Basic Information
VIS ID
TVIS30000559
Fusion event
HIV-CHD8 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr14
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
21870064/21401905 (Hg38)
End
21870064/21401905 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHD8
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-1296-5p ; hsa-mir-877-5p ; hsa-mir-423-5p ; hsa-mir-615-3p ; hsa-mir-218-5p ; hsa-mir-4477a ; hsa-mir-6783-5p ; hsa-mir-4480 ; hsa-mir-513c-3p ; hsa-mir-3606-3p ; hsa-mir-513a-3p ; hsa-mir-155-5p ; hsa-mir-365a-3p ; hsa-mir-365b-3p
Nearest miRNA
hsa-mir-6717/Upstream/378519; hsa-mir-1185-1/Downstream/1555045;
Nearest TSS
ENST00000550708/Upstream/6891; ENST00000487242/Downstream/224;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/17514, chr14-CpG: 22/Downstream/54178
Upstream sequence
gaactcctgacctcaagtgatctgcccgcctcagcctcccaaagtgctgggaatataggcatgagccaccatccccagcATAAAAACATAATTAAATCCT
Downstream sequence
AGAGATTCCGGTCTCTGTGTTTTTCTAGCCTCTGGCATAGACAGAACATGCCTTAGCAAAGGTGGAACCTTTTCCTTCAGATTCAATGGTGATGGTTGTA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate