Basic Information
VIS ID
TVIS30009629
Fusion event
HIV-NSMCE2 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
chr8
Cytoband
q24.13
Reference genome
GRCh37/hg19
Start
126128123/125115881 (Hg38)
End
126128123/125115881 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA8C ; FRA8E
Target gene
NSMCE2
miRNAs that regulate target gene
hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4740-3p ; hsa-mir-764 ; hsa-mir-6504-3p ; hsa-mir-3159 ; hsa-mir-552-3p ; hsa-mir-1303 ; hsa-mir-3188 ; hsa-mir-6866-5p ; hsa-mir-877-5p
Nearest miRNA
hsa-mir-12123/Upstream/293823; hsa-mir-10400/Downstream/2680081;
Nearest TSS
ENST00000518652/Upstream/13523; ENST00000521460/Downstream/8263;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/24001, chr8-CpG: 216/Downstream/313348
Upstream sequence
TTAGTCTTGACCTGGGAGATGCTTGCTGATGCAACTGTTTACAAAAATGTTGAAGTAGGTGAAGAAAAGGGAGCTGTCATAGCCTACAATAGGCAAGTAT
Downstream sequence
GAAATAAAGGTGTATGTTGTGGAAATCACTGAAAgaggtcaatatcctcatcctcactccacagaaggggaaattaggctcattgaattgaaacaactta
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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