Basic Information
VIS ID
TVIS30012387
Fusion event
HIV-KCTD2 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
chr17
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
73052690/75056595 (Hg38)
End
73052690/75056595 (Hg38)
Orient
-
Location type
Intronic
Target gene
KCTD2
miRNAs that regulate target gene
hsa-mir-423-5p ; hsa-mir-339-5p ; hsa-mir-149-5p ; hsa-mir-181a-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-6825-5p ; hsa-mir-92a-2-5p ; hsa-mir-3175 ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4419a ; hsa-mir-4510 ; hsa-mir-1205 ; hsa-mir-3942-3p ; hsa-mir-377-3p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-499b-5p ; hsa-mir-4494 ; hsa-mir-3613-3p ; hsa-mir-205-3p ; hsa-mir-224-5p
Nearest miRNA
hsa-mir-10226/Upstream/307896; hsa-mir-1250/Downstream/349474;
Nearest TSS
ENST00000595228/Upstream/7752; ENST00000579230/Downstream/2528;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/8946, chr17-CpG: 70/Downstream/20623
Upstream sequence
AAGATTTCTGTTTGATGACCGCAATTAAATTAATTAGTCTTCTAGATTCTGAAGGCTTGTGGATTTATACCCCTTTGGAAGCTTTTTTGTTCTAGGAATG
Downstream sequence
TCAAGACCTTTTTGATGTTAACTATCTTTCCATCTGTCCTTTTTATGTAGTGAAACTGAAAAATGGATTTGATGTTATTCAAAGACACCCTCTTTTATAC
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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