Basic Information
VIS ID
TVIS44010034
Fusion event
HTLV-1-VCAN 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
chr5
Cytoband
q14.3
Reference genome
GRCh37/hg19
Start
82874993/83579174 (Hg38)
End
82874993/83579174 (Hg38)
Orient
-
Location type
Intronic
Target gene
VCAN
miRNAs that regulate target gene
hsa-mir-545-3p ; hsa-mir-5197-3p ; hsa-mir-103a-3p ; hsa-mir-107 ; hsa-mir-218-5p ; hsa-mir-578 ; hsa-mir-3185 ; hsa-mir-643 ; hsa-mir-335-3p ; hsa-mir-4436b-5p ; hsa-mir-627-3p ; hsa-mir-6777-3p ; hsa-mir-5003-3p ; hsa-mir-23b-3p ; hsa-mir-129-5p ; hsa-mir-302c-5p ; hsa-mir-361-3p ; hsa-mir-3680-3p ; hsa-mir-450b-5p ; hsa-mir-4666b ; hsa-mir-5011-3p ; hsa-mir-507 ; hsa-mir-552-5p ; hsa-mir-557
Nearest miRNA
hsa-mir-10397/Upstream/738950; hsa-mir-103a-1/Downstream/3535705;
Nearest TSS
ENST00000502646/Upstream/16860; ENST00000507060/Downstream/2146;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/104394, chr5-CpG: 59/Downstream/142901
Upstream sequence
TTTATGAAACTCAGGCATGAATATTATGGTCTCTTTTTCTTGTCTCAATACAGAAGACAAAAAAGAGCAAATAAATATAAATGGAACCAAAAGATATTTG
Downstream sequence
TATTTAGGAGACTTTGTCCATATTTCAAAACTATGATGTTATTGTAGATTGTAAGgttttttgtttgtttgtttgtttgtttgttttgttttgttttgtt
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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