Basic Information
VIS ID
TVIS30012888
Fusion event
HIV-NFATC2 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
chr20
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
50092388/51475851 (Hg38)
End
50092388/51475851 (Hg38)
Orient
-
Location type
Intronic
Target gene
NFATC2
miRNAs that regulate target gene
hsa-mir-184 ; hsa-mir-526b-5p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-451b ; hsa-mir-5571-5p ; hsa-mir-4512 ; hsa-mir-3157-5p ; hsa-mir-20b-3p ; hsa-mir-1304-3p ; hsa-mir-1208 ; hsa-mir-6760-3p ; hsa-mir-1183 ; hsa-mir-10a-3p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-496 ; hsa-mir-6504-3p ; hsa-mir-4700-3p ; hsa-mir-8485 ; hsa-mir-4459 ; hsa-mir-603 ; hsa-mir-129-5p ; hsa-mir-489-3p ; hsa-mir-514a-3p ; hsa-mir-514b-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/22874; hsa-mir-1-1/Downstream/2592557;
Nearest TSS
ENST00000382410/Upstream/76632; ENST00000454600/Downstream/66868;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/452176, chr20-CpG: 43/Downstream/16406
Nearest cancer related gene
NFATC2(TSG, No orient, 0)
Upstream sequence
GAGAGACTATGGGATTTCTgcagcatctggaagaatggagaactggaaacaaccttgatgtccagccagagggtaacgcttggataaattacagggatcc
Downstream sequence
cctctaatgctgaatattaagcagccactagaaagaatACAGTAAGTCAGAACTGCATTTATGGAGAAACAGCCAGAAACTGTGCTTAATTGATGACTGA
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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