Basic Information
VIS ID
TVIS30002541
Fusion event
HIV-NFATC3 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
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
68182245/68148342 (Hg38)
End
68182245/68148342 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
NFATC3
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-361-3p ; hsa-mir-324-3p ; hsa-let-7b-5p ; hsa-mir-548l ; hsa-mir-548n ; hsa-mir-185-5p ; hsa-mir-7975 ; hsa-mir-320a ; hsa-mir-218-5p ; hsa-mir-3163 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548e-5p ; hsa-mir-30a-3p ; hsa-mir-103a-2-5p ; hsa-mir-202-5p ; hsa-mir-3154 ; hsa-mir-337-3p ; hsa-mir-3977 ; hsa-mir-4777-5p ; hsa-mir-493-3p ; hsa-mir-518d-5p ; hsa-mir-518e-5p ; hsa-mir-518f-5p ; hsa-mir-519a-5p ; hsa-mir-519b-5p ; hsa-mir-519c-5p ; hsa-mir-520c-5p ; hsa-mir-522-5p ; hsa-mir-523-5p ; hsa-mir-526a ; hsa-mir-6508-5p ; hsa-mir-6885-3p ; hsa-mir-8067 ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-1225/Upstream/945947; hsa-mir-11401/Downstream/85084;
Nearest TSS
ENST00000527434/Upstream/25312; ENST00000568599/Downstream/73329;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/62259, chr16-CpG: 253/Downstream/86765
Upstream sequence
cgacctcgggtgatccacctgcctaggcctcccaaagtgctgggattacaggtgtgagccaccgtgcctgaccTAGGCTTTATTTTTGTTATTGTGATGA
Downstream sequence
TATTGACATTTTATAGTTTTATGGAATAGTTTCCATAATTAAAGCTTTGAAATTTATTAATTTTACACTAAAATGTGTAAAAAAATTACAAATGAGAATA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate