Basic Information
VIS ID
TVIS30011082
Fusion event
HIV-KDM4C 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
chr9
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
6984425/6984425 (Hg38)
End
6984425/6984425 (Hg38)
Orient
+
Location type
Intronic
Target gene
KDM4C
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-409-3p ; hsa-mir-432-5p
Nearest miRNA
hsa-mir-101-2/Upstream/976521; hsa-let-7a-1/Downstream/11588881;
Nearest TSS
ENST00000422679/Upstream/144; ENST00000495890/Downstream/29363;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/225553, chr9-CpG: 43/Downstream/814930
Nearest cancer related gene
KDM4C(OG, No orient, 0)
Upstream sequence
GAAGCATCTTCAGAAGAAGAGTCATCTGCTAGCAGGATGCAGGTGGAGCAGAATTTATCAGATCATATCAAACTCTCAGGTGAGAAGATGGTTGATTAGG
Downstream sequence
TTTCACATATAAGTAGTAGGTGGTTGATGATCAGATGTCTTAAATGGATGTTCACTATGACAAGTATCTGACTAGTCCACATAGCTTAATCAGTAATCTA
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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