Basic Information
VIS ID
TVIS30007148
Fusion event
HIV-FAM117A 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
chr17
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
47839726/49762364 (Hg38)
End
47839726/49762364 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM117A
miRNAs that regulate target gene
hsa-mir-484
Nearest miRNA
hsa-mir-10226/Upstream/251464; hsa-mir-1250/Downstream/1006286;
Nearest TSS
ENST00000595228/Upstream/15101; ENST00000506533/Downstream/1767;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/83954, chr17-CpG: 47/Downstream/1306
Upstream sequence
GTTCTTGTTCTACCAACTTCCCGGGGTTTCAAGGAAGCCCAAACAAAACCAACAGGTTTGTAGTCTTGTGGTTTGCTTTATAACTCATGATAGGCATGAG
Downstream sequence
TTAGTCTGGGCATTGCCTTACTCTACACCACCGGATTCTAAACATACTTTTACTACTTGGTCACCATCTTGCTACCAGATTTGACCAAGTTTCTGCATCC
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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