Basic Information
VIS ID
TVIS44009620
Fusion event
HTLV-1-LMX1B 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
q33.3
Reference genome
GRCh37/hg19
Start
129408614/126646335 (Hg38)
End
129408614/126646335 (Hg38)
Orient
+
Location type
Intronic
Target gene
LMX1B
miRNAs that regulate target gene
hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-5591-3p ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-6734-3p ; hsa-mir-3918 ; hsa-mir-1224-3p ; hsa-mir-4512
Nearest miRNA
hsa-let-7a-1/Upstream/1952537; hsa-mir-12126/Downstream/1044352;
Nearest TSS
ENST00000422679/Upstream/31866; ENST00000450858/Downstream/158671;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/19383, chr9-CpG: 14/Downstream/25152
Nearest cancer related gene
LMX1B(OG, No orient, 0)
Upstream sequence
ATCTAAAAAAGCAGGAAGGTGTGCCTGATCCCTCCCACTCTCATTTGtccatccacctacctactcatccagccacctacctatccatccatctacctac
Downstream sequence
ccatccatccatctacctacccatccacccatctatccgcttatccgcctacctgtccatcaatctacccatccatccatccatccatccaGCCCTCCCT
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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