HsaINT0178689 @ hg38
Intron Retention
Gene
ENSG00000136878 | USP20
Description
ubiquitin specific peptidase 20 [Source:HGNC Symbol;Acc:HGNC:12619]
Coordinates
chr9:129880113-129881838:+
Coord C1 exon
chr9:129880113-129880289
Coord A exon
chr9:129880290-129880466
Coord C2 exon
chr9:129880467-129881838
Length
177 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
GAGTGCCCGTGTCCCCACAGCCC
3' ss Score
9.02
Exon sequences
Seq C1 exon
GAGCTGACTACGGGCAGATTTCGGAGGAGACCTGGACCTACCTGAACAGCCTGTATGGAGGTGGCCCCGAGATTGCCATCCGCCAGAGTGTGGCGCAGCCGCTGGGCCCAGAGAACCTGCACGGGGAGCAGAAGATCGAAGCCGAGACGCGGGCCGTGTGATCTGCTGGGCTAGTCT
Seq A exon
GTAAGTCGCCCCGGCTGGTCCCTCCATGGCACTCTGGGTCCTCTCCTCACTCTCCAGAGACCCTCACATGTCCTTTTGAACATCCAAAGAGCAGGTCCCTGAAAGCACCTTCCTGGAGGATGTGGGAGGGCCCTGGACATGGCCCGGCCCCACTGCTGAGTGCCCGTGTCCCCACAG
Seq C2 exon
CCCCATGTGCCCCACCCCGCGGAAGGCGTGTTTGTGCCCAGAAGAGAGGCCGGGCTGCTGCAGAACCCCGCCGTGTAAAGAGGCAGAAAAGTTGGTTTGGTTTGCAGTAACGCTGCAACTAGAAAATATATGCACTTCAGGCTTGTTGAAACGACCAAGACTCTGTGACGTTAATTTGGGTCTTTGTCCTGGCAGTGCCTCTGCCAGTCACTGTCATCGTTGTGTCCCCCACAACTGTCCTCTTGCTAGCTCGGCCCAGCTTTGTCCCTGGAGCCCGATGCTACCCCTGTCAGACAGAGGCTGCGGCCTGGGCCAGAGTCAGGGAGTAGCTGCTGCTTCACGGCGTCTCCACTGTGCGATTGGCCCGGAGCCCCGAAGACTCGGAGGGAGCTGCTCAGGGCCGGTGAGCGCAGCCAGAAGCCCTGGCCAGTGAGGAGCTCACAGGTCCTCCCTGGTGGTCCCGCCGCACCTCTGCATCTCCTGGGCGTCACCAGGAAGGCTCTGAAGTCCCGGGCTGCTCTCAGCACTTCTCCTGCAGACTGAAGACTCTGGACTCATTGCTGATTGGAACACCAGGAGGAGGTTGGATTTCTGCCAGTGGGGGATGTTTCTGGAGGCAGCTGGTCCCCCACACCGCGTCCTGCTGAGCCTGCCCCCTGGATTGGCTGTAATTTGCCTCGAAGTTCAGCAGTTCATCTTCATGGGAAATTTGCTGAGCCCCCACCAGGGAACCGGATGATGAAACAGGGATACCTCACAGCTTGGCCATTTGAGGCAAAGGCAGCTTCCCGAGCTGATGCTAAAGAAGACAGACTTTCCCTTCCTCCCAGCAGCAGCAGTGCAGAGCCCACCTGGAGGGATGTGGGGGCTGTGCAGGGTGCAGCGCTCAGGTGGATCCTGGGAAGCAGCCTCTGGATGCTGAGTGGAGGGAGCCACTGAGCACAGCAAGGCACCAAAGCCCCTGGAGAAACCGCCAGGGCGAGGTGCGACCATCATCAGGATCAAAGCAGACGGGGCGTGGGTGGGGAAGGGGCTCTGGGACCAGACCCCCCACACTACTGCGTCTTTGTTTCTATCAGTCTTTGTAGAAGCAGGTGGTGGTGGAAATTCCAGCAGGTGGGTCCCGCAGAGGCCCTGAGGCCTCACTTTTCGGATCTTCTGTCCCAGATCCTGCTCCCTCCCTGCTGAGCCTGGGGTTCCCCTGGCATTGGCCCCAGCCTTCTGAAAGCCGGCGCTGCAGCCAGAGGCCGCACGCTGCACTGTCGCGACGCAGAGAGGCTTCTGTGCAGGCTGGGATCGGGCCCCATGTCTGTGCTGTCTAGTTTGTGTTCAAAATGTCAGAATAAACACAGAATAAATGTTCCCACGGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136878:ENST00000372429:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.396 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF063377=DUSP=PD(37.7=53.7)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGACCTGGACCTACCTGA
R:
TTTCTGCCTCTTTACACGGCG
Band lengths:
242-419
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