Basic Information
VIS ID
TVIS44010963
Fusion event
HTLV-1-GPC5 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
93398314/92746061 (Hg38)
End
93398314/92746061 (Hg38)
Orient
-
Location type
Intronic
Target gene
GPC5
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-20a-3p ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-6868-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-3124-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6809-3p ; hsa-mir-1238-3p ; hsa-mir-4753-3p ; hsa-mir-670-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-4637 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-297
Nearest miRNA
hsa-mir-1297/Upstream/255841; hsa-mir-1267/Downstream/3681168;
Nearest TSS
ENST00000623511/Upstream/24447; ENST00000618283/Downstream/120221;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/1346599, chr13-CpG: 139/Downstream/480931
Nearest cancer related gene
GPC5(TSG, No orient, 0)
Upstream sequence
TAAAGGTTTCTAAAGGAAAATTTACTCATGAACACAAGCCTTCAGAAAACACATTTAATCAATTAGCTATATCTAATCAGTTGTTTTTGTGAATCCCACA
Downstream sequence
TTCTTGAATATTCATTTTAACCAGTCCAACAAAACCTGTAAGATTGGGCCCCATCCTGTCGTCTAGTCATTCCCTCAAAATGGAGTATTCAGCTGTACAT
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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