Basic Information
VIS ID
TVIS44010380
Fusion event
HTLV-1-HLCS 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
chr21
Cytoband
q22.13
Reference genome
GRCh37/hg19
Start
38344830/36972530 (Hg38)
End
38344830/36972530 (Hg38)
Orient
-
Location type
Intronic
Target gene
HLCS
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-6749-3p ; hsa-mir-203b-3p ; hsa-mir-642a-5p ; hsa-mir-4539 ; hsa-mir-146a-3p ; hsa-mir-4469 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-5196-3p ; hsa-mir-8485 ; hsa-mir-4767 ; hsa-mir-6870-3p ; hsa-mir-5193 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-1224-3p ; hsa-mir-3691-3p ; hsa-mir-1306-5p ; hsa-mir-587 ; hsa-mir-6836-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-6747-3p ; hsa-mir-6832-3p ; hsa-mir-3620-3p ; hsa-mir-6752-3p
Nearest miRNA
hsa-let-7c/Upstream/1251722; hsa-mir-3197/Downstream/2474480;
Nearest TSS
ENST00000624081/Upstream/5891; ENST00000485272/Downstream/8098;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/5532, chr21-CpG: 30/Downstream/8026
Upstream sequence
tgtgtcgtgcctggccTCACCCTCCTTGAGATTTCAGAATTGTTGACAGAATGACAATAAGTAGGATTCACTGTCTCCTTAAAGACTGAGGAAAGAAACC
Downstream sequence
CAGTGAAACCTCTGATGGACAATGGCCTCAGTTAACTAGGACAGTAACTGTACAGTATCCATCTCCTAATCCAGTAAAACTGAGTTACATATAGAAAGGC
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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