Basic Information
VIS ID
TVIS44013786
Fusion event
HTLV-1-NRXN1 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr2
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
50642316/50415178 (Hg38)
End
50642316/50415178 (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/1355520; hsa-mir-10b/Downstream/280994;
Nearest TSS
ENST00000437798/Upstream/67382; ENST00000634985/Downstream/2077;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/67499, chr2-CpG: 96/Downstream/612299
Upstream sequence
TGACAAAAACTGTGGAATGGTACATAGGAAGGACTTCATAGAAGCAGGGAGTAGGCAATGAGTTTTAGTGCTTTTAAAATTGAAAAAAGAAGATAATCAT
Downstream sequence
TACTAACTGAAGGTCTTTCTATAAAATAAAAATAACAAGGTAGTTCACATTAAATACATTAAATTACAGTTAAAGTTATTTTTAACTCCACAGATTAATG
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
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