Basic Information
VIS ID
TVIS30005720
Fusion event
HIV-NLRP6 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
chr11
Cytoband
p15.5
Reference genome
GRCh37/hg19
Start
285669/285669 (Hg38)
End
285669/285669 (Hg38)
Orient
-
Location type
Intronic
Target gene
NLRP6
miRNAs that regulate target gene
hsa-mir-6748-5p ; hsa-mir-6769b-5p ; hsa-mir-6769a-5p ; hsa-mir-6880-5p ; hsa-mir-4483 ; hsa-mir-1293 ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-6745 ; hsa-mir-363-5p ; hsa-mir-4518 ; hsa-mir-1266-5p ; hsa-mir-3664-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-4476 ; hsa-mir-6876-5p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125
Nearest miRNA
hsa-mir-6743/Upstream/76263; hsa-let-7a-2/Downstream/282420;
Nearest TSS
ENST00000527297/Upstream/6610; ENST00000533924/Downstream/1636;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/3969, chr11-CpG: 64/Downstream/3194
Nearby gene
NLRP6(No orient, 281)
Upstream sequence
CAGCCATTCCCCTTGAAAACACCCCCCGACCCCAAGCCACAATAATGACAGCGAGAGCTCCAATTAACTAAGCACCTACCTGGGGGCAGAATAACCCTTC
Downstream sequence
ACTGCCTGATCCCCATCTGCAGTGTGGCCCAACAGCCCCCAGAACTATGCCCACATAGACTGGAGGTAGGCAGTTCACCGTCCCTCCCTGTTAGGAATGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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