Basic Information
VIS ID
TVIS30006003
Fusion event
HIV-NECTIN1 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
119520390/119649680 (Hg38)
End
119520390/119649680 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
NECTIN1
miRNAs that regulate target gene
hsa-mir-661 ; hsa-mir-615-3p ; hsa-mir-199a-5p ; hsa-mir-1324 ; hsa-mir-1343-5p ; hsa-mir-149-3p ; hsa-mir-185-3p ; hsa-mir-3150a-3p ; hsa-mir-3175 ; hsa-mir-3184-5p ; hsa-mir-423-5p ; hsa-mir-4492 ; hsa-mir-4498 ; hsa-mir-4505 ; hsa-mir-4667-5p ; hsa-mir-4700-5p ; hsa-mir-4706 ; hsa-mir-4728-5p ; hsa-mir-4731-5p ; hsa-mir-4749-5p ; hsa-mir-5001-5p ; hsa-mir-5787 ; hsa-mir-6085 ; hsa-mir-6763-5p ; hsa-mir-6777-5p ; hsa-mir-6779-5p ; hsa-mir-6785-5p ; hsa-mir-6813-5p ; hsa-mir-6825-5p ; hsa-mir-6858-5p ; hsa-mir-6883-5p ; hsa-mir-6889-5p ; hsa-mir-7106-5p ; hsa-mir-744-5p ; hsa-mir-762 ; hsa-mir-765 ; hsa-mir-8089 ; hsa-mir-939-5p
Nearest miRNA
hsa-mir-10392/Upstream/336668; hsa-let-7a-2/Downstream/2450077;
Nearest TSS
ENST00000527297/Upstream/11480; ENST00000529229/Downstream/25989;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/64289, chr11-CpG: 38/Downstream/15169
Upstream sequence
ttgggaggccgagacaggagaattgcttgaaccctggaggcggaggttgcagtgagccaagatcgcaccaccgcactccagcctgggtgacagggtgaga
Downstream sequence
ctccgtctccaaaaaaaagaggaaTGTTACCAGGAAAATAAGAAAAACAGGAAATATAAAAACACGGGAATGGCAGAGTTTCTGGAGCACCTATTTCTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate