Basic Information
VIS ID
TVIS30000299
Fusion event
HIV-NUDCD3 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
chr7
Cytoband
p13
Reference genome
GRCh37/hg19
Start
44460746/44421147 (Hg38)
End
44460746/44421147 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7D
Target gene
NUDCD3
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-324-3p ; hsa-mir-149-5p ; hsa-mir-92a-3p ; hsa-mir-1225-3p ; hsa-mir-5695 ; hsa-mir-3943 ; hsa-mir-6888-3p ; hsa-mir-3120-5p ; hsa-mir-371a-5p ; hsa-mir-3613-3p ; hsa-mir-3664-5p ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-3662 ; hsa-mir-1251-3p ; hsa-mir-208a-5p ; hsa-mir-208b-5p ; hsa-mir-28-5p ; hsa-mir-3139 ; hsa-mir-4487 ; hsa-mir-6128 ; hsa-mir-6505-5p ; hsa-mir-6516-5p ; hsa-mir-708-5p
Nearest miRNA
hsa-mir-1183/Upstream/310235; hsa-mir-10399/Downstream/460601;
Nearest TSS
ENST00000635602/Upstream/18224; ENST00000419661/Downstream/4803;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/95429, chr7-CpG: 73/Downstream/68964
Upstream sequence
gatgggccaggagtggtggctcacacctgtaatcccagagctttgggaggccaaggtgggtggatcacgaggtcaggagttcgagaccagtctggccaat
Downstream sequence
atggtgaagacaggggtctctactaaaaatacaaaaattagctgggcatggtggcgtgcacctgtagtcccagctacatgggaggctgaggcaggagaat
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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