Basic Information
VIS ID
TVIS30010980
Fusion event
HIV-GNA12 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
2804736/2765102 (Hg38)
End
2804736/2765102 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
GNA12
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-98-5p ; hsa-mir-93-5p ; hsa-mir-149-5p ; hsa-mir-23b-3p ; hsa-mir-218-5p ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-4309 ; hsa-mir-3198 ; hsa-mir-4653-3p ; hsa-mir-4424 ; hsa-mir-432-5p ; hsa-mir-335-5p ; hsa-mir-1266-5p ; hsa-mir-211-3p ; hsa-mir-3664-3p ; hsa-mir-4270 ; hsa-mir-4441 ; hsa-mir-4518 ; hsa-mir-6754-5p ; hsa-mir-7-5p ; hsa-mir-8087 ; hsa-mir-9500
Nearest miRNA
hsa-mir-339/Upstream/237957; hsa-mir-10399/Downstream/2023463;
Nearest TSS
ENST00000635602/Upstream/494; ENST00000423194/Downstream/30043;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/2038, chr7-CpG: 142/Downstream/78552
Nearest cancer related gene
GNA12(OG, No orient, 0)
Upstream sequence
AAAATGAAAACCTTTCCTTAAAGGAAAGGAAGCATAATCTCAGAAATCTGAATCCAGGGAATCCCAAATAACCCCCCCAAATTTTAATCCTTGACATTCA
Downstream sequence
TAATCACTTGGATTAAAATCTAAGGGAAAAAAAGAATCACAGGCTGACtttttttttttttttgagacggagtctcgctctgtcgcccaggctggagtgt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate