Basic Information
VIS ID
TVIS30015050
Fusion event
HIV-TNFSF13B integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr13
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
108927255/108274907 (Hg38)
End
108927498/108274907 (Hg38)
Orient
+
Location type
Intronic
Target gene
TNFSF13B
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-202-3p ; hsa-mir-202-5p ; hsa-mir-129-5p ; hsa-mir-30a-3p ; hsa-mir-30d-3p ; hsa-mir-30e-3p ; hsa-mir-5681b
Nearest miRNA
hsa-mir-1267/Upstream/743659; hsa-mir-4502/Downstream/2066051;
Nearest TSS
ENST00000623511/Upstream/4680; ENST00000493765/Downstream/28399;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/55927, chr13-CpG: 137/Downstream/220543
Upstream sequence
TTAATTGTCTACATGTTTTAGAACCAAGTATTTTTATTGGAACTTCACACAAACTGTAGAAGAAGGGAGGGGAATTACCATCAGCCAACATGTCCCAATG
Downstream sequence
GCCCGTAACTGTGTTTGGAGATATTCCCAATTTAAAAATTAACTAAAACAATATGGCTTTGAAAATATTACGTAATAAAATTTATTTACAAATGGAATCA
Target sequence
ATACTCTCTTCCAGGCATCCCATGGGTAAACAGTGGTTTTACTTAATGTTTTAATTTTAGAATTTAGTACTTTGGCTTTAGTTTTGTTTTTCTTAATTACTTTGTGTTTCAAACCAAAATCTCATTAAGCTTAATGTATTTCATAATATCATTTTTGATTGTAGTATAATAAACAGAAATGTGGGGAAATCCAGGATTAAAAAATTGCCAAATAGCTCATATTAGCCAAAAATTCACTTTTAA
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate