Basic Information
VIS ID
TVIS30003955
Fusion event
HIV-CHST12 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
chr7
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
2448181/2408546 (Hg38)
End
2448181/2408546 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
CHST12
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-4728-5p ; hsa-mir-1228-5p ; hsa-mir-654-5p ; hsa-mir-541-3p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-3175 ; hsa-mir-6731-5p ; hsa-mir-8085 ; hsa-mir-25-5p ; hsa-mir-3656 ; hsa-mir-4767 ; hsa-mir-658 ; hsa-mir-5189-3p ; hsa-mir-1976 ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-4722-3p ; hsa-mir-6777-3p ; hsa-mir-483-3p ; hsa-mir-6715a-3p ; hsa-mir-497-3p ; hsa-mir-411-5p ; hsa-mir-6832-5p
Nearest miRNA
hsa-mir-339/Upstream/150969; hsa-mir-10399/Downstream/118528;
Nearest TSS
ENST00000635602/Upstream/4447; ENST00000313156/Downstream/29217;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/4170, chr7-CpG: 130/Downstream/24064
Upstream sequence
AAAGTAAAAACAAATCACAAATAGGTCATCACAGGTCAAGAGGCAGAAGGTTAGAACATGTGGAAAAAGGCAGAAGAACTAACTACAATTAAAATGAAaa
Downstream sequence
gaagcagaagggcttgggctttttcaaagcagcactgggtggcaggagacgggagggccttgcttgagaaattctgaaggatgcatttgcagcctggaag
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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