Basic Information
VIS ID
TVIS30011332
Fusion event
HIV-KHDC4 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
q22
Reference genome
GRCh37/hg19
Start
155900692/155930901 (Hg38)
End
155900692/155930901 (Hg38)
Orient
-
Location type
Intronic
Target gene
KHDC4
miRNAs that regulate target gene
hsa-mir-18a-5p ; hsa-mir-324-5p ; hsa-mir-1178-3p ; hsa-mir-4276 ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-140-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-148a-3p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-4640-3p ; hsa-mir-6856-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4652-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-4515 ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-218-2-3p ; hsa-mir-3936
Nearest miRNA
hsa-mir-101-1/Upstream/584456; hsa-mir-1182/Downstream/20372;
Nearest TSS
ENST00000473358/Upstream/5138; ENST00000368318/Downstream/3472;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/70203, chr1-CpG: 27/Downstream/3380
Upstream sequence
ACATggagtttgtgatcagcctggtcaacatggtgaaaccccgtctctagtaaacatacaaaattagccaggtgtggtggttcgtgcctgtaatcccagc
Downstream sequence
tactccggaggctcaggcagaattgcttgaagccgggaggcagaggttgcaatgagccgagatcacgccatcgcactccagcctgggcaacaagagcaaa
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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