Basic Information
VIS ID
TVIS30000205
Fusion event
HIV-EFCAB5 integration
Validated
No
Detection method
NG-SGS
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30024859
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
28336744/30009726 (Hg38)
End
28336744/30009726 (Hg38)
Orient
-
Location type
Intronic
Target gene
EFCAB5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1273e ; hsa-mir-6807-5p ; hsa-mir-561-5p ; hsa-mir-6894-5p ; hsa-mir-7106-5p ; hsa-mir-1233-3p ; hsa-mir-3922-5p ; hsa-mir-1225-3p
Nearest miRNA
hsa-mir-1180/Upstream/618996; hsa-mir-10226/Downstream/107353;
Nearest TSS
ENST00000595228/Upstream/40520; ENST00000584826/Downstream/22037;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/79336, chr17-CpG: 27/Downstream/107002
Upstream sequence
cactcatcagttggtggacatttcggttgttttcattttttggctactgtaaataataccactatgaacatttgtgcctaagtttttacatgaatatgtg
Downstream sequence
ttttctgttctcttgggagtggaattgttgggtcatgtgataactttgtgtttaaccttttgaggaactgccagattgttttcTTttcttttttttttgt
Reference
Sharaf, R., et al.HIV-1 proviral landscapes distinguish posttreatment controllers from noncontrollers. J Clin Invest,2018,128(9): 4074-4085.
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