Basic Information
VIS ID
TVIS30015891
Fusion event
HIV-RAPH1 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
chr2
Cytoband
q33.2
Reference genome
GRCh37/hg19
Start
204313032/203448309 (Hg38)
End
204312975/203448309 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
RAPH1
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-148b-3p ; hsa-mir-21-5p ; hsa-mir-324-5p ; hsa-mir-186-5p ; hsa-mir-185-5p ; hsa-mir-155-5p ; hsa-mir-203a-3p ; hsa-mir-770-5p ; hsa-mir-432-5p ; hsa-mir-382-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-1251-3p ; hsa-mir-7705 ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-545-3p ; hsa-mir-646 ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-3613-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-5580-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-10b/Upstream/14315198; hsa-mir-1244-1/Downstream/3334925;
Nearest TSS
ENST00000437798/Upstream/45603; ENST00000458610/Downstream/47044;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/119648, chr2-CpG: 65/Downstream/86458
Upstream sequence
CAAAAATTCCTCTAATACCATAAATTATAATCTATTCTTATTTCTCCTCATTTTTAGAGGGGCAGCAAGAAGTCAACACTTGATTCTGTTTGTTATAAAC
Downstream sequence
ATTAATGTTTTTTCACCCCAAATTCTTGATCCAAGGGCAGCTTTTTAGCACTCTTCAGGATACTGCTCCAAATGTGGTTGGTAAATGATCATTACTTAAA
Target sequence
CTCCTCATTTTTAGAGGGGCAGCAAGAAGTCAACACTTGATTCTGTTTGTTATAAAC
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