Basic Information
VIS ID
TVIS30003142
Fusion event
HIV-EML4 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
chr2
Cytoband
p21
Reference genome
GRCh37/hg19
Start
42461294/42234154 (Hg38)
End
42461294/42234154 (Hg38)
Orient
+
Location type
Intronic
Target gene
EML4
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-30b-5p ; hsa-mir-16-5p ; hsa-mir-877-3p ; hsa-mir-652-3p ; hsa-mir-148b-3p ; hsa-mir-651-3p ; hsa-mir-551b-5p ; hsa-mir-548c-3p ; hsa-let-7f-2-3p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30e-5p ; hsa-mir-1185-2-3p ; hsa-mir-1185-1-3p ; hsa-mir-142-3p ; hsa-mir-552-5p ; hsa-mir-302c-5p ; hsa-mir-5683 ; hsa-mir-212-3p ; hsa-mir-132-3p ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-587 ; hsa-mir-377-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1301/Upstream/6762668; hsa-mir-10b/Downstream/5143521;
Nearest TSS
ENST00000437798/Upstream/63853; ENST00000480320/Downstream/48755;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/64361, chr2-CpG: 61/Downstream/126778
Nearest cancer related gene
EML4(OG, No orient, 0)
Upstream sequence
TAGCCACTCCTCAAAGCAGCCCAGGTTTTTTGTCTGTATCCTGCCTGCTTTTGCCTGTGTGTTGTGTGCTCACTGTCCTTCAGTTTGTCCCCTTTTATAA
Downstream sequence
AATAGAACACTTTCTTTAGTTCAGAGAGCAAAAGGGCAGGAGAAGAGCTATCTTAAGTTTTATTTTTGCCAACATAGAAGTAGTTTGTGTGGTAGGCCAT
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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