Basic Information
VIS ID
TVIS30006813
Fusion event
HIV-NSMCE1 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
p12.1
Reference genome
GRCh37/hg19
Start
27274713/27263392 (Hg38)
End
27274713/27263392 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16E
Target gene
NSMCE1
miRNAs that regulate target gene
hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-324-5p ; hsa-mir-7108-3p ; hsa-mir-4258
Nearest miRNA
hsa-mir-1225/Upstream/1238082; hsa-mir-11401/Downstream/1127590;
Nearest TSS
ENST00000527434/Upstream/5241; ENST00000499939/Downstream/4813;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/59035, chr16-CpG: 35/Downstream/5173
Upstream sequence
taaatgcccatcaatgacagactggataaagaaaatgtggtacctatacaccgtggaacactatgcagccataaagaagaatgagatgatgtcttttgca
Downstream sequence
ggaacatggatgaaactggagactattatcctctgcaagctaacacaggaatagaaaaccaaataccacatgttctcacttataagtgggagttaaatga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate