HsaINT0178927 @ hg19
Intron Retention
Gene
ENSG00000077254 | USP33
Description
ubiquitin specific peptidase 33 [Source:HGNC Symbol;Acc:20059]
Coordinates
chr1:78161674-78163616:-
Coord C1 exon
chr1:78163548-78163616
Coord A exon
chr1:78163160-78163547
Coord C2 exon
chr1:78161674-78163159
Length
388 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTCTTCTACGTAATTTTAAGGAG
3' ss Score
5.96
Exon sequences
Seq C1 exon
ATCCTCCAGGTCCTATTGACAATACTAAGATTGCAGTCACTAAATGTGGTAATGTGATGCTTAGGCAAG
Seq A exon
GTAAGTTTGACTCGTATTTAAGCTTTTACTTGTGAGTGATTTGTCACTGTTAGAAATATGTTATCATTAGTCATCTATAGTACTTTTTTATTCAACTGAAGAATGTAATCCATACATTAACTAGGGCAAGTAATGAAAAGCAGCCACTTTTTTTTTATCTGAGGAAAGGTCTTAAGGCTGTTGTTAAGAGCAAAGCAAAAGCATCTCTGACTTTTTAAGACAAGCCATATGTTTCAGCTTATAACAATATGGGCTGGTAGTCTGCAGATTCATGTTCCAGAAGTTCTCAATTATCCCGAGAAGATTCATGCTGGGGGGTACATTATGAACGCTTTTGCAATATGAATATATAGGTTTGTAAACATTATTTCTTCTACGTAATTTTAAG
Seq C2 exon
GAGCAGATTCTGGCCAGATTTCTGAAGAAACATGGAATTTTCTGCAGTCTATTTATGGTGGAGGGCCTGAAGTTATCCTGCGACCTCCGGTTGTTCATGTTGATCCAGATATACTTCAAGCAGAAGAAAAAATTGAAGTAGAAACTCGGTCTTTGTAATTTTTAGGATGTAGAGAGTTCTAATGAGGAATCATTTTCATGTGCCCTGACATGTACACATGCGAAAACATTCCTAAAAGCGTGTTTATTTGCTTTATTTTTTTTCATCATTTATCCCATTTATTTCTTCTTAGTGGGCATTATGGAAGAATATATTAAAATGTGTAATATACCACAGGTTGGTATATTTAGTTTTAAATACTTACCATAAAGTCTTTCAGTGTAATTTTTTTTTGAGACAGAGTCTTGCTTTGTCACCCAGGCTGGAGTGCTGTGGTGTTACCTCAGCTCACTGCAGCCTCCACCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGATTACAGGCACCTGCCACCATGCCCGGCTAATTTTTGTATTTTAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTAGTCTCAAACTCCTGACCTCAGGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACAGCGCCTGGCCCAGTGTAATATTTTTGAAAGAGGAGGGACAATTGTGAAATCAGTAGGTTATCTTTAATCTTTACACTACATGCAGATCCATAGTATCCTTTGTAGTGTTGTAAATACTTTTGCTTTGAAAACTTTTTCATTGTCCTAAATCACCCTGACTCTGACCAGTCTTTCAGTTCTCCAAAAGCCCAATTTAATTGTATAGTTTTGTCATGGCTTCATATAATAAAGAGCCTATTTTAAGTTGAAAGTAGTAGTCAGAAAATTGTTAATTTCCTAAAGCTCAGGAAACTAGGGTGTCACTTTTTTTGCACTGCAGCATATACACTAACTAGCTTATTAAAATTTACAAAATGTCTTTTTGAATGTATCAAGGATATATTTAGTTTGAGTGGAATTTGTCAGCAGATATCAGTAACTTATTGCCGCTTATATTGTACAATGTTAAACTTCAATTCCTGTAACCTGGTTAGTATTAATGTCAGTGACTAAAAAACTTAGAGTTAGTTTTAGGGCACTTTTTATTTTGAGAGCATGAAGTGTGGAATGTGTCACTACGATTGTTGATAAAGCTGAGGCCACTTGCAACTTGATTTTTTAAATGAAATAGATAAAGTCTTTTTGAATAATATAGTATGCACTGCTATTTGCTTGATTATGTAATGTCAAAAGTTTAACTATATTCCAAGTACAAAAACATACTGGATTACATTGAGGATGTTGAATAGCATTCATGATGGCTTTGTTTTGGTTTGGGGCAGCTGTCACCAGCTAAAGCAATGTTGTTAAAATTAGCTCAATAAAAATGTCTTTAAAATGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000077254-USP33:NM_201624:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF063377=DUSP=FE(30.7=100)
A:
NA
C2:
PF063377=DUSP=PD(37.3=52.8)
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:
AGATTGCAGTCACTAAATGTGGT
R:
TCTTCCATAATGCCCACTAAGAAGA
Band lengths:
350-738
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
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)