Basic Information
VIS ID
TVIS30008485
Fusion event
HIV-PHC3 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
q26.2
Reference genome
GRCh37/hg19
Start
169891001/170173213 (Hg38)
End
169891001/170173213 (Hg38)
Orient
+
Location type
Intronic
Target gene
PHC3
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-196a-5p ; hsa-mir-103a-3p ; hsa-mir-93-5p ; hsa-mir-16-5p ; hsa-mir-32-3p ; hsa-mir-4775 ; hsa-mir-2113 ; hsa-mir-5010-3p ; hsa-mir-4701-5p ; hsa-mir-5096 ; hsa-mir-197-3p ; hsa-mir-6832-5p ; hsa-mir-4735-5p ; hsa-mir-500b-3p ; hsa-mir-411-5p ; hsa-mir-296-3p ; hsa-mir-590-3p ; hsa-mir-3692-3p ; hsa-mir-5689 ; hsa-mir-330-3p ; hsa-mir-323a-3p ; hsa-mir-4422 ; hsa-mir-186-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-4503 ; hsa-mir-6792-5p ; hsa-mir-633 ; hsa-mir-922 ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-497-5p ; hsa-mir-6838-5p
Nearest miRNA
hsa-let-7g/Upstream/1621264; hsa-mir-1224/Downstream/249890;
Nearest TSS
ENST00000440867/Upstream/581; ENST00000488541/Downstream/8510;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/134154, chr3-CpG: 63/Downstream/7945
Nearest cancer related gene
PHC3(TSG, No orient, 0)
Upstream sequence
cctgtgaggtgaaggctgcagttgagccaagatcatgccactgcactccagcctgggcgacacagcaagactcccatctcaaaaaaaaaaaaacaaaaca
Downstream sequence
aaaCCCAGTGgacaattcgcaaaagacaggccaggccaactaagcatttcaaaagattttcaatctcaccagtagtcaaaaacttacaaattaaaacaag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate