Basic Information
VIS ID
TVIS30007115
Fusion event
HIV-DCAKD 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
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
43125628/45048260 (Hg38)
End
43125628/45048260 (Hg38)
Orient
-
Location type
Intronic
Target gene
DCAKD
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-218-5p ; hsa-mir-133b ; hsa-mir-133a-3p ; hsa-mir-4261 ; hsa-mir-3688-3p ; hsa-mir-4802-3p ; hsa-mir-574-5p ; hsa-mir-6867-5p ; hsa-mir-1343-5p ; hsa-mir-147a ; hsa-mir-149-3p ; hsa-mir-185-3p ; hsa-mir-3150a-3p ; hsa-mir-3151-5p ; hsa-mir-3175 ; hsa-mir-3911 ; hsa-mir-4447 ; hsa-mir-4472 ; hsa-mir-4656 ; hsa-mir-4728-5p ; hsa-mir-491-5p ; hsa-mir-644a ; hsa-mir-6742-5p ; hsa-mir-6763-5p ; hsa-mir-6785-5p ; hsa-mir-6796-5p ; hsa-mir-6805-5p ; hsa-mir-6825-5p ; hsa-mir-6846-5p ; hsa-mir-6848-5p ; hsa-mir-6883-5p ; hsa-mir-939-5p
Nearest miRNA
hsa-mir-1180/Upstream/113579; hsa-mir-10226/Downstream/66107;
Nearest TSS
ENST00000595228/Upstream/13119; ENST00000588975/Downstream/3257;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/26132, chr17-CpG: 118/Downstream/3161
Upstream sequence
ggaggatcacttgaggccaggagttcaagaccagcctgggcaacatagtgagactctgtctctacaaaaaaatggaaaaaAAAAAAAATTAGctggaatc
Downstream sequence
ccagcactctgggaggcagatcacttgaggccaggagtttgagaccagcctgcctggccaatatggcaaaagcccatctctactaataatacaaaaatta
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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