Basic Information
VIS ID
TVIS30003046
Fusion event
HIV-ITPKC 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
q13.2
Reference genome
GRCh37/hg19
Start
41226325/40720420 (Hg38)
End
41226325/40720420 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ITPKC
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-670-5p ; hsa-mir-668-5p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-6719-3p ; hsa-mir-4526 ; hsa-mir-6730-3p ; hsa-mir-3660 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-6752-3p ; hsa-mir-4738-5p ; hsa-mir-500b-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-10395/Upstream/350513; hsa-let-7e/Downstream/1149207;
Nearest TSS
ENST00000633603/Upstream/2213; ENST00000597003/Downstream/8901;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/3196, chr19-CpG: 75/Downstream/29992
Upstream sequence
tgcaccactgcactccagcctgggtgacagagcaagactcggtctcaaaaaaaaaaaaacaaaaacaacagatggggaagctgaggcatagagaggtgag
Downstream sequence
agattctttgcttagggttggccacgtcaagtcagagccaggattctaactcagttctggctgagtttcaaacccatCGTTTAAACCCTCCAGTGTGTAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate