Basic Information
VIS ID
TVIS30008300
Fusion event
HIV-SETD2 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
p21.31
Reference genome
GRCh37/hg19
Start
47143884/47102394 (Hg38)
End
47143884/47102394 (Hg38)
Orient
-
Location type
Intronic
Target gene
SETD2
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-26a-5p ; hsa-mir-199b-5p ; hsa-mir-21-5p ; hsa-mir-186-5p ; hsa-mir-526b-3p ; hsa-mir-199a-5p ; hsa-mir-1289 ; hsa-mir-3198 ; hsa-mir-3658 ; hsa-mir-3667-5p ; hsa-mir-4294 ; hsa-mir-4309 ; hsa-mir-4726-3p ; hsa-mir-5702
Nearest miRNA
hsa-mir-12127/Upstream/2240413; hsa-let-7g/Downstream/747161;
Nearest TSS
ENST00000440867/Upstream/3943; ENST00000429315/Downstream/18038;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/92275, chr3-CpG: 172/Downstream/60905
Nearest cancer related gene
SETD2(TSG, No orient, 0)
Upstream sequence
ataaccaaaacctaggttgaatgattccacagtaggttctcctttttgttatacaacttggctcttGGAAGAGCCATGCATAAAATCTATTAGTGTATAG
Downstream sequence
TTCAAAGGGCAAAAAATATCCAGACTCAAAAGTGCTATTTCAACATGAGAGGAAATCAATGATATACATTTGCAGAGCGGGTTCATAGCTTTAACCTTAA
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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