Basic Information
VIS ID
TVIS30000409
Fusion event
HIV-RPAP2 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr1
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
92772407/92306850 (Hg38)
End
92772407/92306850 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
RPAP2
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-183-5p ; hsa-mir-629-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-4789-3p ; hsa-mir-6513-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-7977 ; hsa-mir-450a-1-3p ; hsa-mir-6089 ; hsa-mir-1827 ; hsa-mir-4738-5p ; hsa-mir-377-3p ; hsa-mir-342-3p ; hsa-mir-1285-5p ; hsa-mir-8485 ; hsa-mir-382-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-4738-3p ; hsa-mir-5586-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-942-5p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-5096 ; hsa-mir-6853-3p ; hsa-mir-1206 ; hsa-mir-3655 ; hsa-mir-4639-3p ; hsa-mir-7106-3p ; hsa-mir-3162-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p
Nearest miRNA
hsa-mir-101-1/Upstream/5949163; hsa-mir-11399/Downstream/1539982;
Nearest TSS
ENST00000473358/Upstream/7765; ENST00000477322/Downstream/26392;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/7481, chr1-CpG: 494/Downstream/173459
Upstream sequence
attacttgagcccaggagtttgaggctacagtgagTGAGACCCTGTCCCTAAAaaaaataaaatttaataagtgaatgaagtaagataagaatgtataac
Downstream sequence
aatattattccattcaaaaaaatgtttaaaaataggcaaaactgaatattttttaatagggatatgtacacaggtgctaaaactgaaaggaaatgaggga
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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