Basic Information
VIS ID
TVIS44010249
Fusion event
HTLV-1-CDH6 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
chr5
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
31316041/31315934 (Hg38)
End
31316041/31315934 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
CDH6
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-7-1-3p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-3681-3p ; hsa-mir-194-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-302f ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-6748-5p ; hsa-mir-6819-5p ; hsa-mir-6737-5p ; hsa-mir-6812-5p ; hsa-mir-6742-5p ; hsa-mir-92a-2-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-5196-5p ; hsa-mir-342-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-1252-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-574-5p ; hsa-mir-297 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p ; hsa-mir-3680-3p ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-3185 ; hsa-mir-4511
Nearest miRNA
hsa-mir-10397/Upstream/14159942; hsa-mir-103a-1/Downstream/620168;
Nearest TSS
ENST00000502646/Upstream/21735; ENST00000504835/Downstream/316;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/121622, chr5-CpG: 42/Downstream/216069
Upstream sequence
GTCTTCTGGTGGTTCATTCATTTTCCCTCTCCTTCCTTTTGTCCATATGCTCCCCATCTGCCTGCTTCCTTGAAAATCTACCTCTAAAATGCCTTTCTTG
Downstream sequence
GTTTTGTGTTATCTTAAGGTTTATTATACAGTTGAACTATATCAACACAAGTGGCTTTGTCACCCATGTATCTCTAACAGGTGCATCCAACTCCAGATGT
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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