Basic Information
VIS ID
TVIS44006782
Fusion event
HTLV-1-ARHGEF12 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
120335399/120464690 (Hg38)
End
120335399/120464690 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
ARHGEF12
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-1225-3p ; hsa-mir-30c-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-1250-3p ; hsa-mir-660-5p ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-10392/Upstream/1151678; hsa-let-7a-2/Downstream/1635067;
Nearest TSS
ENST00000527297/Upstream/2141; ENST00000528681/Downstream/11285;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/127750, chr11-CpG: 126/Downstream/46478
Nearest cancer related gene
ARHGEF12(TSG, No orient, 0)
Upstream sequence
aatgaaaaTTTAGTCTCAGTCTTCAGGCATTTTGTATCTTATATTCTCCAAATGTCAGCTTGTCTGTGTAATTTATAAGTAACGTAGGCTGAAAGGTAAT
Downstream sequence
AGGTTGTGATAGGCTACAAGCAAGAAAACATTGGgactgggcacagtggctcacgcctgtaatcccagcactttggggacaccaaggtgggcagatcacc
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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