Basic Information
VIS ID
TVIS30002722
Fusion event
HIV-BRCA1 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
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
41223465/43071448 (Hg38)
End
41223465/43071448 (Hg38)
Orient
-
Location type
Intronic
Target gene
BRCA1
miRNAs that regulate target gene
hsa-mir-146a-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-212-3p ; hsa-mir-24-3p ; hsa-mir-193b-3p ; hsa-mir-335-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-99b-3p ; hsa-mir-484 ; hsa-mir-186-5p ; hsa-mir-181a-5p ; hsa-mir-20b-5p ; hsa-mir-498 ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-4726-3p ; hsa-mir-1297 ; hsa-mir-6872-3p ; hsa-mir-125a-3p ; hsa-mir-34a-5p ; hsa-mir-483-3p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-1180/Upstream/247505; hsa-mir-10226/Downstream/373358;
Nearest TSS
ENST00000595228/Upstream/382; ENST00000592304/Downstream/11312;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/45872, chr17-CpG: 24/Downstream/54669
Nearest cancer related gene
BRCA1(TSG, No orient, 0)
Upstream sequence
gggtacatgaatacagtgttggtggaaatccaaagtagcttagtttcctaaaaaggaaatatggcattatgtagcaaacaccttaacacgtatttacact
Downstream sequence
ttcagtcaacaatgctagttttagaaatatatcctagggagataaaagatatatgcaaaggtttagtcataggaatagtataattttagaaacaatgtag
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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