Basic Information
VIS ID
TVIS30013522
Fusion event
HIV-SNX10 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
chr7
Cytoband
p15.2
Reference genome
GRCh37/hg19
Start
26367717/26328097 (Hg38)
End
26367717/26328097 (Hg38)
Orient
+
Location type
Intronic
Target gene
SNX10
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-126-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-4795-3p ; hsa-mir-6509-5p ; hsa-mir-27b-5p ; hsa-mir-6502-5p ; hsa-mir-1301-5p ; hsa-mir-1252-5p ; hsa-mir-6830-3p ; hsa-mir-127-5p ; hsa-mir-331-5p ; hsa-mir-496 ; hsa-mir-3160-5p ; hsa-mir-6806-3p ; hsa-mir-3928-5p ; hsa-mir-6507-5p
Nearest miRNA
hsa-mir-1183/Upstream/378111; hsa-mir-10399/Downstream/841383;
Nearest TSS
ENST00000635602/Upstream/35043; ENST00000409367/Downstream/25960;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/35773, chr7-CpG: 124/Downstream/48029
Upstream sequence
ctgggattacaggcgtgaggtgcccggccacattctttTTCTTGtttattcaaaaatcatttactgaaccacttgctaagtatgttgggccctACCAATG
Downstream sequence
GAATGTACCCTTCTTCCAGCTAGAGTCAAGAGTagaactgatgagagctcgaactaggccagtgacactggaggctgagagacaggaatggacttaggag
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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