Basic Information
VIS ID
TVIS30013752
Fusion event
HIV-PPP6C 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
chr9
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
127922601/125160322 (Hg38)
End
127922601/125160322 (Hg38)
Orient
-
Location type
Intronic
Target gene
PPP6C
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-222-3p ; hsa-mir-92a-3p ; hsa-mir-4477a ; hsa-mir-548as-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-7158-5p ; hsa-mir-4480 ; hsa-mir-4502 ; hsa-mir-16-1-3p ; hsa-mir-4275 ; hsa-mir-144-3p ; hsa-mir-6732-3p ; hsa-mir-218-5p ; hsa-mir-6499-3p ; hsa-mir-4302 ; hsa-mir-641 ; hsa-mir-4519 ; hsa-mir-3617-5p ; hsa-mir-221-3p ; hsa-mir-496 ; hsa-mir-208b-3p ; hsa-mir-208a-3p ; hsa-mir-499a-5p ; hsa-mir-107 ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-let-7a-1/Upstream/466524; hsa-mir-12126/Downstream/2530365;
Nearest TSS
ENST00000422679/Upstream/16816; ENST00000416065/Downstream/29461;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/16654, chr9-CpG: 85/Downstream/28790
Upstream sequence
ATTGAAGATTTTTGCCTTAAACCAGGGGTTCTGGGTTATTTTTTATGCCCAACCATTACTGACAGCTACAACCCAACCCTATCTACAGTGGCTTACTAAG
Downstream sequence
GCAATTAATTAGAGGACATAGTTAAATGTAGAAAAGTATACAATCACCTtgatatggtttggctgtgtccccacccaaatctcatcttgaattcccacat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate