Basic Information
VIS ID
TVIS30008408
Fusion event
HIV-NECTIN3 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
chr3
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
110857216/111138369 (Hg38)
End
110857216/111138369 (Hg38)
Orient
-
Location type
Intronic
Target gene
NECTIN3
miRNAs that regulate target gene
hsa-mir-3163 ; hsa-mir-100-3p ; hsa-mir-559 ; hsa-mir-548y ; hsa-mir-548w ; hsa-mir-548o-5p ; hsa-mir-548j-5p ; hsa-mir-548i ; hsa-mir-548h-5p ; hsa-mir-548d-5p ; hsa-mir-548c-5p ; hsa-mir-548bb-5p ; hsa-mir-548b-5p ; hsa-mir-548ay-5p ; hsa-mir-548au-5p ; hsa-mir-548as-5p ; hsa-mir-548ar-5p ; hsa-mir-548aq-5p ; hsa-mir-548ap-5p ; hsa-mir-548am-5p ; hsa-mir-548ak ; hsa-mir-548ae-5p ; hsa-mir-548ad-5p ; hsa-mir-548ab ; hsa-mir-548a-5p ; hsa-mir-548n
Nearest miRNA
hsa-let-7g/Upstream/1535472; hsa-mir-12124/Downstream/974432;
Nearest TSS
ENST00000440867/Upstream/63474; ENST00000485506/Downstream/53982;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/65815, chr3-CpG: 21/Downstream/536111
Upstream sequence
GGTTTTTCTTTGATAATACACAGTTAGACTGGGTTGTTTTGTTCCCTTCTTGGTATCCCAATAAAAAAAATTCATGCATGAAACAGTCTTTGAGGGGTTT
Downstream sequence
GCACAGTAAACCAACTTTCATCTGTTTTTAAAAATGCTTTTCTGTTTATATATTTCTGGGTTTTTTTTCTGTTATAGTCCAGTCATCTGCTTTTTTGTAA
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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