Basic Information
VIS ID
TVIS30004181
Fusion event
HIV-FAM120A 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
q22.31
Reference genome
GRCh37/hg19
Start
96292148/93529866 (Hg38)
End
96292148/93529866 (Hg38)
Orient
-
Location type
UTR3
Target gene
FAM120A
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-18a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/1001808; hsa-let-7a-1/Downstream/64975;
Nearest TSS
ENST00000422679/Upstream/396; ENST00000427765/Downstream/2289;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/13561, chr9-CpG: 46/Downstream/36618
Upstream sequence
AATAACTCGTGAAAAGTCTCACTTTTTTCCTTCAACTTAGTATAGAATATTTTATACTTCTAATGAAATAATGCATCACATTATTTTATGACTTGTAATT
Downstream sequence
TTATTCTTTTTACTTCAATTTCAGAATTTTCTTAAACCATATTTGTGCTGTAATGTCAGGTTTAATTCTGATGTCAGATACAATATCTGGTTCCTTTATC
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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