Basic Information
VIS ID
TVIS30011355
Fusion event
HIV-HMCN1 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
q31.1
Reference genome
GRCh37/hg19
Start
185884340/185915208 (Hg38)
End
185884340/185915208 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1K
Target gene
HMCN1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1299 ; hsa-mir-6848-5p ; hsa-mir-6846-5p ; hsa-mir-3202 ; hsa-mir-4533 ; hsa-mir-3179 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-6805-5p
Nearest miRNA
hsa-mir-101-1/Upstream/5476818; hsa-mir-1182/Downstream/6801120;
Nearest TSS
ENST00000473358/Upstream/180657; ENST00000493413/Downstream/41861;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/597974, chr1-CpG: 69/Downstream/459784
Upstream sequence
AGCAGAGATAAAGAGTCAACTCATTTGTATAATTCACATAAGTACTCAAATATTTTAGGTTTCCTCTGATGCAGGTAAAGCATGTTAAAAAGAAGTAACT
Downstream sequence
GGAAATAACATAAAGTTTTATTAAAAACAGAAGAGAAGATTGTTTTATGCTCCTAAATTTCCATTTGTAGGAAAGCTACAGATCATGGATCTTATTTCTG
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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