Basic Information
VIS ID
TVIS30005164
Fusion event
HIV-CSMD2 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
chr1
Cytoband
p35.1
Reference genome
GRCh37/hg19
Start
34242380/33776779 (Hg38)
End
34242380/33776779 (Hg38)
Orient
-
Location type
Intronic
Target gene
CSMD2
miRNAs that regulate target gene
hsa-mir-3941 ; hsa-mir-125b-2-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-495-5p ; hsa-mir-4650-5p ; hsa-mir-1972
Nearest miRNA
hsa-mir-12136/Upstream/444287; hsa-mir-101-1/Downstream/892820;
Nearest TSS
ENST00000473358/Upstream/67275; ENST00000458277/Downstream/37440;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/143260, chr1-CpG: 160/Downstream/386403
Upstream sequence
ctgagtgaggggggattgggcttggagaaatggaagacaacggggcaaaggagctgaacatgttgttaaaaagaatggccaaagtgttatccaagaggct
Downstream sequence
tagaatgaagaaggaaagaggtgaaaggagcagggggcgatgggggaaatagaggatgggaagggatgatgggcaggagTAAAGGGAGTGTCATGTGAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate