Basic Information
VIS ID
TVIS44005180
Fusion event
HTLV-1-ABCD2 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
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
39956208/39562406 (Hg38)
End
39956208/39562406 (Hg38)
Orient
+
Location type
Intronic
Target gene
ABCD2
miRNAs that regulate target gene
hsa-mir-411-5p ; hsa-mir-3117-3p ; hsa-mir-3607-3p ; hsa-mir-1208 ; hsa-mir-8083 ; hsa-mir-3169 ; hsa-mir-4759 ; hsa-mir-4276 ; hsa-mir-1257 ; hsa-mir-15b-3p ; hsa-mir-5187-3p ; hsa-mir-5190 ; hsa-mir-4699-3p ; hsa-mir-5094 ; hsa-mir-4724-5p ; hsa-mir-4671-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301a-3p ; hsa-mir-301b-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4267 ; hsa-mir-5586-5p ; hsa-mir-605-5p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-3074-5p ; hsa-mir-627-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-5003-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/13688327; hsa-let-7i/Downstream/2761294;
Nearest TSS
ENST00000382841/Upstream/119016; ENST00000405531/Downstream/57345;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/118709, chr12-CpG: 108/Downstream/542754
Upstream sequence
caaaactagtaaaagaaaggaaataatatacatcagagtggaaacaaataaaatagagcctggaaaaacaacataaaatatcagcaaaaatgaataattg
Downstream sequence
attttttcaaagataaccaaatttgacaaatgtttatctagaataagaaaaaagaaagaagattcaaataaataaattcagagattaaaaaagagaaatt
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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