Basic Information
VIS ID
TVIS30007980
Fusion event
HIV-TRPC4AP 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
chr20
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
33631628/35043825 (Hg38)
End
33631628/35043825 (Hg38)
Orient
-
Location type
Intronic
Target gene
TRPC4AP
miRNAs that regulate target gene
hsa-mir-320b ; hsa-mir-324-5p ; hsa-mir-106b-5p ; hsa-mir-93-5p ; hsa-mir-4439 ; hsa-mir-3136-5p ; hsa-mir-4314 ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-4740-5p ; hsa-mir-6857-3p ; hsa-mir-6855-3p ; hsa-mir-4513 ; hsa-mir-2277-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-4526 ; hsa-mir-3660 ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-4286 ; hsa-mir-6777-3p ; hsa-mir-141-5p ; hsa-mir-888-3p ; hsa-mir-514a-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/53328; hsa-mir-1-1/Downstream/410129;
Nearest TSS
ENST00000382410/Upstream/42580; ENST00000216968/Downstream/48982;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/46178, chr20-CpG: 86/Downstream/48427
Upstream sequence
aaaatagaacaattgtaacaagatgctgtaataagagttatacgaatgtggtctctctctggaatttttcagttaatattttcggattgcagttgaccac
Downstream sequence
ggataactgaaaccacagaaagtgaaactgcagacaagaggagattagtgtctatacatcattatctataaaatgaaggcccaggagagacttagtagat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate