Basic Information
VIS ID
TVIS30000484
Fusion event
HIV-PCMT1 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
chr6
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
150098036/149776900 (Hg38)
End
150098036/149776900 (Hg38)
Orient
+
Location type
Intronic
Target gene
PCMT1
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-877-3p ; hsa-mir-106b-3p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-330-3p ; hsa-mir-508-3p ; hsa-mir-570-5p ; hsa-mir-646 ; hsa-mir-3135a ; hsa-mir-548ag ; hsa-mir-548ai ; hsa-mir-4477b ; hsa-mir-7856-5p ; hsa-mir-548ba ; hsa-mir-4445-5p ; hsa-mir-1283 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-219a-5p ; hsa-mir-6766-3p ; hsa-mir-4782-3p
Nearest miRNA
hsa-mir-10398/Upstream/9093017; hsa-mir-1202/Downstream/1325775;
Nearest TSS
ENST00000381078/Upstream/26856; ENST00000480010/Downstream/21272;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/26751, chr6-CpG: 167/Downstream/86308
Upstream sequence
tgatactttgtattggaaatggaaaactggcagtcacatactttttttgtgtgggagagtacattgaatgtttttggaagacaatttggcagtatctatc
Downstream sequence
gaaatgtgaaataaatataacttagatttcccagttttatttcaagatatttatcccataatatatacatgagtgcagagtgacttaagttatttattga
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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