Basic Information
VIS ID
TVIS30000572
Fusion event
HIV-NTRK3 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
chr15
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
88654357/88111126 (Hg38)
End
88654357/88111126 (Hg38)
Orient
-
Location type
Intronic
Target gene
NTRK3
miRNAs that regulate target gene
hsa-mir-765 ; hsa-mir-485-3p ; hsa-mir-128-3p ; hsa-mir-9-5p ; hsa-mir-125b-5p ; hsa-mir-125a-5p ; hsa-mir-617 ; hsa-mir-345-5p ; hsa-mir-384 ; hsa-mir-330-3p ; hsa-mir-198 ; hsa-mir-625-5p ; hsa-mir-509-3p ; hsa-mir-151a-3p ; hsa-mir-185-5p ; hsa-mir-768-5p ; hsa-mir-615-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-410-3p ; hsa-mir-4776-3p ; hsa-mir-192-3p
Nearest miRNA
hsa-mir-10393/Upstream/164858; hsa-mir-1179/Downstream/496981;
Nearest TSS
ENST00000557528/Upstream/11861; ENST00000569588/Downstream/15235;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/2270242, chr15-CpG: 36/Downstream/144297
Nearest cancer related gene
NTRK3(TSG, No orient, 0)
Upstream sequence
AAGAGATGGGGACTGGGCAAGAAGACATGTCAAGAATGACTCCTATGTCTCTAGTTTACAGGAAATTCACTGAGATACAGATGATGAGCGATGGGGTGGG
Downstream sequence
GGTTCACCCCGGGCATGGTTTGGGGCTCAATGGCTGAGGCATCTATCCAGGCTGCTGCTTCACACCTGCCTAAGCTGCCTCCTTGAACCTGGATAGGGTC
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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