Basic Information
VIS ID
TVIS30004841
Fusion event
HIV-ST13 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
chr22
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
41232897/40836893 (Hg38)
End
41232897/40836893 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
ST13
miRNAs that regulate target gene
hsa-mir-186-5p ; hsa-mir-183-5p ; hsa-let-7b-5p ; hsa-mir-19b-3p ; hsa-mir-4677-5p ; hsa-mir-526b-5p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-4480 ; hsa-mir-4424 ; hsa-mir-26b-3p ; hsa-mir-4633-5p ; hsa-mir-3149 ; hsa-mir-411-5p ; hsa-mir-6832-5p ; hsa-mir-6069 ; hsa-mir-661 ; hsa-mir-3116 ; hsa-mir-1254 ; hsa-mir-664a-5p ; hsa-mir-4794 ; hsa-mir-6872-3p ; hsa-mir-3591-3p ; hsa-mir-21-3p
Nearest miRNA
hsa-mir-1286/Upstream/22935; hsa-let-7a-3/Downstream/255620;
Nearest TSS
ENST00000624155/Upstream/944; ENST00000614001/Downstream/7997;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/17321, chr22-CpG: 88/Downstream/19249
Nearest cancer related gene
ST13(TSG, No orient, 0)
Upstream sequence
AGTTCTTTGCACAAAGTCTAAATCTTGGGGAGGCAAGACAAATACAGAAttttttttaagagacagggtctaactctcacataggctagagtacagtggc
Downstream sequence
atgatcatagctcacaggctgaagtgatcatcccacctcagcttcctgagtagctgggaatacaagcccacaacactaaacctggctaattaaaaaaaat
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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