Basic Information
VIS ID
TVIS30002586
Fusion event
HIV-DEF8 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
q24.3
Reference genome
GRCh37/hg19
Start
90034182/89967774 (Hg38)
End
90034182/89967774 (Hg38)
Orient
-
Location type
UTR3
Target gene
DEF8
miRNAs that regulate target gene
hsa-mir-1303 ; hsa-mir-324-5p ; hsa-mir-331-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p
Nearest miRNA
hsa-mir-11401/Upstream/1251437;
Nearest TSS
ENST00000527434/Upstream/3934; ENST00000564853/Downstream/4148;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/3442, chr16-CpG: 112/Downstream/4348
Upstream sequence
CGTCTCATGAATGCATCACATTTCTGTCATATGGATATTAGCCATTCCGAAATCTGTGTAATCAACTTCACATTATTCAAGTTACAAATCACTGTGTCCA
Downstream sequence
TAGAAAAACTGTGCTGGTATTTGCTGGACAAAGGGTTGGGCCCCTTTTATTTTTACCTGCCACCCAGCATCTCCCCCACCTGCCCCTTCTGGGTGACACA
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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