Basic Information
VIS ID
TVIS44014504
Fusion event
HTLV-1-KCNK1 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
chr1
Cytoband
q42.2
Reference genome
GRCh37/hg19
Start
233802919/233667173 (Hg38)
End
233802919/233667173 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
KCNK1
miRNAs that regulate target gene
hsa-mir-340-5p ; hsa-mir-124-3p ; hsa-mir-33a-5p ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-4759 ; hsa-mir-3924 ; hsa-mir-3941 ; hsa-mir-5580-3p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-6074 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-4666a-5p ; hsa-mir-6716-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-3152-5p ; hsa-mir-6836-3p ; hsa-mir-342-3p ; hsa-mir-377-3p
Nearest miRNA
hsa-mir-101-1/Upstream/42954; hsa-mir-1537/Downstream/639294;
Nearest TSS
ENST00000473358/Upstream/11478; ENST00000366617/Downstream/237760;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/52369, chr1-CpG: 118/Downstream/237534
Upstream sequence
cactctgttgcccaggctggagtgcagtggtgcgatcttggctcactgcaacctccgccttccgggttcaagggattctctgcatcagccttccaagtag
Downstream sequence
ctgggcttacaggcTTCTGTCTCTATTTTGCCATTGCAAGCTCCACTTCACCTCTCAATGAGGGGTCATTCATAAAAGCACTGATTGCTTTCTTCTCATT
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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