Basic Information
VIS ID
TVIS30006391
Fusion event
HIV-GPC6 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
94976114/94323860 (Hg38)
End
94976114/94323860 (Hg38)
Orient
+
Location type
Intronic
Target gene
GPC6
miRNAs that regulate target gene
hsa-mir-361-5p ; hsa-mir-1279 ; hsa-mir-483-5p ; hsa-mir-32-3p ; hsa-mir-7161-5p ; hsa-mir-548u
Nearest miRNA
hsa-mir-1297/Upstream/1833640; hsa-mir-1267/Downstream/2103369;
Nearest TSS
ENST00000623511/Upstream/37512; ENST00000376958/Downstream/144095;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/1095236, chr13-CpG: 59/Downstream/225446
Upstream sequence
CATTTAAGTACAAAGATTTAAATTATTCGATAGGATTTCAAGTAGATTTTTTAAAAGATTTTTCATTTATTCAGTGACTCTTCAACTCAAAGCCTGTAGG
Downstream sequence
TAAACACCCTTGCCCCAGCCCTAGTCTTTACAGGAAGTGGCTGATATGGCTTCCTGCTGCAGCATTTAAGATGAGCTAAAGCTACTAAATAAAGCTTTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate