Basic Information
VIS ID
TVIS30006097
Fusion event
HIV-LDHB 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
chr12
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
21795966/21643032 (Hg38)
End
21795966/21643032 (Hg38)
Orient
-
Location type
Intronic
Target gene
LDHB
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-186-3p ; hsa-mir-766-3p ; hsa-mir-615-3p ; hsa-mir-324-5p ; hsa-mir-185-5p ; hsa-mir-221-3p ; hsa-mir-197-3p ; hsa-mir-100-5p ; hsa-mir-20a-5p ; hsa-mir-23a-3p ; hsa-mir-24-3p ; hsa-mir-210-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/3969638; hsa-let-7i/Downstream/2569389;
Nearest TSS
ENST00000382841/Upstream/4494; ENST00000541860/Downstream/11538;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/114984, chr12-CpG: 21/Downstream/14522
Nearest cancer related gene
LDHB(OG, No orient, 0)
Upstream sequence
ATGTAGAAAGTTGCATAATCATTTAGTGACGCCTGCCTGAGGCACAGGATGCAGTAACTTACTATGTGCTAGCTACTTGTCATTCCTATTCTACATCTAC
Downstream sequence
CTGGCACATATATATTTATGAGAAGTTTTATATATAAGACTGAACCATTTAATAAACTCCAATCTTGGTTTGCAGAAGTAAAAATATGGAAATAACCTCT
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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