Basic Information
VIS ID
TVIS30016620
Fusion event
HIV-TRAPPC9 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
chr8
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
141435876/140425777 (Hg38)
End
141436128/140425777 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA8D
Target gene
TRAPPC9
miRNAs that regulate target gene
hsa-mir-30e-5p ; hsa-mir-196a-5p ; hsa-mir-6875-5p ; hsa-mir-3126-5p ; hsa-mir-6873-5p ; hsa-mir-583
Nearest miRNA
hsa-mir-1204/Upstream/5620832; hsa-mir-10400/Downstream/306787;
Nearest TSS
ENST00000518652/Upstream/122942; ENST00000518971/Downstream/9420;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/76255, chr8-CpG: 78/Downstream/31342
Upstream sequence
ACTGGTCAAATACCAGTACATTCAACATCCATTTCATTTGTCATCAGTGTTGGCGGGGCTTTCAGCTCTTCAGTGGCATAAAGTCTGCCCGCCTGACTGT
Downstream sequence
TCTAGACTGTTTTCATTTTGTATTATTTACCCTGTCATTGTTTCTCATTAAGTCAGAAAATAATAGAGCTCATCATGAAATAATTAAGCACTGTAATAAA
Target sequence
CCCCCAGATGCCTTCTCATCAGCAACTCAGGTCTCCTGAAACCAAAACTAAGCATTTGTTGTCCTTTCTCTACACATTCCACAAACTCCATCAGGAAACTTAGCCACGGCCTAGAGAAAGGAGTGAACGCAAATGTTAAAACCAACGCCTGCAAACCTGGGGCAACTTCATTTCAGAGCCAAGATGCACGAGGCGATGAAAGCGAATGTGTTAGTCACAAAGGCTGTGTAAGCACAGCCATCTGATTTCAAT
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