Basic Information
VIS ID
TVIS30002611
Fusion event
HIV-RAP1GAP2 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
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2922822/3019528 (Hg38)
End
2922822/3019528 (Hg38)
Orient
+
Location type
Intronic
Target gene
RAP1GAP2
miRNAs that regulate target gene
hsa-mir-652-3p ; hsa-mir-149-5p ; hsa-mir-222-3p ; hsa-mir-181b-5p ; hsa-mir-6085 ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-5010-5p ; hsa-mir-615-5p ; hsa-mir-4525 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-765 ; hsa-mir-6738-5p ; hsa-mir-4731-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4537 ; hsa-mir-637 ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-6793-3p
Nearest miRNA
hsa-mir-1253/Upstream/271346; hsa-mir-10226/Downstream/1950174;
Nearest TSS
ENST00000595228/Upstream/11427; ENST00000574709/Downstream/13553;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/164884, chr17-CpG: 35/Downstream/29155
Upstream sequence
cctgtgcctggggaggttgaggctctagcgagccgtaattgggccactgcactccagcctggatgtcagagtgagaccctgtctccaaaTCTAAGTAACT
Downstream sequence
AAAGCAAAGTGGCTTTGGATTTGTATAGACTAGGATTTTCCTTTCTTTTCCTTCAAAATAGCAGAACATACTCACCATGGAACTAATTATGAGTATTATA
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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