Basic Information
VIS ID
TVIS30004677
Fusion event
HIV-FN3KRP 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
chr17
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
80679415/82721539 (Hg38)
End
80679415/82721539 (Hg38)
Orient
+
Location type
Intronic
Target gene
FN3KRP
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4734 ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-7113-5p ; hsa-mir-7160-3p ; hsa-mir-596 ; hsa-mir-191-5p ; hsa-mir-1273e ; hsa-mir-6807-5p ; hsa-mir-580-3p ; hsa-mir-25-5p ; hsa-mir-658 ; hsa-mir-3683 ; hsa-mir-1273c ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-219b-3p ; hsa-mir-302f ; hsa-mir-4662a-5p ; hsa-mir-4252 ; hsa-mir-449b-3p ; hsa-mir-4318 ; hsa-mir-3169 ; hsa-mir-5197-3p ; hsa-mir-7114-5p ; hsa-mir-7847-3p
Nearest miRNA
hsa-mir-10226/Upstream/53232;
Nearest TSS
ENST00000595228/Upstream/2522; ENST00000576363/Downstream/1070;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/4179, chr17-CpG: 40/Downstream/7964
Upstream sequence
GCCACTGAGAGCCATCCTTTCTGATGGATTGGGGGCAGATTCTTTTTCCTCtttatttatttatttttattttatttttttgagaaggagtcttgctttg
Downstream sequence
ttccccaggctggagtgcagtggcatgatctctgctcactgcaagctccgcctcccgggtccacgccattctcctgcctcagcctcctaagtagctggga
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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