Basic Information
VIS ID
TVIS30000413
Fusion event
HIV-NBPF10 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr1
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
145657660/145777417 (Hg38)
End
145657660/145777417 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
NBPF10
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-216b-3p ; hsa-mir-4798-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-3942-3p ; hsa-mir-7154-5p ; hsa-mir-549a ; hsa-mir-1250-3p ; hsa-mir-8060 ; hsa-mir-1324 ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-1277-5p ; hsa-mir-6516-3p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-4789-3p ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-101-1/Upstream/28682689; hsa-mir-1182/Downstream/73170;
Nearest TSS
ENST00000473358/Upstream/3574; ENST00000466003/Downstream/46660;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/56299, chr1-CpG: 81/Downstream/46176
Upstream sequence
CCATCCTGTGTTCTTTGGTCAGGGTACACTATTATTTTGAGATTAAAATAGGCCACAAATACATTGACTGTTACTATTAATTTGCACTAATTTGCACTTT
Downstream sequence
GTATACTAGTAGGAAAATGCCTCATGCTGATGTTGAAGCTGTTTTTAAGCATGGATCCTTTAGAAATTTTGTATATTATTAGGTGTGGTAACAATTTATA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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