Basic Information
VIS ID
TVIS30008451
Fusion event
HIV-GRK7 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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr3
Cytoband
q23
Reference genome
GRCh37/hg19
Start
141489349/141770507 (Hg38)
End
141489349/141770507 (Hg38)
Orient
+
Location type
Intronic
Target gene
GRK7
miRNAs that regulate target gene
hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-6807-5p ; hsa-mir-1287-5p ; hsa-mir-3135b ; hsa-mir-219b-3p ; hsa-mir-6128 ; hsa-mir-512-3p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p
Nearest miRNA
hsa-let-7g/Upstream/7332601; hsa-mir-1224/Downstream/9795369;
Nearest TSS
ENST00000440867/Upstream/24665; ENST00000264952/Downstream/7641;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/31839, chr3-CpG: 27/Downstream/7809
Nearby gene
GRK7(No orient, 7694)
Upstream sequence
TAGATTTCAACTAGGAGCCACCTAGTGAGCCACTACACCTGGCCAACAAGGTATTTTTGATTACTTCAAATTATTAAAAGTGGGGCCAGCTGTTGCTGGG
Downstream sequence
AGGGTAAAGACCCTTTTGCTATACTTTCCAGTAGAGGGCTTTTACTGAAAGAaaaaagaaaaaaaaaaaagacacctttgctgtggaaggattcaaatca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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