Basic Information
VIS ID
TVIS44012418
Fusion event
HTLV-1-PDGFC 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
chr4
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
157813782/156892630 (Hg38)
End
157813782/156892630 (Hg38)
Orient
+
Location type
Intronic
Target gene
PDGFC
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-124-3p ; hsa-mir-7-5p ; hsa-mir-615-3p ; hsa-mir-29b-3p ; hsa-mir-4455 ; hsa-mir-574-5p ; hsa-mir-6867-5p
Nearest miRNA
hsa-mir-12113/Upstream/4356114; hsa-mir-1305/Downstream/2236172;
Nearest TSS
ENST00000502981/Upstream/18658; ENST00000515642/Downstream/78273;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/938699, chr4-CpG: 72/Downstream/78914
Upstream sequence
TGCTGTCCTAATCTTTGATGAATGGTGAAATGGAAATCCAAAAAAAGGATATAAAAATCCCAAAGGATTATTATGGTGGGAAAAGTTAGAGAAAACAAAA
Downstream sequence
CTATAAACatataataaatttaaaataaataGAAACTTAAACATGCCTTACTAGAGGAATTCCATAAAAGAACCATTCAGGCAAAGGATTTTGGTTGGAT
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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