Basic Information
VIS ID
TVIS30003205
Fusion event
HIV-ATF2 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
chr2
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
176029381/175164653 (Hg38)
End
176029381/175164653 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2G
Target gene
ATF2
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-19b-3p ; hsa-mir-15a-5p ; hsa-mir-204-3p
Nearest miRNA
hsa-mir-128-1/Upstream/6581635; hsa-mir-10b/Downstream/2980;
Nearest TSS
ENST00000437798/Upstream/13571; ENST00000449168/Downstream/3251;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/159092, chr2-CpG: 68/Downstream/3004
Upstream sequence
TACAATTACTGATGGCCTTAAAGATCCACAAATTTCCTTGATTTTCTATGAAACTATCTTATACCTTACTATATAACCTTTTAACCTTGAGAAACATAAC
Downstream sequence
AAAGGAAATAAAATGTTCTCTGGGGTTTTCCTTCAAATAGAAATAGGTGAATACTATCCTACTACTTCAACATTAAAACTTACATAAAGAGAACATGCAG
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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