Basic Information
VIS ID
TVIS30016481
Fusion event
HIV-PDCD2 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
chr6
Cytoband
q27
Reference genome
GRCh37/hg19
Start
170891487/170582399 (Hg38)
End
170891267/170582399 (Hg38)
Orient
-
Location type
Intronic
Target gene
PDCD2
miRNAs that regulate target gene
hsa-mir-129-1-3p
Nearest miRNA
hsa-mir-10398/Upstream/251555;
Nearest TSS
ENST00000381078/Upstream/2678; ENST00000448824/Downstream/1827;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/27664, chr6-CpG: 70/Downstream/1772
Upstream sequence
actcaaaacatgttttggaatgtatgaCTGGTATGAACTACAAACCAGTAAGCTGATGTTTTCATTTTGAGTCTATAAATCTAATTTTGTGGTGGTTTTG
Downstream sequence
TGTATGGCTCAAGGCTCAAATTGTAAAatttaatattatgtgaccaaagaaagttatacccagaacctcaatttcctcaccttcaaaatggggcagtttc
Target sequence
ggactttaacttccccagatattatttgggctcctccataagactgtgagcatctgaccactggagtgttgcttcccattatatccctgttatcaagcacaaggtcaggcacagagtaagactcaaaacatgttttggaatgtatgaCTGGTATGAACTACAAACCAGTAAGCTGATGTTTTCATTTTGAGTCTATAAATCTAATTTTGTGGTGGTTTTG
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.
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