Basic Information
VIS ID
TVIS30011847
Fusion event
HIV-GPC5 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
q31.3
Reference genome
GRCh37/hg19
Start
92563354/91911100 (Hg38)
End
92563354/91911100 (Hg38)
Orient
+
Location type
Intronic
Target gene
GPC5
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-20a-3p ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-6868-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-3124-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6809-3p ; hsa-mir-1238-3p ; hsa-mir-4753-3p ; hsa-mir-670-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-4637 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-297
Nearest miRNA
hsa-mir-1297/Upstream/559709; hsa-mir-1267/Downstream/579063;
Nearest TSS
ENST00000623511/Upstream/186042; ENST00000618283/Downstream/429503;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/511638, chr13-CpG: 139/Downstream/1315892
Nearest cancer related gene
GPC5(TSG, No orient, 0)
Upstream sequence
ctgaataaggagaagaaaggagtcacaggaaaacctgtgagaactgtgtctggggcagaaggaaaagtaggcgcaaaggtcttgtggcaggaataagttt
Downstream sequence
attttattcagagaacagaaggccatgcagctaaaacagggtgagttaaagggaggagataaacatacctcatgttttggggagtccagtaggctctggt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate