Basic Information
VIS ID
TVIS30002215
Fusion event
HIV-SOCS4 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
chr14
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
55501781/55035063 (Hg38)
End
55501781/55035063 (Hg38)
Orient
+
Location type
Intronic
Target gene
SOCS4
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-130b-3p ; hsa-mir-34a-5p ; hsa-mir-21-5p ; hsa-mir-19b-3p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-208a/Upstream/156870; hsa-mir-1185-1/Downstream/4611899;
Nearest TSS
ENST00000550708/Upstream/7436; ENST00000556515/Downstream/16568;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/7749, chr14-CpG: 97/Downstream/16350
Upstream sequence
cattcttctgcctcagcctcccaagtagctgggactacaggtgcacgccaccacacccggctaatttttgtgtttttagtagagaggagattttgccatg
Downstream sequence
ttggcgaggctggtctcaaactcctgacctcagatgatccacccacctcggcctcccaaagtactgggattacagacatgagccaccgtgcccggcctgc
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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