Basic Information
VIS ID
TVIS30004459
Fusion event
HIV-NEMP1 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
chr12
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
57457616/57063833 (Hg38)
End
57457616/57063833 (Hg38)
Orient
+
Location type
Intronic
Target gene
NEMP1
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-192-5p ; hsa-mir-24-3p ; hsa-let-7d-5p ; hsa-mir-93-3p ; hsa-mir-155-5p ; hsa-mir-32-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/2726519; hsa-let-7i/Downstream/130671;
Nearest TSS
ENST00000382841/Upstream/12635; ENST00000555857/Downstream/14930;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/57145, chr12-CpG: 29/Downstream/14658
Upstream sequence
TGCGGAGTCTTTTACTTAAGGTCCCCAAGTATATTTAAAATATGATTCCATTAATAAAGTCAACTTACAGCTTTTCAGAAAGATGTTTATTGTGTAAAGA
Downstream sequence
AAGGTATATTTATAAATACCAATAAATGAACATCTTCGCCTTAACAGCACCATTCTAATTTAAGAGAAGGTGATAATTGTAGAGGGATTAGAAATAAGTG
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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