Basic Information
VIS ID
TVIS30001679
Fusion event
HIV-TNR 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
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
175635171/175666035 (Hg38)
End
175635171/175666035 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1G
Target gene
TNR
miRNAs that regulate target gene
hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-6830-3p ; hsa-mir-1250-3p ; hsa-mir-508-5p ; hsa-mir-3145-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-6867-5p ; hsa-mir-6734-3p ; hsa-mir-3667-3p ; hsa-mir-1257 ; hsa-mir-4666b ; hsa-mir-509-3p ; hsa-mir-580-5p ; hsa-mir-6818-5p
Nearest miRNA
hsa-mir-101-1/Upstream/3521391; hsa-mir-1182/Downstream/302335;
Nearest TSS
ENST00000473358/Upstream/259671; ENST00000457217/Downstream/77581;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/66363, chr1-CpG: 108/Downstream/540540
Upstream sequence
aatacctactatgtgccaaaacttgAGTAATGACAAAGATCATTCCATCCTCTTGGAAGGGAACAGTTTCTTGAGAAACCTCCCTAATTTACCATAAGGG
Downstream sequence
AAAGAAAAACTTAGTcatatattaaatttctactgagtacctgtcctctcaggggtgttagatacatgactaaactcaaacgtcatataaccctgaaagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate