Basic Information
VIS ID
TVIS30010695
Fusion event
HIV-NSFL1C 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
1439105/1458460 (Hg38)
End
1439105/1458460 (Hg38)
Orient
-
Location type
Intronic
Target gene
NSFL1C
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-142-3p ; hsa-mir-146b-5p ; hsa-mir-484 ; hsa-mir-320a ; hsa-mir-92a-3p ; hsa-mir-3679-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-6826-3p ; hsa-mir-452-3p ; hsa-mir-3925-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-4667-3p ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-4650-5p ; hsa-mir-466 ; hsa-mir-130b-5p ; hsa-mir-4643 ; hsa-mir-4789-3p
Nearest miRNA
hsa-mir-6869/Upstream/65499; hsa-mir-1-1/Downstream/1194317;
Nearest TSS
ENST00000382410/Upstream/1370; ENST00000437384/Downstream/8362;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/132550, chr20-CpG: 103/Downstream/7831
Upstream sequence
TGAGGTTACATTTTTGGTAGGCGAGAGGAGGACGTTATGTGGAGAAAGGTTAATCCCCTAAGATTACACATAAAATAATGTGGCATTTATTTTTTCAAGA
Downstream sequence
TCACACAGATTGAGTATAAATTAGAAAGTCCTATCATGAGGTAAAATGGAATCCCAATTTAAGCTGCCCTGGCTTTAATAAAAACTAGAAAGTATTTATT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate