Basic Information
VIS ID
TVIS44011128
Fusion event
HTLV-1-chr19 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
chr19
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
42575287/42071135 (Hg38)
End
42575287/42071135 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
GRIK5 ; ZNF574
miRNAs that regulate target gene
hsa-mir-186-5p ; hsa-mir-4795-3p ; hsa-mir-126-5p ; hsa-mir-6818-3p ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-3613-3p ; hsa-mir-596 ; hsa-mir-4293 ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-7844-5p ; hsa-mir-548c-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
Nearest miRNA
hsa-mir-10395/Upstream/201437; hsa-let-7e/Downstream/62310;
Nearest TSS
ENST00000633603/Upstream/769; ENST00000597391/Downstream/3536;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/28391, chr19-CpG: 83/Downstream/4648
Nearby gene
ZNF574(+5003) ;
Upstream sequence
TAGTGCACAGAGAAATCCTTGGGACCCACAGAGATGAGTGGGTGGAGAGAAGGGGCCCTCATTCTCTAGTCACAGGAGCAGAGAGGCAGTGGGAAAGGTG
Downstream sequence
GATGGGACAAGGAGAGGAAGCTGGAGGGCAGAGCCAGAAGTGGGAGACTCCTTCCCAGGGAACACCCTGCAGCCTCTCAGAAGGAGCTGAGCAGGACAGG
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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