Basic Information
VIS ID
TVIS30006861
Fusion event
HIV-C16orf87 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
chr16
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
46854754/46820842 (Hg38)
End
46854754/46820842 (Hg38)
Orient
+
Location type
Intronic
Target gene
C16orf87
miRNAs that regulate target gene
hsa-mir-6754-5p ; hsa-mir-7855-5p ; hsa-mir-6834-5p ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-138-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6875-5p ; hsa-mir-3126-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4299 ; hsa-mir-9500 ; hsa-mir-100-3p ; hsa-mir-590-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-5692a ; hsa-mir-2278 ; hsa-mir-4269 ; hsa-mir-526b-5p ; hsa-mir-593-5p ; hsa-mir-6715b-5p ; hsa-mir-767-5p
Nearest miRNA
hsa-mir-1225/Upstream/12657169; hsa-mir-11401/Downstream/3471774;
Nearest TSS
ENST00000527434/Upstream/30435; ENST00000562132/Downstream/9917;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/30491, chr16-CpG: 118/Downstream/9699
Upstream sequence
tgtgtatttaaaccttttaacaactactggtaagactggtctccaaaatggctgtaccaactaatgctcccaccaacagtatgagactatccattttgcc
Downstream sequence
atactcatgaaagtacttagaaattctttacatttatgtgaactgtgggcaaaaagaatggcattttgtttcaaccgcatttccctgataattagtgaag
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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