Basic Information
VIS ID
TVIS44015480
Fusion event
HTLV-1-PRKD2 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
chr19
Cytoband
q13.32
Reference genome
GRCh37/hg19
Start
47218867/46715610 (Hg38)
End
47218867/46715610 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
PRKD2
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-744-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-422a ; hsa-mir-378h ; hsa-mir-378i ; hsa-mir-378f ; hsa-mir-378e ; hsa-mir-378d ; hsa-mir-378c ; hsa-mir-378b ; hsa-mir-378a-3p ; hsa-mir-4254 ; hsa-mir-3690 ; hsa-mir-3654 ; hsa-mir-3149 ; hsa-mir-4715-3p ; hsa-mir-411-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-4775 ; hsa-mir-1227-3p ; hsa-mir-4735-5p ; hsa-mir-6872-3p ; hsa-mir-455-5p ; hsa-mir-4438 ; hsa-mir-590-3p
Nearest miRNA
hsa-mir-10395/Upstream/6256; hsa-let-7e/Downstream/511332;
Nearest TSS
ENST00000633603/Upstream/1011; ENST00000600716/Downstream/634;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1312, chr19-CpG: 97/Downstream/567
Upstream sequence
CTTGCCATAACACCCAGCTGCCCACCCTGGGGACCCTGGTGTCCAAAATTAAGAGTAGGCTAACAGCACTGTGACTAGGAAAGGGAATAGAGTCCCCAGG
Downstream sequence
GTCTGTAGGAGTGCCTGCCCCTCCACACATATCTCAGGCTTAGGGGAGGGCAGAATTGGGCTCCGAGACCTCACTTGCCCCTGGCAGCTAACTCAAGCAC
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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