Basic Information
VIS ID
TVIS30003144
Fusion event
HIV-NRXN1 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
chr2
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
50689147/50462009 (Hg38)
End
50689147/50462009 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
NRXN1
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-16-5p ; hsa-mir-616-5p ; hsa-mir-498 ; hsa-mir-1537-5p ; hsa-mir-302a-5p ; hsa-mir-3607-3p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-574-5p ; hsa-mir-4752 ; hsa-mir-6867-5p ; hsa-mir-8056 ; hsa-mir-3691-5p ; hsa-mir-376c-5p ; hsa-mir-376b-5p ; hsa-mir-7114-5p ; hsa-mir-6818-5p ; hsa-mir-4320
Nearest miRNA
hsa-mir-1301/Upstream/1402351; hsa-mir-10b/Downstream/234163;
Nearest TSS
ENST00000437798/Upstream/29685; ENST00000634985/Downstream/3483;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/114330, chr2-CpG: 96/Downstream/565468
Upstream sequence
CAATGGTGAGGAAATTGGAAAGTGTAATGTTGTTCAGAAAGCTGTAAGTAAATTGGCAGTAATATGCCATATGGACAAGGTTCTGCAACAGATAAGTATG
Downstream sequence
AACATGAAGGCTGGGGTCAGACCATTGAGGTCCACGAATTCCACATTGACTAACTTGGAGAGTAGTATTGGACACTGAGGATATATTTGAAATTCTTCTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate