Basic Information
VIS ID
TVIS30002052
Fusion event
HIV-ATF7 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
53973161/53579377 (Hg38)
End
53973161/53579377 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
ATF7
miRNAs that regulate target gene
hsa-mir-769-5p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/522365; hsa-let-7i/Downstream/412361;
Nearest TSS
ENST00000382841/Upstream/35426; ENST00000566418/Downstream/46594;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/77848, chr12-CpG: 39/Downstream/46651
Upstream sequence
caatcccagcactttgggaggccaaggcgggcagttcacaaggtcaggagttcaagaccagcctggccaaaatagtgaaatgccatcaaaatagtgaaat
Downstream sequence
gccatctctactaaaaatacaaaaattagccgggcatggtggtatacacctgtaatcccagctactcaggaggctgaagcaggagaattgcttgaaccca
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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