Basic Information
VIS ID
TVIS30006337
Fusion event
HIV-TSC22D1 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
chr13
Cytoband
q14.11
Reference genome
GRCh37/hg19
Start
45028596/44454460 (Hg38)
End
45028596/44454460 (Hg38)
Orient
-
Location type
Intronic
Target gene
TSC22D1
miRNAs that regulate target gene
hsa-mir-100-5p ; hsa-mir-9-3p ; hsa-mir-590-3p ; hsa-mir-6858-5p ; hsa-mir-4689 ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-199b-5p ; hsa-mir-199a-5p ; hsa-mir-1825 ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-6758-5p ; hsa-mir-6856-5p
Nearest miRNA
hsa-mir-2276/Upstream/258260; hsa-mir-1267/Downstream/5541955;
Nearest TSS
ENST00000623511/Upstream/17206; ENST00000617014/Downstream/19790;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/17201, chr13-CpG: 216/Downstream/121469
Nearest cancer related gene
TSC22D1(TSG, No orient, 0)
Upstream sequence
tacattatgtaaacatatataacaacatctatgtaagttaggaagtataacggtagaacaaacacccacaaactgccccccgctaaactaagaacgttat
Downstream sequence
caacaccactgaaactcttatgctcctcctcATCCTCTACTCCCACACCAGGGGCAattcttctccagcctgaaatcattcccatttaattagttactat
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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