Basic Information
VIS ID
TVIS44009663
Fusion event
HTLV-1-PGM3 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
chr6
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
83899947/83190228 (Hg38)
End
83899947/83190228 (Hg38)
Orient
-
Location type
Intronic
Target gene
PGM3
miRNAs that regulate target gene
hsa-mir-30b-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-let-7b-5p ; hsa-mir-455-3p ; hsa-mir-125a-5p ; hsa-mir-6509-5p ; hsa-mir-331-5p ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-3145-3p ; hsa-mir-8062 ; hsa-mir-126-5p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-4496 ; hsa-mir-944 ; hsa-mir-7844-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-340-5p ; hsa-mir-20a-3p ; hsa-mir-216b-5p ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-7703 ; hsa-mir-4252 ; hsa-mir-676-5p ; hsa-mir-4793-3p ; hsa-mir-3190-5p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-1273g-3p ; hsa-mir-483-3p ; hsa-mir-193b-3p ; hsa-mir-193a-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-500a-3p ; hsa-mir-767-5p ; hsa-mir-4275 ; hsa-mir-1282 ; hsa-mir-4714-3p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-mir-10398/Upstream/4650919; hsa-mir-1202/Downstream/7122514;
Nearest TSS
ENST00000381078/Upstream/1583; ENST00000369724/Downstream/3003;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/122246, chr6-CpG: 113/Downstream/2659
Upstream sequence
cacaaaacaaggtaactatgtgagctaatggatatgttaattagcctgatagtggtaatcatttcacaatgtatacatatatcaaaacatggtgttgtat
Downstream sequence
gacttgaattatacaatttttatttatcacttatacctcaataaagctgaaaaaaTAATTGTGTCAAAAAGAATACTTTGATTAAAATCTAACTGTCACA
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