Basic Information
VIS ID
TVIS44012515
Fusion event
HTLV-1-RCAN2 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
chr6
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
46293130/46325393 (Hg38)
End
46293130/46325393 (Hg38)
Orient
-
Location type
Exonic
Target gene
RCAN2
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-4482-3p ; hsa-mir-548aw ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-138-2-3p ; hsa-mir-1284 ; hsa-mir-205-3p ; hsa-mir-3168 ; hsa-mir-4666a-3p ; hsa-mir-5580-3p ; hsa-mir-338-5p ; hsa-mir-148a-5p ; hsa-mir-561-3p ; hsa-mir-548at-5p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-485-3p ; hsa-mir-539-3p ; hsa-mir-340-5p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-6777-3p ; hsa-mir-513b-3p
Nearest miRNA
hsa-mir-10398/Upstream/1127623; hsa-mir-10524/Downstream/5818956;
Nearest TSS
ENST00000381078/Upstream/154422; ENST00000415787/Downstream/275;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/195177, chr6-CpG: 58/Downstream/165748
Upstream sequence
GAAAACTATTAACCAAAGTCTTATTTCTTCATGCTAAAAAGGCTCTGCCAAGCAGCGTCAGTAACAGCAACAATGAAAAATAAGATTGCAGGTGCATACC
Downstream sequence
TTAACCTCCTGATTGGTAAAGACCTCGACATCCACCACACAGGCAACCAGAGTGGAAACATCACAGTCCATGCTAGGGGCTGGCATTCCCCCTTCTGAAT
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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