Basic Information
VIS ID
TVIS30004318
Fusion event
HIV-SDF4 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
p36.33
Reference genome
GRCh37/hg19
Start
1162002/1226622 (Hg38)
End
1162002/1226622 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
SDF4
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-378a-5p ; hsa-mir-218-5p ; hsa-mir-4497 ; hsa-mir-6742-5p ; hsa-mir-92a-2-5p ; hsa-mir-7704 ; hsa-mir-615-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-4763-3p ; hsa-mir-1908-5p ; hsa-mir-1207-5p ; hsa-mir-6077 ; hsa-mir-4767 ; hsa-mir-6820-5p ; hsa-mir-6134 ; hsa-mir-9500
Nearest miRNA
hsa-mir-12136/Upstream/57535; hsa-mir-101-1/Downstream/69488;
Nearest TSS
ENST00000473358/Upstream/5271; ENST00000379198/Downstream/1974;
Nearest CpG islands
chr1-CpG: 24/Target, None/Upstream, None/Downstream
Upstream sequence
cagcccagaggagacagaggagacaggacagctgagtgaacgtgggtcctggagggACGGGGCCCTACGCAGGAGAAGGGCGAGAAGGGACCCGCGTGTG
Downstream sequence
GGAAGGGAAGTCTAAACACCCACAGCGGCCGCTGTCGCCGCTCGGCGCAGGAGTCAGGGAGACCCGGAGACCTGCTGTTACTTCCCACTCCCCATGCCCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate