Basic Information
VIS ID
TVIS30002162
Fusion event
HIV-KLF12 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
q22.1
Reference genome
GRCh37/hg19
Start
74267367/73693230 (Hg38)
End
74267367/73693230 (Hg38)
Orient
-
Location type
UTR3
Fragile sites / regions
FRA13E
Target gene
KLF12
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-23a-3p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-218-5p ; hsa-mir-4679 ; hsa-mir-4677-3p ; hsa-mir-216b-5p ; hsa-mir-1264 ; hsa-mir-6888-3p ; hsa-mir-4775 ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-34a-5p ; hsa-mir-141-3p ; hsa-mir-137 ; hsa-mir-200a-3p ; hsa-mir-4720-3p ; hsa-mir-4804-3p
Nearest miRNA
hsa-mir-1297/Upstream/7474906; hsa-mir-1267/Downstream/4004782;
Nearest TSS
ENST00000623511/Upstream/44977; ENST00000419499/Downstream/301819;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/632998, chr13-CpG: 31/Downstream/440742
Upstream sequence
GAGATGCACCCACTACTTGCCAACTAGGTGCTGGTACTAGTGCCAGGGGGTTCATGGCTGTGTTTGTCCCTCTCTGTGTTCTCTGTCACTGACTAGTAAC
Downstream sequence
CAGCACTGGCATGCATCAACAGACCTTTTTCTATTCTGAATGGTCACAGGCAATGTGAAGTAGGAGTTGCATATAGTACAAAAAAACTTTCCAGGTGCTA
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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