Basic Information
VIS ID
TVIS30010303
Fusion event
HIV-TBC1D4 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
chr13
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
75906015/75331879 (Hg38)
End
75906015/75331879 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13E
Target gene
TBC1D4
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-30a-5p ; hsa-mir-19b-3p ; hsa-mir-29b-2-5p ; hsa-mir-7150 ; hsa-mir-4736 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-1193 ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-8069 ; hsa-mir-4456 ; hsa-mir-4494 ; hsa-mir-4463
Nearest miRNA
hsa-mir-1297/Upstream/9113555; hsa-mir-1267/Downstream/2366133;
Nearest TSS
ENST00000623511/Upstream/5629; ENST00000471792/Downstream/9652;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/1196198, chr13-CpG: 197/Downstream/148837
Upstream sequence
ATGGCAGCAATTATGAGCTAAACTCCAAAACTGGAGTGTGAATTTTCTACTATACAACTCAGCAGGAAAAAAAAAAAAAAAGACAAGTTTTAGAAGTATA
Downstream sequence
CAAAACCCCTTTTGCTATGTAACCTTTAATACAACATGGGGAGCTGCCAACCTGCCCAAAAAGTGCAATCTGTTGCACACGGTACAAGCAAGACCTTGTT
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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