Basic Information
VIS ID
TVIS30008556
Fusion event
HIV-SEPSECS 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
chr4
Cytoband
p15.2
Reference genome
GRCh37/hg19
Start
25157623/25156001 (Hg38)
End
25157623/25156001 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
SEPSECS
miRNAs that regulate target gene
hsa-mir-100-5p ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-216a-5p ; hsa-mir-1264 ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-12113/Upstream/635711; hsa-mir-1243/Downstream/3663581;
Nearest TSS
ENST00000502981/Upstream/770; ENST00000510415/Downstream/97;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/59708, chr4-CpG: 52/Downstream/4158
Upstream sequence
ATATTTTACAATTTTTTCTTTTAAAAAAGCAATAGGGAAGAGAGTTAGTTTATTTTTCATTTATCTATCTTTATATAAGAAATCTGAATTTCATAATTAT
Downstream sequence
GATGTTTAAAACATTATGTATGACACTTCTCTTACCTGCAGTGATCATGGATTTAAAGCAGGACTTCTGGTCTATTCGTGGCCATATAATATACTTTGCC
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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