Proximate region of VIS (GRCh38)VISEnhancerEnhancer/PromoterPromoterGene134371675134373253134428791134372369134375632134388742134389400134400233
Basic Information
VIS ID
TVIS30009997
Fusion event
HIV-PHF6 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
chrX
Cytoband
q26.2
Reference genome
GRCh37/hg19
Start
133534263/134400233 (Hg38)
End
133534263/134400233 (Hg38)
Orient
+
Location type
Intronic
Target gene
PHF6
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-let-7a-5p ; hsa-mir-410-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-548p ; hsa-mir-4311 ; hsa-mir-4477a ; hsa-mir-510-3p ; hsa-mir-570-3p ; hsa-mir-5197-5p
Nearest miRNA
hsa-let-7f-2/Upstream/229955; hsa-mir-105-1/Downstream/139952;
Nearest TSS
ENST00000429181/Upstream/26860; ENST00000462974/Downstream/59920;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/26597, chrX-CpG: 80/Downstream/59650
Nearest cancer related gene
PHF6(TSG, No orient, 0)
Upstream sequence
agtggctcaatcacggcttactgcagcctcaacctcccaggctcaagtgatcctcccacttcagcctcctgagtagctagaaccacaggcatgtgccacc
Downstream sequence
acacccggctaattttttttacattttttatttgtagaaacggggtcttgccacattggccaggctggtctcgaactcctgggttcaagtagtcctccac
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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