Basic Information
VIS ID
TVIS30002505
Fusion event
HIV-FTO 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
chr16
Cytoband
q12.2
Reference genome
GRCh37/hg19
Start
54067515/54033603 (Hg38)
End
54067515/54033603 (Hg38)
Orient
+
Location type
Intronic
Target gene
FTO
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7977 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-4738-5p ; hsa-mir-6134 ; hsa-mir-6807-5p ; hsa-mir-4266 ; hsa-mir-4641 ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-8060 ; hsa-mir-4768-3p ; hsa-mir-4779 ; hsa-mir-4695-5p
Nearest miRNA
hsa-mir-1225/Upstream/3291226; hsa-mir-11401/Downstream/2211917;
Nearest TSS
ENST00000527434/Upstream/33634; ENST00000472835/Downstream/20980;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/329280, chr16-CpG: 21/Downstream/88438
Upstream sequence
GGTATAAATTTGTCTTTGTAAAGGTCAGACTTGTccagacacagtggttcatgcctgtaatctcagcactttgggaggctgacacaggaggacccttgag
Downstream sequence
gccagaagttcaagaccagcctgggcaatataacgagaccctgcctctacaaaaaagagacaacttaacagggtgtggtggttcatgcctgtaataccag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate