Basic Information
VIS ID
TVIS30006398
Fusion event
HIV-RAP2A integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr13
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
98093555/97441301 (Hg38)
End
98093555/97441301 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13D
Target gene
RAP2A
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-1225-3p ; hsa-mir-376a-5p ; hsa-mir-510-3p ; hsa-mir-6732-3p ; hsa-mir-10a-5p ; hsa-mir-3620-3p ; hsa-mir-6802-3p ; hsa-mir-6865-3p ; hsa-mir-4762-3p ; hsa-mir-526b-5p ; hsa-mir-633 ; hsa-mir-4635 ; hsa-mir-335-3p ; hsa-mir-5096 ; hsa-mir-100-3p ; hsa-mir-8084 ; hsa-mir-124-3p ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-1297/Upstream/1014009; hsa-mir-1267/Downstream/767223;
Nearest TSS
ENST00000623511/Upstream/6830; ENST00000604129/Downstream/236662;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/6436, chr13-CpG: 133/Downstream/534504
Upstream sequence
AAGAATCAGCAGCCTGTGACCCACAATTTTGTCTAGTTAAGATTTGATAATTGTATCAATAAAATCTACAATAAGGAATAATTATACTAATACTTATTTT
Downstream sequence
TTAATGGAGGGCaaaaataatttaaattattaaaCATTAAGGAAGAGGTAGAGGAACTAAGAAAAATCACTGGATTTCACAGCCAACAGGAAGAGCCAAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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