Basic Information
VIS ID
TVIS30006784
Fusion event
HIV-ABCC1 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
chr16
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
16104902/16011045 (Hg38)
End
16104902/16011045 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16A
Target gene
ABCC1
miRNAs that regulate target gene
hsa-mir-345-5p ; hsa-mir-7-5p ; hsa-mir-134-5p ; hsa-mir-9-5p ; hsa-mir-1-3p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-615-3p ; hsa-mir-339-5p ; hsa-mir-125b-5p ; hsa-mir-23b-3p ; hsa-mir-16-5p ; hsa-mir-1291 ; hsa-mir-3180-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-361-3p ; hsa-mir-1825 ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-5195-3p ; hsa-mir-5582-3p ; hsa-mir-145-5p ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-224-5p
Nearest miRNA
hsa-mir-1225/Upstream/367673; hsa-mir-11401/Downstream/289114;
Nearest TSS
ENST00000527434/Upstream/1189; ENST00000574224/Downstream/3495;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/60975, chr16-CpG: 30/Downstream/212334
Upstream sequence
GAGGGAggctgggcatcgtggctcatgcctgtaatcccagcactttgggaggctgaggcgggagaatcacttgaggtcgggaatttgagaccagtatagc
Downstream sequence
caacatggcaaaaccccgtctctactaaaaataaaaaaattagccggcgtggtggcacacgcctgtagtcctagctactcaagaggctgaggcaggagaa
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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