Basic Information
VIS ID
TVIS30001663
Fusion event
HIV-ATF6 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
chr1
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
161816958/161847168 (Hg38)
End
161816958/161847168 (Hg38)
Orient
+
Location type
Intronic
Target gene
ATF6
miRNAs that regulate target gene
hsa-mir-503-5p ; hsa-mir-424-5p ; hsa-mir-335-5p ; hsa-mir-191-5p ; hsa-mir-199a-5p ; hsa-mir-552-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6871-5p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-7153-3p
Nearest miRNA
hsa-mir-101-1/Upstream/619907; hsa-mir-1182/Downstream/309939;
Nearest TSS
ENST00000473358/Upstream/7093; ENST00000430905/Downstream/136773;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/96882, chr1-CpG: 28/Downstream/136658
Upstream sequence
CCATATTGCTTGTCAATAGCAAAAGGCTTTAATTGTATAAAAATGCAATTTCTATATTATGTTAACTAGAAGAAGGTATAGTGGACATTTTTATAGTTGT
Downstream sequence
ATACTTTTTGATAAACATTTCCCTGTGTTATTTAGAATTTGTATTAGAGCCAAATGGAGCCAGGTCCTTGACTAACAAGGCAAAGGGAGGTCACAGTATG
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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