Basic Information
VIS ID
TVIS30005472
Fusion event
HIV-KDM5B 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
chr1
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
202768717/202799589 (Hg38)
End
202768717/202799589 (Hg38)
Orient
-
Location type
Intronic
Target gene
KDM5B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-29c-3p ; hsa-mir-296-3p ; hsa-let-7i-5p ; hsa-mir-495-3p ; hsa-mir-5688 ; hsa-mir-1261 ; hsa-mir-376c-5p ; hsa-mir-376b-5p ; hsa-mir-6124 ; hsa-mir-3185 ; hsa-mir-6849-5p ; hsa-mir-3681-5p ; hsa-mir-6753-5p ; hsa-mir-1911-3p ; hsa-mir-651-3p ; hsa-mir-4796-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-629-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-424-5p ; hsa-mir-194-5p ; hsa-mir-137 ; hsa-mir-29a-3p
Nearest miRNA
hsa-mir-101-1/Upstream/796353; hsa-mir-1182/Downstream/2648713;
Nearest TSS
ENST00000473358/Upstream/40640; ENST00000417262/Downstream/7162;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/88948, chr1-CpG: 160/Downstream/7286
Nearest cancer related gene
KDM5B(OG, No orient, 0)
Upstream sequence
ctaaaaatacaaaattagccgggtgtggtggcaggtgcctgtaatcccagctactaggaaggctgaggcaggagaattacttgaacctgggaggcggaag
Downstream sequence
ttgcggtgagccgagatcacgccactgcatgcactccagcctgggtgacaagcgtgaaactccatctcaaaaaaaaaaaaagtaatttttaaaaaagaaa
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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