Basic Information
VIS ID
TVIS30008402
Fusion event
HIV-chr3 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
chr3
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
108266212/108547365 (Hg38)
End
108266212/108547365 (Hg38)
Orient
-
Location type
Intronic
Target gene
CIP2A ; MYH15
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-423-3p ; hsa-mir-181b-5p ; hsa-mir-4683 ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-6888-5p ; hsa-mir-7161-3p ; hsa-mir-1207-5p ; hsa-mir-28-5p ; hsa-mir-3139 ; hsa-mir-326 ; hsa-mir-330-5p ; hsa-mir-4487 ; hsa-mir-4722-5p ; hsa-mir-4736 ; hsa-mir-4763-3p ; hsa-mir-6077 ; hsa-mir-6776-5p ; hsa-mir-6861-5p ; hsa-mir-6868-5p ; hsa-mir-708-5p ; hsa-mir-7150 ; hsa-mir-7-5p
Nearest miRNA
hsa-let-7g/Upstream/5023249; hsa-mir-12124/Downstream/1055463;
Nearest TSS
ENST00000440867/Upstream/18043; ENST00000497905/Downstream/38398;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/324709, chr3-CpG: 38/Downstream/42015
Nearby gene
CIP2A(No orient, 2506)
Nearest cancer related gene
CIP2A(OG, No orient, 0)
Upstream sequence
tatgggactacaggcatgagcAGTGACCAAGTTTTAATTTTTAAAAGTTAATTATCTAGAATGTAAACTTAGTGAAGGCTGGAAATGTACAATTATTTTC
Downstream sequence
TTAATCCAAAATACTTTATTATGGGTAATACTCATTTAATATTTATTGGTAATCACTGAGAGCCAAGGTAAAGTGATGATCCAAATGAATTGAATGTCAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate