Basic Information
VIS ID
TVIS30006667
Fusion event
HIV-TBC1D2B 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
chr15
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
78342914/78050572 (Hg38)
End
78342914/78050572 (Hg38)
Orient
-
Location type
Intronic
Target gene
TBC1D2B
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-mir-484 ; hsa-mir-3915 ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-4668-5p ; hsa-mir-3202 ; hsa-mir-3928-3p ; hsa-mir-5093 ; hsa-mir-194-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-1252-3p ; hsa-mir-6890-3p ; hsa-mir-603 ; hsa-mir-8485
Nearest miRNA
hsa-mir-10393/Upstream/2288257; hsa-mir-11181/Downstream/1159216;
Nearest TSS
ENST00000557528/Upstream/24944; ENST00000409568/Downstream/3429;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/105830, chr15-CpG: 103/Downstream/26603
Upstream sequence
AATGAAGTAAACGGAATGTGCTAGACATACATCCTGTAATGAGGCTATTAGCCATTTATGGGCACCTCCTTTGGGTTCTAGCTACCTCATTCTCAACAGC
Downstream sequence
TATAAAGGTTTATAGACACCTGATTGTATCTTTATGCAAATTACTCTTTTATGTTGAAACTAGGTCTTTATCTATCCAGACACAGAAGACAATGTAGAAT
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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