Basic Information
VIS ID
TVIS44008097
Fusion event
HTLV-1-RTN4 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
55280262/55053126 (Hg38)
End
55280262/55053126 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
RTN4
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-16-5p ; hsa-mir-148b-3p ; hsa-mir-132-3p ; hsa-mir-183-5p ; hsa-mir-34a-5p ; hsa-mir-101-3p ; hsa-mir-33a-5p ; hsa-mir-320a ; hsa-mir-30c-5p ; hsa-mir-3148 ; hsa-mir-4330 ; hsa-mir-4496 ; hsa-mir-605-5p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-1272 ; hsa-mir-646 ; hsa-mir-376c-3p ; hsa-mir-4643 ; hsa-mir-338-5p ; hsa-mir-4662b ; hsa-mir-4647 ; hsa-mir-4426 ; hsa-mir-497-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-6838-5p ; hsa-mir-424-5p ; hsa-mir-15a-5p ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-1301/Upstream/1203921; hsa-mir-10b/Downstream/929841;
Nearest TSS
ENST00000437798/Upstream/2298; ENST00000463185/Downstream/59441;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/2218, chr2-CpG: 53/Downstream/170257
Nearby gene
RTN4(-2528) ;
Nearest cancer related gene
RTN4(TSG, No orient, 0)
Upstream sequence
TAGTAGATTTACAATTTTAATAGGAAATAGCAGTTAATATTGATGCAATAATATAAGCACTATCTGGTGCAGaataaaaataaattttattaatCTCAGT
Downstream sequence
GACTTCTAAAAAAATAAGTATTTGATAGATAGATGAGTAAAGAGTTTGCCCAGCTTTCATAGAATGATCAACAAAGCAAAAAGAAAGGAGGCTGTTGCTG
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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