Basic Information
VIS ID
TVIS44006445
Fusion event
HTLV-1-RNF150 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
chr4
Cytoband
q31.21
Reference genome
GRCh37/hg19
Start
141928290/141007136 (Hg38)
End
141928290/141007136 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4C
Target gene
RNF150
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-548v ; hsa-mir-548au-3p ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-3149 ; hsa-mir-935 ; hsa-mir-5003-3p ; hsa-mir-6844 ; hsa-mir-4446-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-6781-3p ; hsa-mir-2682-3p ; hsa-mir-627-3p ; hsa-mir-7113-3p ; hsa-mir-6747-3p ; hsa-mir-6752-3p ; hsa-mir-330-3p
Nearest miRNA
hsa-mir-12113/Upstream/15499829; hsa-mir-1305/Downstream/2336324;
Nearest TSS
ENST00000502981/Upstream/10100; ENST00000514826/Downstream/125706;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/250120, chr4-CpG: 117/Downstream/125037
Upstream sequence
AATTTTCAATCTTTGCATTGTATTACTTTTTGGTTTTCAATGTAAAATATTGATTTCCAAAGGTTAGAAAGGAATTGAGACAGTAATAAATCCCCATCTC
Downstream sequence
TTCGTTTTAGAGTCTAAAAGATTCATATCCACATACCAGAAATACTGAAAGAACTTCAAGGCAGCCTGCTCTCTTCCTTATTTCAATATAATAGAGATTT
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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