Basic Information
VIS ID
TVIS30003572
Fusion event
HIV-EFCAB12 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
chr3
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
129124910/129406067 (Hg38)
End
129124910/129406067 (Hg38)
Orient
+
Location type
Intronic
Target gene
EFCAB12
Nearest miRNA
hsa-let-7g/Upstream/133824; hsa-mir-1224/Downstream/2579788;
Nearest TSS
ENST00000440867/Upstream/87831; ENST00000504653/Downstream/12456;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/61777, chr3-CpG: 36/Downstream/22319
Upstream sequence
tttgggaagctgaagtgggacgatcgcttgagcccaggagttcgagatcagcctgggcaacaaagcaagaccccatctcttaaaaaaaaaaaaaaaGTGG
Downstream sequence
CTCGATATTCTGGTGGGGACAGACAAAGAAGCACAGAGGGGAAGACCTAACCCAGAGGAGCAGTCCAGGGCACATGGCAAGCTGGCTGCATTTGAGAAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate