Basic Information
VIS ID
TVIS30006324
Fusion event
HIV-COG6 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
q14.11
Reference genome
GRCh37/hg19
Start
40263131/39688994 (Hg38)
End
40263131/39688994 (Hg38)
Orient
-
Location type
Intronic
Target gene
COG6
miRNAs that regulate target gene
hsa-mir-875-5p ; hsa-mir-874-3p ; hsa-mir-3157-3p ; hsa-mir-4777-3p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-3613-5p ; hsa-mir-18b-3p ; hsa-mir-4328 ; hsa-mir-4781-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-6873-3p ; hsa-mir-4768-5p ; hsa-mir-627-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-5003-3p ; hsa-mir-34b-3p ; hsa-mir-551b-5p
Nearest miRNA
hsa-mir-2276/Upstream/24859; hsa-mir-1267/Downstream/1038822;
Nearest TSS
ENST00000623511/Upstream/1451; ENST00000455241/Downstream/492815;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/32950, chr13-CpG: 30/Downstream/483238
Upstream sequence
TTGACTATTTTACATAGCTCAGCCACACATCTCTGTGGTTCACATTATCTGCAAGATGAGTCAGTGTTACAAATTGGTGGTAATACTAACTTTATAGCTT
Downstream sequence
CTAACTCTTCAGTATCAAGATTAGACTCAGCATATATGTTAGATTGGCACAAAGTGTGCATCGTTAGGTTCTCTTTCTGTTATTATTCTCCTTACCCAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate