Basic Information
VIS ID
TVIS30006305
Fusion event
HIV-USP12 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr13
Cytoband
q12.13
Reference genome
GRCh37/hg19
Start
27695961/27121824 (Hg38)
End
27695961/27121824 (Hg38)
Orient
+
Location type
Intronic
Target gene
USP12
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-744-5p ; hsa-mir-1260b ; hsa-mir-1252-5p ; hsa-mir-3202 ; hsa-mir-328-5p ; hsa-mir-4271 ; hsa-mir-4447 ; hsa-mir-4472 ; hsa-mir-4476 ; hsa-mir-4533 ; hsa-mir-4725-3p ; hsa-mir-4747-5p ; hsa-mir-5196-5p ; hsa-mir-625-5p ; hsa-mir-6780b-5p ; hsa-mir-6795-5p ; hsa-mir-6876-5p ; hsa-mir-6885-5p ; hsa-mir-6887-5p ; hsa-mir-7109-5p ; hsa-mir-7515 ; hsa-mir-8083 ; hsa-mir-92a-2-5p ; hsa-mir-9500
Nearest miRNA
hsa-mir-2276/Upstream/2959320; hsa-mir-1267/Downstream/12542210;
Nearest TSS
ENST00000623511/Upstream/26118; ENST00000440657/Downstream/41031;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/361048, chr13-CpG: 165/Downstream/49125
Nearest cancer related gene
USP12(TSG, No orient, 0)
Upstream sequence
gtggcaggcacctgtagtcccagctactcaggaggctgaagcaggagaatggcgcgaacctgggaggcagagcttgcagtgagccgagatcatgccactg
Downstream sequence
cactccagcctgggagacagagcgagactctgtctcaaaaaaaaaaattaaataccagaattaacagacacaggatgtaaaacaaatgtctcatatgtgt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate