Basic Information
VIS ID
TVIS30016383
Fusion event
HIV-NECTIN3 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
30526518/30558741 (Hg38)
End
30526421/30558741 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
NECTIN3
miRNAs that regulate target gene
hsa-mir-3163 ; hsa-mir-100-3p ; hsa-mir-559 ; hsa-mir-548y ; hsa-mir-548w ; hsa-mir-548o-5p ; hsa-mir-548j-5p ; hsa-mir-548i ; hsa-mir-548h-5p ; hsa-mir-548d-5p ; hsa-mir-548c-5p ; hsa-mir-548bb-5p ; hsa-mir-548b-5p ; hsa-mir-548ay-5p ; hsa-mir-548au-5p ; hsa-mir-548as-5p ; hsa-mir-548ar-5p ; hsa-mir-548aq-5p ; hsa-mir-548ap-5p ; hsa-mir-548am-5p ; hsa-mir-548ak ; hsa-mir-548ae-5p ; hsa-mir-548ad-5p ; hsa-mir-548ab ; hsa-mir-548a-5p ; hsa-mir-548n
Nearest miRNA
hsa-mir-3143/Upstream/3411053; hsa-mir-10398/Downstream/25591;
Nearest TSS
ENST00000381078/Upstream/1394; ENST00000470703/Downstream/1290;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/1329, chr6-CpG: 56/Downstream/12465
Upstream sequence
catagtgagatcctgtctctaaatacaagaagaaaaaaagacttactataaagctacaatagttacaacgatgcagtttggaaacaatgatagacataag
Downstream sequence
tcaataggacttatgtcccgaagagtccaataacaggcccatacatgtgtggacacttcatttatgatgaagatggaactgaaaagttggtcttttcaat
Target sequence
agtgagatcctgtctctaaatacaagaagaaaaaaagacttactataaagctacaatagttacaacgatgcagtttggaaacaatgatagacataag
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
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