Basic Information
VIS ID
TVIS30015357
Fusion event
HIV-NLRC5 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr16
Cytoband
q13
Reference genome
GRCh37/hg19
Start
57030648/56996736 (Hg38)
End
57030480/56996736 (Hg38)
Orient
-
Location type
Intronic
Target gene
NLRC5
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-216b-5p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-452-3p ; hsa-mir-6504-5p ; hsa-mir-4736 ; hsa-mir-3064-5p ; hsa-mir-664a-5p ; hsa-mir-4794 ; hsa-mir-17-3p ; hsa-mir-1205 ; hsa-mir-1184 ; hsa-mir-3158-5p ; hsa-mir-4692 ; hsa-mir-4514 ; hsa-mir-3126-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-149-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-1225/Upstream/92383; hsa-mir-11401/Downstream/775553;
Nearest TSS
ENST00000527434/Upstream/7142; ENST00000538059/Downstream/7117;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/6880, chr16-CpG: 133/Downstream/95396
Upstream sequence
TTTTGGAAATTATACACTTACCCCTAGAGGGTGAGTTTGTGGGGGAAATTTCATAATGTATACTTCCAGAATATTTAGAACTTTCCAAATGAGTACAGGT
Downstream sequence
TATGTTCGTAAACAGGAAAAATAATAAAGACATAATAAAATGATAATTTAGTTTTAAAAGACGACCATTTGTTGAAAGCAGTATTATATTTCAGTTAGGA
Target sequence
AAAGCTTTAAGGAAATGGTGTTCTGGCTTTCAGATAAGTCAAAAAAAATCTCAAACATGAGTAAAGAGTTTTGGAAATTATACACTTACCCCTAGAGGGTGAGTTTGTGGGGGAAATTTCATAATGTATACTTCCAGAATATTTAGAACTTTCCAAATGAGTACAGGT
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate