Basic Information
VIS ID
TVIS30000673
Fusion event
HIV-GPD2 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
chr2
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
157351161/156494649 (Hg38)
End
157351161/156494649 (Hg38)
Orient
+
Location type
Intronic
Target gene
GPD2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-30a-5p ; hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-206
Nearest miRNA
hsa-mir-128-1/Upstream/5126238; hsa-mir-10b/Downstream/2692186;
Nearest TSS
ENST00000437798/Upstream/21057; ENST00000464846/Downstream/76523;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/58152, chr2-CpG: 31/Downstream/1102638
Upstream sequence
GCAACTGCAGGGGGTAAGTGGGTTTCCTTTATTTGAATGAATTTAAAAAATCACTTATTTTGGGTGATTAGGATAATCTCTTGGTAACGCCTGAGATTAC
Downstream sequence
CTCCTCTTGCACATGCTTTGGCCTGTTGGCCTAGAGCTTCAAATGGGGCTCCTGCAGCAGAATGGGAAAAACACCACCATCATGGATTGCAATGATGCTG
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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