Basic Information
VIS ID
TVIS44006660
Fusion event
HTLV-1-CDS2 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
chr20
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
5133690/5153044 (Hg38)
End
5133690/5153044 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDS2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-484 ; hsa-mir-320a ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-432-3p ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-4517 ; hsa-mir-494-3p ; hsa-mir-3662 ; hsa-mir-3137 ; hsa-mir-1227-3p ; hsa-mir-2355-3p ; hsa-mir-676-3p ; hsa-mir-6749-3p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-627-3p ; hsa-mir-150-5p ; hsa-mir-6832-3p ; hsa-mir-1296-3p ; hsa-mir-198 ; hsa-mir-4795-5p ; hsa-mir-520a-5p ; hsa-mir-525-5p ; hsa-mir-615-5p ; hsa-mir-6742-5p ; hsa-mir-7704
Nearest miRNA
hsa-mir-103a-2/Upstream/1235473; hsa-mir-1-1/Downstream/2218564;
Nearest TSS
ENST00000382410/Upstream/25996; ENST00000379070/Downstream/23058;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/25604, chr20-CpG: 17/Downstream/149145
Upstream sequence
TGTTGCTTTGTGTTTTAGGTTCTCATCTGTAAAAGGTCAGCAATACTATATCTCCTGTCCCTCCTGTTTTGTCCCACAATAATAGCCGGCTTTTGTGTAG
Downstream sequence
TTTAGTTTACAATATTTTGTCTGGATTGTCTTGGGGCCTTTGGGGCTAGttttgaactttgatccacaggagtaaatacaacttacagtgtgtcccaata
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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