Basic Information
VIS ID
TVIS30010616
Fusion event
HIV-SYMPK 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
q13.32
Reference genome
GRCh37/hg19
Start
46360202/45856944 (Hg38)
End
46360202/45856944 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
SYMPK
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-940 ; hsa-mir-760 ; hsa-mir-744-5p ; hsa-mir-92b-3p ; hsa-mir-193b-3p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-10395/Upstream/181920; hsa-let-7e/Downstream/161988;
Nearest TSS
ENST00000633603/Upstream/1137; ENST00000594297/Downstream/5607;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/40941, chr19-CpG: 39/Downstream/6000
Upstream sequence
agtggctcacatctgtaatcccagcaccttgggaggctgaggtaggcagaacacctgaggtcaggagttcgagaccagactggccaacatggagaaacac
Downstream sequence
tgttccctactaaaaacatacaaattagacaggcatggtggcgcatacctataatcccacctacttgggaggctgaggtgggagaatcacttgaacctgg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate