Basic Information
VIS ID
TVIS44014930
Fusion event
HTLV-1-LHX6 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
chr9
Cytoband
q33.2
Reference genome
GRCh37/hg19
Start
124975447/122213168 (Hg38)
End
124975447/122213168 (Hg38)
Orient
+
Location type
Intronic
Target gene
LHX6
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-218-1-3p ; hsa-mir-8069 ; hsa-mir-1273f ; hsa-mir-5690 ; hsa-mir-3919 ; hsa-mir-4756-3p ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-218-2-3p ; hsa-mir-2392 ; hsa-mir-3134 ; hsa-mir-4690-5p ; hsa-mir-4711-3p ; hsa-mir-4764-5p ; hsa-mir-6077 ; hsa-mir-6165 ; hsa-mir-6510-5p ; hsa-mir-7-5p
Nearest miRNA
hsa-let-7a-1/Upstream/93001; hsa-mir-12126/Downstream/898378;
Nearest TSS
ENST00000422679/Upstream/43507; ENST00000441707/Downstream/725;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/53277, chr9-CpG: 106/Downstream/306
Nearest cancer related gene
LHX6(TSG, No orient, 0)
Upstream sequence
TGGGCCAGGGCCTGCGTGCATTCCGTTCCCCCACTCCAGGTACCTCACTAAATCCTATCCATCCTTTCAGTCTCTGCTTGCTGAAAGGCAGCCCAGCCCC
Downstream sequence
TTCCCTTCcaccccgcagcatctccagtcactcctacccagcacctttcctacaggaatcatcccacttaaaacgacacactcatctgcctatttttcca
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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