Basic Information
VIS ID
TVIS44012535
Fusion event
HTLV-1-GFRA1 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
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
118021190/116261678 (Hg38)
End
118021190/116261678 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
GFRA1
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-7-5p ; hsa-mir-139-3p ; hsa-mir-6820-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-483-5p ; hsa-mir-574-5p ; hsa-mir-6818-5p ; hsa-mir-6867-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-892c-3p ; hsa-mir-4676-3p ; hsa-mir-452-5p ; hsa-mir-548g-3p ; hsa-mir-4738-3p ; hsa-mir-7154-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-942-5p ; hsa-mir-1248 ; hsa-mir-147a ; hsa-mir-3925-5p ; hsa-mir-4289 ; hsa-mir-589-5p
Nearest miRNA
hsa-mir-107/Upstream/2087499; hsa-mir-202/Downstream/565810;
Nearest TSS
ENST00000439456/Upstream/352327; ENST00000463594/Downstream/10604;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/136160, chr10-CpG: 289/Downstream/9389
Upstream sequence
AATAAGATGCCTTAAATACATTCTAGTTCAAAGTAAGGTATACATTGAATAAATCATACTTTATAAAGGTTATGAACATGAAAGACATATGCCAAGATCA
Downstream sequence
CAAGTTTCCTTGGCATGAATAAAATGCTAGAAAGAAAAATAGTTGCTGAATAACTATGTAAGATTCAATATACGGGCCCTTCAAAAAGGAAGGAAAATat
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