Basic Information
VIS ID
TVIS44006775
Fusion event
HTLV-1-RCSD1 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
q24.2
Reference genome
GRCh37/hg19
Start
167611176/167641939 (Hg38)
End
167611176/167641939 (Hg38)
Orient
-
Location type
Intronic
Target gene
RCSD1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-4684-5p ; hsa-mir-3663-5p ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1487141; hsa-mir-1182/Downstream/356721;
Nearest TSS
ENST00000473358/Upstream/11265; ENST00000487858/Downstream/79253;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11337, chr1-CpG: 52/Downstream/72301
Upstream sequence
gtaaacagTCCTGTTGCATAAATAAcaggacaggctagtgttgctgtaaccatgccacaatcttagtggctgaaaacaacaaaggtttacttttcacccc
Downstream sequence
tgctgcaagtccattgagggttggctgggggctctgctctggctcatttcttgtcctccctctgagacctaagctgtgggagcagctacccctttgcttg
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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