Basic Information
VIS ID
TVIS30010919
Fusion event
HIV-FAM193B 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
chr5
Cytoband
q35.3
Reference genome
GRCh37/hg19
Start
176972132/177545131 (Hg38)
End
176972132/177545131 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
FAM193B
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-1291 ; hsa-mir-181c-3p ; hsa-mir-328-3p ; hsa-mir-4530 ; hsa-mir-4640-5p ; hsa-mir-4690-3p ; hsa-mir-4726-5p ; hsa-mir-5685 ; hsa-mir-624-5p ; hsa-mir-6775-3p ; hsa-mir-6779-3p ; hsa-mir-6851-3p
Nearest miRNA
hsa-mir-10397/Upstream/915631; hsa-mir-1229/Downstream/2253147;
Nearest TSS
ENST00000502646/Upstream/5780; ENST00000606358/Downstream/8135;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/13615, chr5-CpG: 105/Downstream/8657
Upstream sequence
aaagaagaccattcttctaattttttttttaagatgaaatctcgctctgtcatccaggctggagtgcagtggcatgatctcagctcactgcaacctccac
Downstream sequence
ctcccatgttcaagcggttctcctgcctcagcctcccaagtggctaggattacaggcgcctgccaatacgcctgactaatttttatatttttagtagaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate