Basic Information
VIS ID
TVIS30006932
Fusion event
HIV-CDH13 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
q23.3
Reference genome
GRCh37/hg19
Start
83129685/83096080 (Hg38)
End
83129685/83096080 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDH13
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-181a-5p ; hsa-mir-4464 ; hsa-mir-4307 ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-31-3p ; hsa-mir-367-5p ; hsa-mir-1266-3p
Nearest miRNA
hsa-mir-1225/Upstream/407061; hsa-mir-11401/Downstream/412266;
Nearest TSS
ENST00000527434/Upstream/105782; ENST00000562307/Downstream/301907;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/467872, chr16-CpG: 67/Downstream/711727
Nearest cancer related gene
CDH13(TSG, No orient, 0)
Upstream sequence
AAAGGTTGAACATGTCTTTAGGAGGTAGCAACAAGACAAAGGTCCAGGAAGAGGGTGTGATGCAGTGGGGAAGCATGCAGTCACCTTGTGCCGAACTTAA
Downstream sequence
CAGGTCAAGAACTCCGTATGTGAATAATGGTGGAAATATGTGGAGTTACAGGTACAACTCTGTAAGGGCATTAGCCTGTACCAGCTATCATTGCGTACCA
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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