Basic Information
VIS ID
TVIS44008807
Fusion event
HTLV-1-LHFPL6 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
39923983/39349846 (Hg38)
End
39923983/39349846 (Hg38)
Orient
-
Location type
Intronic
Target gene
LHFPL6
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-let-7g-3p ; hsa-mir-493-5p ; hsa-let-7a-2-3p ; hsa-let-7c-3p ; hsa-mir-6867-5p ; hsa-mir-3613-5p ; hsa-mir-323a-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-3149 ; hsa-mir-3668 ; hsa-mir-376a-2-5p ; hsa-mir-3935 ; hsa-mir-568 ; hsa-mir-7852-3p ; hsa-mir-8068
Nearest miRNA
hsa-mir-2276/Upstream/15187342; hsa-mir-1267/Downstream/314188;
Nearest TSS
ENST00000623511/Upstream/296774; ENST00000630730/Downstream/253325;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/311053, chr13-CpG: 75/Downstream/252866
Upstream sequence
gatctaagccaagacctgcagatgttcaggagtgagccaagcgtgaatgtggggggccagggaacagtatgcttggagtgaggggatgggaaatataatg
Downstream sequence
gagaaatgcagacagatttgggtcttgctaaagtattgctcaagtaagagatggaTCCCATTTTGGGTGTAAAGCAAGGGATGGGTTTGGGTATGACCAC
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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