Basic Information
VIS ID
TVIS44013299
Fusion event
HTLV-1-HMGCLL1 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
chr6
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
55325721/55460923 (Hg38)
End
55325721/55460923 (Hg38)
Orient
-
Location type
Intronic
Target gene
HMGCLL1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4635 ; hsa-mir-5585-3p ; hsa-mir-6772-3p ; hsa-mir-670-5p ; hsa-mir-4448 ; hsa-mir-4268 ; hsa-mir-1976 ; hsa-mir-6870-3p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-4319 ; hsa-mir-125b-5p ; hsa-mir-125a-5p ; hsa-mir-4732-3p ; hsa-mir-345-3p ; hsa-mir-6729-3p
Nearest miRNA
hsa-mir-10398/Upstream/2183852; hsa-mir-10524/Downstream/1929209;
Nearest TSS
ENST00000381078/Upstream/21195; ENST00000426453/Downstream/118150;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/286329, chr6-CpG: 36/Downstream/118011
Upstream sequence
TATTTTTTAACCCAGCAATTTTTGAAATTTAGTATGACAGTAACTTTTAATGTCAACATTGCTTATTTATTGTTATAACACTAGCAACAATGAAATATTT
Downstream sequence
AACCACGTAAAGTAAGAAATATCTAGGAGACATATAAAATATAAGACACAATATTTTTTCATGAAAAGCAACTTAATGTGTTTTATTAAGACTCTTTGCC
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.
Curate