Basic Information
VIS ID
TVIS30013462
Fusion event
HIV-SOBP 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
107896288/107575084 (Hg38)
End
107896288/107575084 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
SOBP
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-324-5p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-302f ; hsa-mir-5187-3p ; hsa-mir-8081 ; hsa-mir-432-5p ; hsa-mir-487b-3p ; hsa-mir-513b-5p ; hsa-mir-4424 ; hsa-mir-15b-3p ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-6757-3p ; hsa-mir-7849-3p ; hsa-mir-599 ; hsa-mir-584-5p ; hsa-mir-2052 ; hsa-mir-144-5p ; hsa-mir-6814-5p ; hsa-mir-758-5p ; hsa-mir-218-2-3p ; hsa-mir-4733-5p ; hsa-mir-8076 ; hsa-mir-3123
Nearest miRNA
hsa-mir-10398/Upstream/790864; hsa-mir-1202/Downstream/11493963;
Nearest TSS
ENST00000381078/Upstream/63363; ENST00000494935/Downstream/59906;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/84079, chr6-CpG: 169/Downstream/58875
Upstream sequence
AGTAATCCCTGCGGTTTCTGCCACTCATTGTCACCATGCTGCTTCTGCCCACTGTGCTCCTGGGGCGCACGAGcagtgtggcatgggggttgagatctgc
Downstream sequence
acctggtgtcatgacacctgcattcagagcccaactttgccttttatgggctctttggtcttaggcaagttgcttaacttctctacacttcagtttctac
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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