Basic Information
VIS ID
TVIS30007584
Fusion event
HIV-ZNF544 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
chr19
Cytoband
q13.43
Reference genome
GRCh37/hg19
Start
58764986/58253620 (Hg38)
End
58764986/58253620 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZNF544
miRNAs that regulate target gene
hsa-mir-146a-3p ; hsa-mir-301a-5p ; hsa-mir-301b-5p ; hsa-mir-3921 ; hsa-mir-4502 ; hsa-mir-4653-5p ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-1825 ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-455-5p ; hsa-mir-5584-3p ; hsa-mir-5004-3p ; hsa-mir-2054 ; hsa-mir-8075 ; hsa-mir-511-3p ; hsa-mir-3191-5p ; hsa-mir-3171 ; hsa-mir-770-5p ; hsa-mir-4712-5p ; hsa-mir-5571-5p
Nearest miRNA
hsa-let-7e/Upstream/2865378; hsa-mir-10394/Downstream/81068;
Nearest TSS
ENST00000633603/Upstream/9657; ENST00000621650/Downstream/25188;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/24432, chr19-CpG: 94/Downstream/24928
Upstream sequence
cttcatctcctgggttcaagtgattctcctgcatcagcctcctgagtagctgggacaacaggcatgcaccaccacatccagttaattttttttattttta
Downstream sequence
gtagagatgggttttcactgtgttagccaagctggtctcgaactcctgacctcgggtgatctgcccaccttggcctcccaaagtgctgggattgcaggca
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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