Basic Information
VIS ID
TVIS44011701
Fusion event
HTLV-1-LRCH1 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
chr13
Cytoband
q14.13
Reference genome
GRCh37/hg19
Start
47127810/46553675 (Hg38)
End
47127810/46553675 (Hg38)
Orient
-
Location type
Exonic
Target gene
LRCH1
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-6884-3p ; hsa-mir-654-3p ; hsa-mir-5583-3p ; hsa-mir-4517
Nearest miRNA
hsa-mir-2276/Upstream/2357475; hsa-mir-1267/Downstream/3442740;
Nearest TSS
ENST00000623511/Upstream/415; ENST00000478412/Downstream/126161;
Nearest CpG islands
chr13-CpG: 148/Target, None/Upstream, None/Downstream
Upstream sequence
CCGGGGTCTGGAGCGCGCGCTTGAGGAGGCGGCCAACTCCGGGGGGCTGAACCTGAGCGCCAGGAAATTGAAGGAATTTCCCCGTACCGCAGCCCCCGGG
Downstream sequence
CACGACCTCTCGGACACGGTGCAGGCAGGTGAGTGAGGGCCGAGGGGCGGGCAGGGGTGTGGGTGCTGTCTGGGTGTCTGTCGTGCGTTCCCTAACGCGG
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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