Basic Information
VIS ID
TVIS30005370
Fusion event
HIV-C1orf43 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
q21.3
Reference genome
GRCh37/hg19
Start
154188302/154215826 (Hg38)
End
154188302/154215826 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
C1orf43
miRNAs that regulate target gene
hsa-mir-340-5p ; hsa-mir-1226-3p ; hsa-mir-296-3p ; hsa-mir-769-3p ; hsa-mir-106b-5p ; hsa-mir-15b-5p ; hsa-mir-136-3p ; hsa-mir-1185-1-3p ; hsa-mir-1185-2-3p ; hsa-mir-6083 ; hsa-mir-6868-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-103b ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-3074-3p ; hsa-mir-4293 ; hsa-mir-596
Nearest miRNA
hsa-mir-101-1/Upstream/22083; hsa-mir-1182/Downstream/759867;
Nearest TSS
ENST00000473358/Upstream/3096; ENST00000441890/Downstream/4353;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/32376, chr1-CpG: 79/Downstream/4541
Upstream sequence
atacacaaaatacaggtaacatagatgtacattttaaataattataaaaagcataataatgaacacctataaccaatatccagtttatgcaatggaacat
Downstream sequence
taccactaactttctttttttttttttttgagacggagtctcgctctgtcgcccaggctggagtgcagtggcgcaatctcagctcactgcaagctccgcc
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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