Basic Information
VIS ID
TVIS30016307
Fusion event
HIV-CDC42SE2 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
chr5
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
130678766/131343073 (Hg38)
End
130678736/131343073 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5C
Target gene
CDC42SE2
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-103a-3p ; hsa-mir-107 ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-545-3p ; hsa-mir-4524a-5p ; hsa-mir-4641 ; hsa-mir-4690-3p ; hsa-mir-4524b-5p ; hsa-mir-5685 ; hsa-mir-6838-5p ; hsa-mir-5680 ; hsa-mir-885-3p ; hsa-mir-203a-3p ; hsa-mir-646 ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-10397/Upstream/1945926; hsa-mir-103a-1/Downstream/874776;
Nearest TSS
ENST00000502646/Upstream/78973; ENST00000506929/Downstream/42533;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/78360, chr5-CpG: 85/Downstream/291649
Upstream sequence
atgtgTATATTCACTGATTTTTAAAAAGTCTATGTGCTCATATTATTTTGAATAACAGTAAAGATTTGCTTAAATGTAAGAAGGCATTTTACAGGATGGT
Downstream sequence
TTTATTCAGAAAACTGTACGTAGTAGGACAGAATTTTAGTATGCATTGCTTGATAAACAGTGTATAATGGTCCCACCCACCgagaagagtaacatagaaa
Target sequence
TAAATGTAAGAAGGCATTTTACAGGATGGT
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