Basic Information
VIS ID
TVIS44015290
Fusion event
HTLV-1-ATP2B1 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
q21.33
Reference genome
GRCh37/hg19
Start
90062543/89668766 (Hg38)
End
90062543/89668766 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12B
Target gene
ATP2B1
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-615-3p ; hsa-let-7a-5p ; hsa-mir-150-5p ; hsa-mir-4713-5p ; hsa-mir-6892-3p ; hsa-mir-6817-3p ; hsa-mir-6873-3p ; hsa-mir-7110-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-142-3p ; hsa-mir-4465 ; hsa-mir-498 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-5697 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-4282 ; hsa-mir-3606-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-483-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-519d-3p ; hsa-mir-181a-5p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-let-7i/Upstream/2923617; hsa-mir-1178/Downstream/4893023;
Nearest TSS
ENST00000382841/Upstream/12655; ENST00000605386/Downstream/40065;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/142639, chr12-CpG: 258/Downstream/38893
Nearby gene
ATP2B1(-12699) ;
Upstream sequence
CATCTAGCCTATAAACATTTCCCTTCTCACGAGGTTTTCAACAGATCATACATGTAGTAGACCAACAGAGGAGGTACTGATACTGACAGCTTCAGTATGG
Downstream sequence
GTGTCATGTCCCAAATCAGCATCCCTTCTCTCATCCATTTGTTCCAATATAGCTCTTAGATTTCCCATCTCCTTTTTTCTCTCTTTGGACAAGTTCCAAG
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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