Proximate region of VIS (GRCh38)VISEnhancerEnhancer/PromoterPromoterGene280806228641843039076287024728749892900202290192428786892879884291937229202042916915291761828850012885201287580128760002902001290220028847452884804292319229232512923569
Basic Information
VIS ID
TVIS30007945
Fusion event
HIV-PTPRA 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
2904215/2923569 (Hg38)
End
2904215/2923569 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPRA
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1292/Upstream/270727; hsa-mir-1-1/Downstream/993925;
Nearest TSS
ENST00000382410/Upstream/362; ENST00000245983/Downstream/120053;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/49580, chr20-CpG: 98/Downstream/122062
Upstream sequence
gaatcacttgaagagcttttTTTTTTTAAAAAAAAAGACCAAAGTCAggctgggcatggtggatcacgcctgtaatcccagcactttgggaggccgaggc
Downstream sequence
gggcagatcacttgaggtcaggagttcaagaccagcctggccaacatggtgaaaccccatctctaccaaaaatacaaaaattagccagatgtggtggcat
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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