Basic Information
VIS ID
TVIS30016584
Fusion event
HIV-PCM1 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
p22
Reference genome
GRCh37/hg19
Start
17808696/17951187 (Hg38)
End
17808317/17951187 (Hg38)
Orient
-
Location type
Intronic
Target gene
PCM1
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-129-5p ; hsa-mir-8055
Nearest miRNA
hsa-mir-124-1/Upstream/269530; hsa-mir-10400/Downstream/4293779;
Nearest TSS
ENST00000518652/Upstream/14011; ENST00000517836/Downstream/6471;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/27424, chr8-CpG: 103/Downstream/132603
Upstream sequence
CCTTCGACTAGATACATGGGATTCTATACAGCCTTGGAATTCTCATTTGAAGGAATATTTTACTAACAATTTTAAGAAAGTTCTTAATTTGAGAGTTAGC
Downstream sequence
AAGTGTTATAATTTGATGCACTTTGTAAGTGATATAAATGCAGATTTTCAATATGGGGGCCTTGGGTAAGAAAGGATGAATTAATGCCTCTCCATTGGAA
Target sequence
tcacctggcatgattgttgagcagtgtaggtttctgattggtggggtcccccccaccttcaaaattacgattcatggatttggggtgggcttctccacgtctcagtccaatgctggtggcctggggactatactttaagaatcactAAATTAGAGGAGAGTTTACTTTGAAGGAAGTGATTAATGAAGTTTTTCTTTGTATGCTACTGGATGACGTATTCTTTTTTCCTCTAAAAGACTTAATGGTCACAACGAT
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