Basic Information
VIS ID
TVIS44012114
Fusion event
HTLV-1-TOM1 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
chr22
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
35728090/35332097 (Hg38)
End
35728090/35332097 (Hg38)
Orient
+
Location type
Intronic
Target gene
TOM1
miRNAs that regulate target gene
hsa-mir-126-3p ; hsa-mir-30a-5p ; hsa-mir-222-3p ; hsa-mir-150-5p ; hsa-mir-34a-5p ; hsa-mir-1227-5p ; hsa-mir-7843-3p ; hsa-mir-3151-5p ; hsa-mir-128-2-5p ; hsa-mir-128-1-5p ; hsa-mir-6845-5p ; hsa-mir-6762-5p ; hsa-mir-296-5p ; hsa-mir-874-5p ; hsa-mir-324-5p ; hsa-mir-4786-3p ; hsa-mir-345-3p ; hsa-mir-331-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-338-3p ; hsa-mir-6729-3p ; hsa-mir-1296-3p ; hsa-mir-214-5p ; hsa-mir-3194-5p ; hsa-mir-6748-3p ; hsa-mir-6849-3p ; hsa-mir-6858-3p
Nearest miRNA
hsa-mir-1286/Upstream/1895428; hsa-let-7a-3/Downstream/3543;
Nearest TSS
ENST00000624155/Upstream/8229; ENST00000492723/Downstream/12089;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/31980, chr22-CpG: 38/Downstream/48872
Upstream sequence
catgaaacagtgtctgtaaagcgcttagcaGTCCAGGGTGTCTGATAACTGACATGAGTTATTCCAGCCTCCTCCAGCCCCTTGTTCATTTTTTGTGTCT
Downstream sequence
TTCTCCATCAAAAGACACTCACTGATTGATTCTAAATCAGTGGAAAGTGGGGGGTACCCTGCAGGTCACGTCTGCCTAGCTTCTCCTGCTCGTTGGCCCA
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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