Basic Information
VIS ID
TVIS30003463
Fusion event
HIV-NUP210 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
chr3
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
13459298/13417798 (Hg38)
End
13459298/13417798 (Hg38)
Orient
+
Location type
Intronic
Target gene
NUP210
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-1229-3p ; hsa-mir-296-3p ; hsa-mir-18a-3p ; hsa-mir-423-3p ; hsa-mir-15b-5p ; hsa-mir-221-3p ; hsa-mir-92a-3p ; hsa-mir-2113 ; hsa-mir-218-5p ; hsa-mir-6844 ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-561-5p ; hsa-mir-6882-3p ; hsa-mir-8077 ; hsa-mir-7160-5p ; hsa-mir-4663 ; hsa-mir-1286 ; hsa-mir-1827 ; hsa-mir-3117-5p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-4649-3p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-5000-3p ; hsa-mir-4436a ; hsa-mir-6830-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-1197 ; hsa-mir-6757-3p ; hsa-mir-8080 ; hsa-mir-193a-5p
Nearest miRNA
hsa-mir-12127/Upstream/3023236; hsa-let-7g/Downstream/2078441;
Nearest TSS
ENST00000440867/Upstream/63104; ENST00000418189/Downstream/2511;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/134369, chr3-CpG: 140/Downstream/1672
Upstream sequence
TTTCCAAACACCTCTGAGAAGACACTTTGAATAGCAGTCACACATCTGCAGTCACACATCTGCAATACAAACTACAGATCAACGCCAAACACGTTATAAG
Downstream sequence
GTACTTAGCACTTCTCTGATGCATCAGAGATTAAGAATGTTTTTTCCCTTTTTCCTACCAAGTAAATTAAAATCCACCAACACCCTTCAGCTCCTCTCAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate