Basic Information
VIS ID
TVIS30000661
Fusion event
HIV-KDM4A 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
44148657/43682986 (Hg38)
End
44148657/43682986 (Hg38)
Orient
+
Location type
Intronic
Target gene
KDM4A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-505-3p ; hsa-mir-17-5p ; hsa-let-7b-5p ; hsa-mir-34a-5p ; hsa-mir-137
Nearest miRNA
hsa-mir-12136/Upstream/234375; hsa-mir-101-1/Downstream/155636;
Nearest TSS
ENST00000473358/Upstream/16701; ENST00000481296/Downstream/7604;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/32348, chr1-CpG: 100/Downstream/24011
Upstream sequence
ATGGATTTTGCTAACCCTGCATCTCCTGATGTCAGTATAACCAAGTTTTAAATACGTTGATTAGAAAGAAACCCTTCTGTAGTGTTTCTGAGTCAATCCT
Downstream sequence
GTACATTTAAATCTAATTACATTTGCTCTGACATTATGTAAATGCAGTCTTAAATCAACCTTTCCCTTTGCAAGCCAGGCCAGAGTTTCAGATGCACTTT
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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