Basic Information
VIS ID
TVIS30015921
Fusion event
HIV-RALGAPB 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
chr20
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
37165442/38536799 (Hg38)
End
37165551/38536799 (Hg38)
Orient
+
Location type
Intronic
Target gene
RALGAPB
miRNAs that regulate target gene
hsa-let-7d-5p ; hsa-mir-421 ; hsa-mir-615-3p ; hsa-mir-342-3p ; hsa-mir-328-3p ; hsa-let-7b-5p ; hsa-mir-381-5p ; hsa-mir-503-5p ; hsa-mir-562 ; hsa-mir-548n ; hsa-mir-4524a-5p ; hsa-mir-4524b-5p ; hsa-mir-3158-5p ; hsa-mir-298 ; hsa-mir-6752-3p ; hsa-mir-646 ; 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-6867-5p ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-574-5p ; hsa-mir-496 ; hsa-mir-4540 ; hsa-mir-6723-5p ; hsa-mir-4711-3p ; hsa-mir-29a-5p ; hsa-mir-3920 ; hsa-mir-607 ; hsa-mir-6838-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/20167; hsa-mir-1-1/Downstream/2632224;
Nearest TSS
ENST00000382410/Upstream/11284; ENST00000490114/Downstream/31668;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/63700, chr20-CpG: 22/Downstream/65081
Upstream sequence
ATTTTGTGAACAAAGAGCCGATAACCAGGTGCTACTGTCTGGGATGATATGGTTCAAATCCTTATTTTTCAGTTATGGGAATAGTTGTCAGAGGCTGTGA
Downstream sequence
AAGCAGTTACTGGTACAGAAAATAAAAAACAGCCATTTGTGAGACATACAGGACCACACTGTCTTTGAGAGCAAGGTACTGTTTCCTGTGACCTTTAGTA
Target sequence
CTTACCTAAGCTGTAAGAAACAAAATAAGCAATAAAACCTAAGGTGTTCTTACCACCACTTAGAGCTTACCTCAAAGATCCTCCAGGATGGACATCATAACTTTGCGAG
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