Basic Information
VIS ID
TVIS30010202
Fusion event
HIV-FCHSD2 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
q13.4
Reference genome
GRCh37/hg19
Start
72679940/72968895 (Hg38)
End
72679940/72968895 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
FCHSD2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-7159-3p ; hsa-mir-4668-5p ; hsa-mir-210-3p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-4272 ; hsa-mir-3613-3p ; hsa-mir-6074 ; hsa-mir-3622a-5p ; hsa-mir-548an ; hsa-mir-4482-3p ; hsa-mir-4474-5p ; hsa-mir-4662a-5p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-449b-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-10392/Upstream/185303; hsa-let-7a-2/Downstream/1430342;
Nearest TSS
ENST00000527297/Upstream/81320; ENST00000541254/Downstream/20117;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/146166, chr11-CpG: 192/Downstream/172236
Upstream sequence
GTGCTTCTGTGTACCCAAGGTTCATCCTTTGACCAACACTTCTCCTTGGTGCTTTAATGGTTTTATTATAGTAACATTAAAAGATATTTCTATAAATTGG
Downstream sequence
TAAACAAAACAAAAATAAAACCCAGTTATCCTTTCCTTCAAAACTGATAGGTAATAATATTAAGGCTTTGTCCAGTGATTCATCTTATATGAAAAACATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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