGACTAGAACTGAGCCACATGATCATGGTGGAAGCTGGAAAACGTCATCTGCAGCAGGCTAGCTGTGTGTTCAGCTAAAATCCATGCATCCCATTGTTAAAGCAAGGAGGAGAGAAAGGATTCCAGTAGACACGGAGCAGGCTTTGACGCCCAGACCGCCAGAAACCTGGGCGTTTCCTGGGGTTTGCCAGGTCTAGTGAACTCTTCATTTATACCAGGCCCTGTGAACTCACAGGGGTAGGCAGAACAGACCATCCCTCTTTCATGGCGCCCTTGTCTAATGGGGAGAAAGGCTGAAATAATTCAGTGCAAGAAAGGAAGAGTAAGGGGTGGGAAGAGAGCGTGTTAACGAGTCTCTTACATGATTTTATTTTCCAAGATTAGGTTATAGACACTAAAATCATAAAATGTTGATTTGAAAATGTTTTTACAGGCACAGGATAGAATTCAAACAGTAAAGTATAAAGTGCTCCCCTGGGAGCCTAATTTGGACAGGAAGTCTGGCGAAGGCCTTTCTGGGGCCAGGGCTTGAAGCTGAGACCTTCTGAGTGCATGTCAGCCAGGTGGGGCCCTCCAGGCAGGAGCAGTCTCAGTGCTCAGCCCCGCAACGGGCTCCTCATGCCTGCTCTTTTTCTCTCCTCTCAACTCACACAG
Seq C2 exon
GGAACCTGTCAGTCGTGTGGGGTCACCGGACCAAACCTATGGGCCTGTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878-USP20:NM_001110303:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(22.7=83.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)