Basic Information
VIS ID
TVIS30000708
Fusion event
HIV-CASTOR3 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
chr7
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
99813543/100215920 (Hg38)
End
99813543/100215920 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
CASTOR3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6749-3p ; hsa-mir-3182 ; hsa-mir-2116-3p ; hsa-mir-6729-3p ; hsa-mir-4286
Nearest miRNA
hsa-mir-10525/Upstream/59251; hsa-mir-10399/Downstream/140731;
Nearest TSS
ENST00000635602/Upstream/741; ENST00000471803/Downstream/2321;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/37960, chr7-CpG: 114/Downstream/55460
Upstream sequence
cttgactaatagaagatgatagaaatgatgccatgctagttagtgggcccagattttaaggaaactggcagtttccgtttcctgtctcttcctgtacctg
Downstream sequence
ggttcacacttggaacccggtcaccattctgtgagcaaggccagcagccaaaggaaaaggccacgtgtaggtgttcctgccagcagtcctcaccgaggtc
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.
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