Basic Information
VIS ID
TVIS44005462
Fusion event
HTLV-1-GMDS 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
p25.3
Reference genome
GRCh37/hg19
Start
2179836/2179602 (Hg38)
End
2179836/2179602 (Hg38)
Orient
-
Location type
Intronic
Target gene
GMDS
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-302c-5p ; hsa-mir-1231 ; hsa-mir-4423-3p ; hsa-mir-3143 ; hsa-mir-496 ; hsa-mir-3622b-5p ; hsa-mir-5588-5p ; hsa-mir-4799-3p ; hsa-mir-4720-5p ; hsa-mir-6868-5p ; hsa-mir-3128 ; hsa-mir-654-3p ; hsa-mir-3622a-5p ; hsa-mir-5582-5p ; hsa-mir-4803 ; hsa-mir-3196 ; hsa-mir-6816-5p ; hsa-mir-3180-3p ; hsa-mir-6787-5p ; hsa-mir-3180 ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-744-5p ; hsa-mir-6812-3p ; hsa-mir-1307-3p ; hsa-mir-3150b-5p ; hsa-mir-3150a-5p
Nearest miRNA
hsa-mir-6720/Upstream/789191; hsa-mir-10398/Downstream/674429;
Nearest TSS
ENST00000381078/Upstream/3611; ENST00000530833/Downstream/66090;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/554369, chr6-CpG: 106/Downstream/65282
Upstream sequence
agtcattctcattcttttgttctcccacgtgagaacatcctccagaggatgccatgactaggcaccatcttggaagtagagagcagccctcaccagacac
Downstream sequence
caatcctgtagtgccttgatcagacttctcagcctccagaatttgagaaataaatttctattatttataaattactctgtagtattttgttacagtagca
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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