Basic Information
VIS ID
TVIS44007995
Fusion event
HTLV-1-chr1 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
chr1
Cytoband
p36.11
Reference genome
GRCh37/hg19
Start
24117454/23790964 (Hg38)
End
24117454/23790964 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
LOC105376860 ; LYPLA2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-125b-5p ; hsa-mir-145-5p ; hsa-mir-7-5p ; hsa-mir-296-3p ; hsa-mir-423-3p ; hsa-mir-1238-5p ; hsa-mir-4758-5p ; hsa-mir-1200 ; hsa-mir-921 ; hsa-mir-1294 ; hsa-mir-4489 ; hsa-mir-7155-3p ; hsa-mir-3136-3p ; hsa-mir-744-5p ; hsa-mir-4745-5p ; hsa-mir-4481 ; hsa-mir-4765 ; hsa-mir-1236-5p ; hsa-mir-4508 ; hsa-mir-4324 ; hsa-mir-186-3p ; hsa-mir-3174 ; hsa-mir-4781-5p ; hsa-mir-1245b-5p ; hsa-mir-1252-5p ; hsa-mir-1538 ; hsa-mir-1915-5p ; hsa-mir-3142 ; hsa-mir-4476 ; hsa-mir-4493 ; hsa-mir-4533 ; hsa-mir-4650-5p ; hsa-mir-4745-3p ; hsa-mir-4747-3p ; hsa-mir-4755-3p ; hsa-mir-544b ; hsa-mir-6876-5p
Nearest miRNA
hsa-mir-12136/Upstream/746592; hsa-mir-101-1/Downstream/138106;
Nearest TSS
ENST00000473358/Upstream/5772; ENST00000421070/Downstream/6;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/12191, chr1-CpG: 32/Downstream/28
Nearby gene
LYPLA2(+192) ;
Upstream sequence
GTAAAGTTTATGCAAACAATAGTGTGAGGGATGCCTCTCCTTCCGGTCGGCCCTCCTCCAGGAGGCGCATGGGTGGTGGTAGCAAGTGGGAGTCTTGGGT
Downstream sequence
GCCCTGTCTCGAATCTACAAGGTGGGAGCGGGTGAGAACCCAGCGACTGCGCGGCTGAATGACAGGGAGTAGCCCCGCCGCCTCCAACATGGCAGCTTCT
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