Basic Information
VIS ID
TVIS30010873
Fusion event
HIV-FYB1 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
chr5
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
39110307/39110205 (Hg38)
End
39110307/39110205 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
FYB1
miRNAs that regulate target gene
hsa-mir-4795-3p ; hsa-mir-613 ; hsa-mir-206 ; hsa-mir-1-3p ; hsa-mir-126-5p ; hsa-mir-4307 ; hsa-mir-656-3p ; hsa-mir-33a-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p
Nearest miRNA
hsa-mir-10397/Upstream/552644; hsa-mir-103a-1/Downstream/14841299;
Nearest TSS
ENST00000502646/Upstream/35797; ENST00000603514/Downstream/437;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/35071, chr5-CpG: 39/Downstream/314585
Upstream sequence
AAAACTATTAACTATGAGCTGTACAATTTTAAATGAGAAGGGCTCCTCGCCTATTTAAAAGAGTAGCACTTCATGGAAACCTAAACTTTATTATGGATAC
Downstream sequence
TAACATGTTAACGTTAGTATAGCATATTGTTTTTAAATTTATTTATGATAGTTGAGTAGGTTACattatttaagtaatattataaatattttaaaaaGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate