Basic Information
VIS ID
TVIS30010283
Fusion event
HIV-MPHOSPH9 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
q24.31
Reference genome
GRCh37/hg19
Start
123649510/123164963 (Hg38)
End
123649510/123164963 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
MPHOSPH9
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-340-5p ; hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-mir-15b-5p ; hsa-mir-3126-3p ; hsa-mir-3128 ; hsa-mir-4720-5p ; hsa-mir-4799-3p ; hsa-mir-5088-5p ; hsa-mir-515-5p ; hsa-mir-519d-5p ; hsa-mir-519e-5p ; hsa-mir-5588-5p ; hsa-mir-564 ; hsa-mir-5695 ; hsa-mir-6868-5p
Nearest miRNA
hsa-let-7i/Upstream/154235; hsa-mir-3612/Downstream/199801;
Nearest TSS
ENST00000382841/Upstream/1002; ENST00000536130/Downstream/499;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/13334, chr12-CpG: 94/Downstream/67857
Upstream sequence
ccgggggtgctggagggcacctgtaattctaggtacttgagaggctgaggcaggatgatagcttgaaccctggagatggagtttgcagtgagctgagatt
Downstream sequence
acgcactgcactccagcctgggcaaaagagtgagactctgtctcactgtctcaaaaaaaaaaaaaaaaaaaaaagaaTGCCATGTAAGCCTTTTTCATAA
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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