Basic Information
VIS ID
TVIS44006958
Fusion event
HTLV-1-LDLRAD4 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
chr18
Cytoband
p11.21
Reference genome
GRCh37/hg19
Start
13500354/13500355 (Hg38)
End
13500354/13500355 (Hg38)
Orient
-
Location type
Intronic
Target gene
LDLRAD4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-3658 ; hsa-mir-7856-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-3972 ; hsa-mir-1202 ; hsa-mir-3194-5p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-6752-3p ; hsa-mir-4530 ; hsa-mir-3918 ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-2114-5p ; hsa-mir-7160-3p ; hsa-mir-6510-5p
Nearest miRNA
hsa-mir-3976/Upstream/40329; hsa-mir-1-2/Downstream/110759;
Nearest TSS
ENST00000575820/Upstream/29532; ENST00000587440/Downstream/934;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/634, chr18-CpG: 84/Downstream/141230
Upstream sequence
GTCTTGTGACTTCCCACAGCAGGCACATTGCGTCGTCTCTCAAAGTCCCTCCTCTGGAGCGCCTCCTCTGCCCGTGGGGCTGTGCGGGACAGTGGCCGCG
Downstream sequence
TCTCTGTCTCATTGCAGGACAGCACTGGGTCTTAGGTGCTTTTTCATGTTGTCCACACCTAACGCTGCTGCTCCCCGGGGCCCAGTTTTGAAACTGCCCT
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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