Basic Information
VIS ID
TVIS44007653
Fusion event
HTLV-1-SNX2 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
q23.2
Reference genome
GRCh37/hg19
Start
122127425/122791730 (Hg38)
End
122127425/122791730 (Hg38)
Orient
+
Location type
Intronic
Target gene
SNX2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-30c-5p ; hsa-let-7a-5p ; hsa-mir-6867-5p ; hsa-mir-574-5p ; hsa-mir-759 ; hsa-mir-513b-3p ; hsa-mir-640 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-378a-5p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4680-5p ; hsa-mir-3653-5p ; hsa-mir-1224-3p ; hsa-mir-186-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6778-3p ; hsa-mir-150-5p ; hsa-mir-223-5p ; hsa-mir-497-3p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-410-3p ; hsa-mir-1273f ; hsa-mir-129-5p ; hsa-mir-143-3p ; hsa-mir-19a-5p ; hsa-mir-19b-1-5p ; hsa-mir-19b-2-5p ; hsa-mir-3140-3p ; hsa-mir-3163 ; hsa-mir-380-3p ; hsa-mir-4534 ; hsa-mir-4653-3p ; hsa-mir-4708-5p ; hsa-mir-4770 ; hsa-mir-6088 ; hsa-mir-6514-5p ; hsa-mir-6885-3p ; hsa-mir-744-3p ; hsa-mir-8055 ; hsa-mir-8082
Nearest miRNA
hsa-mir-10397/Upstream/3637014; hsa-mir-103a-1/Downstream/6305958;
Nearest TSS
ENST00000502646/Upstream/16527; ENST00000511365/Downstream/3806;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/16256, chr5-CpG: 77/Downstream/53538
Upstream sequence
ggtctcgaactcctgacctcaggtgatctgcctgccttggcctcccagagtgctgggattacaggcgtaagccaccgcgcctggccCTCAATTTTTATAG
Downstream sequence
TAATATAGAACATCTGATTGACAAACTTGTGGTTAATTCTTTGACATATCCATCATTATTTTCTTAAAACTCAGTTAAATGATAGTCATTGAGTGTTTTA
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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