Basic Information
VIS ID
TVIS30006374
Fusion event
HIV-KLF5 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
chr13
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
73638829/73064691 (Hg38)
End
73638829/73064691 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13B
Target gene
KLF5
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-141-3p ; hsa-mir-9-5p ; hsa-mir-128-3p ; hsa-mir-21-5p ; hsa-mir-143-3p ; hsa-mir-4480 ; hsa-mir-489-3p ; hsa-mir-4668-3p ; hsa-mir-153-3p
Nearest miRNA
hsa-mir-1297/Upstream/6846367; hsa-mir-1267/Downstream/4633321;
Nearest TSS
ENST00000623511/Upstream/4112; ENST00000464404/Downstream/10324;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/4459, chr13-CpG: 31/Downstream/1069281
Nearest cancer related gene
KLF5(TSG, No orient, 0)
Upstream sequence
gtagtgcagtggtgtgatctcagttcactgcaacctctgcctcccaggttcaagcgattctcctgcttcagcctcccgagtagctgggattacaggcccc
Downstream sequence
caccaccatgcccagttgatttttgtatctctagtagagatggggtttcaccatgttggccaggctggtctccaactcctgacatctttatccacctgcc
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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