Basic Information
VIS ID
TVIS30003896
Fusion event
HIV-RUNX2 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
chr6
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
45502072/45534335 (Hg38)
End
45502072/45534335 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
RUNX2
miRNAs that regulate target gene
hsa-mir-135b-5p ; hsa-mir-155-5p ; hsa-mir-335-5p ; hsa-mir-203a-3p ; hsa-mir-497-5p ; hsa-mir-195-5p ; hsa-mir-204-5p ; hsa-mir-433-3p ; hsa-mir-338-3p ; hsa-mir-124-3p ; hsa-mir-30d-5p ; hsa-mir-30a-5p ; hsa-mir-505-5p ; hsa-mir-484 ; hsa-mir-30b-5p ; hsa-mir-218-5p ; hsa-mir-23b-3p ; hsa-mir-34c-5p ; hsa-mir-30c-5p ; hsa-mir-205-5p ; hsa-mir-320a ; hsa-mir-135a-5p ; hsa-mir-222-3p ; hsa-mir-221-5p ; hsa-mir-628-3p ; hsa-mir-103a-3p ; hsa-mir-30a-3p ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-10398/Upstream/336565; hsa-mir-10524/Downstream/6610014;
Nearest TSS
ENST00000381078/Upstream/111758; ENST00000321037/Downstream/42435;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/110426, chr6-CpG: 84/Downstream/128914
Nearest cancer related gene
RUNX2(TSG, No orient, 0)
Upstream sequence
TAATGAGGCACCTCTATTGGGGGAAAAAAGGACACAAATTGGAAACCCAACGCGTTCACTTCAgctctgcactaatgagctgtgtcctcgagatggtgcc
Downstream sequence
ttctttctctgatgaagcttccttatcaatgggtgcctatcctgactacctctcaggctctttgtgaaggtaaaaccaaatgtatgtaaaagcagtgaaa
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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