Basic Information
VIS ID
TVIS44005052
Fusion event
HTLV-1-GPC6 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
chr13
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
94068348/93416095 (Hg38)
End
94068348/93416095 (Hg38)
Orient
+
Location type
Intronic
Target gene
GPC6
miRNAs that regulate target gene
hsa-mir-361-5p ; hsa-mir-1279 ; hsa-mir-483-5p ; hsa-mir-32-3p ; hsa-mir-7161-5p ; hsa-mir-548u
Nearest miRNA
hsa-mir-1297/Upstream/925875; hsa-mir-1267/Downstream/3011134;
Nearest TSS
ENST00000623511/Upstream/188778; ENST00000617456/Downstream/420049;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/187471, chr13-CpG: 59/Downstream/1133211
Upstream sequence
AGTTTTATATGGTTTAACCTAACAATTTAAGGCTTTGTGAAATTGTCAGGCAATTCATACATTGCCTCAGACTTACACCTTAATTTTGTGATTTGGCTTA
Downstream sequence
TGCAACTCTATTAGACTATTTTCAATTATATGTTTGCTTGAAAAATTGGTGTTATTGAGCACTTCTAAATCACTGGGTACTGTCTCCTTGCCTCTGTGGA
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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