Basic Information
VIS ID
TVIS30005445
Fusion event
HIV-FAM20B 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
chr1
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
178999531/179030396 (Hg38)
End
178999531/179030396 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM20B
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-21-5p ; hsa-mir-26a-5p ; hsa-mir-6873-3p ; hsa-mir-642a-5p ; hsa-mir-6895-3p ; hsa-mir-193a-5p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-3156-5p ; hsa-mir-4772-3p ; hsa-mir-6787-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-216a-5p ; hsa-mir-6875-3p ; hsa-mir-6512-5p ; hsa-mir-578 ; hsa-mir-449c-3p ; hsa-let-7d-3p ; hsa-mir-323a-3p ; hsa-mir-5580-3p ; hsa-mir-29b-2-5p ; hsa-mir-629-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-584-5p ; hsa-mir-92a-1-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-758-5p ; hsa-mir-218-2-3p
Nearest miRNA
hsa-mir-101-1/Upstream/352562; hsa-mir-1182/Downstream/773528;
Nearest TSS
ENST00000473358/Upstream/4500; ENST00000367625/Downstream/50981;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/3614, chr1-CpG: 83/Downstream/51544
Upstream sequence
TTCTGTAAAAAAAAAAACAAAATAATATGGAAGTACTTACTCGTGTGGGTTCTTGTTTCAGAAAGCACTGCCAATAATACTTGAAGATCTGATTTCAGCC
Downstream sequence
CTGTCTTGTATCATCCTTGGGCAGTGTGTTAGACAACCTCCTTTCTTCCTTTTAGCATTTCCAAATTGTCTTTACTCTTAATCCCAGCCGATACTAGGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate