Basic Information
VIS ID
TVIS30003819
Fusion event
HIV-ZKSCAN8 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
chr6
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
28113133/28145355 (Hg38)
End
28113133/28145355 (Hg38)
Orient
+
Location type
Intronic
Target gene
ZKSCAN8
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-221-3p ; hsa-mir-98-5p ; hsa-mir-877-5p ; hsa-mir-568 ; hsa-mir-4698 ; hsa-mir-224-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-8067 ; hsa-mir-6508-5p ; hsa-mir-759 ; hsa-mir-5692a ; hsa-mir-6788-5p ; hsa-mir-6728-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-8085 ; hsa-mir-5187-5p ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-4683 ; hsa-mir-539-5p ; hsa-mir-4712-3p ; hsa-mir-6871-5p ; hsa-mir-5680 ; hsa-mir-4506
Nearest miRNA
hsa-mir-3143/Upstream/997667; hsa-mir-10398/Downstream/2438977;
Nearest TSS
ENST00000381078/Upstream/3144; ENST00000531941/Downstream/79531;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/3194, chr6-CpG: 27/Downstream/62149
Upstream sequence
ggtccctgggatgggggtaaggacaatattgccatcagttttgaaccactgAGCTAGAGTAAAGAACTCTGTAGTAGAATGGAAGTATGAGAAAGCCACA
Downstream sequence
GCCCAGAAAGGCTTTATGTAAGTGAGTTTAAAGTAGATATAGCCAGCCAGGTTTACATTCATAAAGGGCCTTGCATACCATGCTAAAAAATTTGGTCCCT
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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