Basic Information
VIS ID
TVIS30011634
Fusion event
HIV-FXYD6 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
117727423/117856708 (Hg38)
End
117727423/117856708 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
FXYD6
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-377-3p ; hsa-mir-6799-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-499b-3p ; hsa-mir-499a-3p ; hsa-mir-8485 ; hsa-mir-1286 ; hsa-mir-541-3p ; hsa-mir-6134 ; hsa-mir-654-5p ; hsa-mir-6721-5p ; hsa-mir-6886-5p
Nearest miRNA
hsa-mir-10392/Upstream/4406620; hsa-let-7a-2/Downstream/787292;
Nearest TSS
ENST00000527297/Upstream/12601; ENST00000531365/Downstream/12482;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/59282, chr11-CpG: 39/Downstream/19679
Upstream sequence
ATGGTTACCCTAGACTATTATTATATGCAAAGGGATATGATTTAGCCTATGACGTATCTAGATCTTTGCAACCAAGAAGTCTATTAAAAAAAGATTCGAC
Downstream sequence
TGTGTATATATTGAGTATAACCAAGATGTGAGGTCTACCAGATGGAGTtagcatcacagaattcatcacagttggttacagtgattgggctcctgctttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate