Basic Information
VIS ID
TVIS30005344
Fusion event
HIV-NBPF10 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
chr1
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
145451996/145983083 (Hg38)
End
145451996/145983083 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
NBPF10
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-216b-3p ; hsa-mir-4798-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-3942-3p ; hsa-mir-7154-5p ; hsa-mir-549a ; hsa-mir-1250-3p ; hsa-mir-8060 ; hsa-mir-1324 ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-1277-5p ; hsa-mir-6516-3p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-4789-3p ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-101-1/Upstream/132438; hsa-mir-1182/Downstream/2351396;
Nearest TSS
ENST00000473358/Upstream/18367; ENST00000612371/Downstream/11133;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18235, chr1-CpG: 18/Downstream/13507
Upstream sequence
GTACCAGGGCTTCTTTCCCTGTCCAAATGGGACTCTACCTATTCTCTCCAAGACAGGAAATACCTCAAATCCACATCCCTAACTTAGGTGAGTTTCTTCC
Downstream sequence
ACCTACCCCTTTTGGTAAGACAAAAATAGGTCTAACTCCCTCCCTCCTAATCTAATATTATCAGCACTGCCCTGAGTGTACCAAAGAATATCAGAGACAG
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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