Basic Information
VIS ID
TVIS44010540
Fusion event
HTLV-1-PRDM2 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
chr1
Cytoband
p36.21
Reference genome
GRCh37/hg19
Start
14117448/13790953 (Hg38)
End
14117448/13790953 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
PRDM2
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-541-5p ; hsa-mir-7154-5p ; hsa-mir-203b-3p ; hsa-mir-6854-5p ; hsa-mir-488-3p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-8065 ; hsa-mir-3656 ; hsa-mir-6730-5p ; hsa-mir-5681a ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-4668-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-605-5p ; hsa-mir-4668-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-12136/Upstream/1211930; hsa-mir-101-1/Downstream/3067996;
Nearest TSS
ENST00000473358/Upstream/19227; ENST00000636564/Downstream/101839;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/40990, chr1-CpG: 41/Downstream/101902
Nearest cancer related gene
PRDM2(TSG, No orient, 0)
Upstream sequence
GCTTCCTCTGAGTGGTGGTGGAAATGATCTGAGAAGCTTTAGGGTGGATTCAGTCTGGCTTTCCaatgcctgctgtttgctgggtactctgctgagcatc
Downstream sequence
tacaagtcttggcaatgacagcctgaggttggtgtcatttaccgatggagaaacagatttggggaaagtgattttgttccaagggcacacaactctaagg
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.
Curate