Basic Information
VIS ID
TVIS30011528
Fusion event
HIV-LPXN 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
chr11
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
58326221/58558748 (Hg38)
End
58326221/58558748 (Hg38)
Orient
+
Location type
Intronic
Target gene
LPXN
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-4635 ; hsa-mir-138-1-3p ; hsa-mir-877-3p ; hsa-mir-4668-3p ; hsa-mir-1273e ; hsa-mir-1827 ; hsa-mir-219b-3p ; hsa-mir-302f ; hsa-mir-3664-3p ; hsa-mir-3929 ; hsa-mir-4419b ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4478 ; hsa-mir-4649-3p ; hsa-mir-4695-5p ; hsa-mir-4722-5p ; hsa-mir-4768-3p ; hsa-mir-485-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-5690 ; hsa-mir-665 ; hsa-mir-6808-5p ; hsa-mir-6840-3p ; hsa-mir-6884-5p ; hsa-mir-6893-5p ; hsa-mir-7160-5p ; hsa-mir-940
Nearest miRNA
hsa-mir-129-2/Upstream/917462; hsa-let-7a-2/Downstream/1036329;
Nearest TSS
ENST00000527297/Upstream/50643; ENST00000316059/Downstream/17088;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/805467, chr11-CpG: 132/Downstream/19452
Upstream sequence
taaaagaacttcctatatgagcaatggggcatttcaaatcatccaaaacagactattcgactcaaagaataacaacctatttggtacaaaataaatatgg
Downstream sequence
atccccaacacaccaaatacatgaataaatttgagacaaattaaagatagatatcaatatttttaaatgtaaagataatagaaaaatgaagaatatattt
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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