Basic Information
VIS ID
TVIS44004711
Fusion event
HTLV-1-PKN2 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
p22.2
Reference genome
GRCh37/hg19
Start
89223311/88757628 (Hg38)
End
89223311/88757628 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
PKN2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4795-5p ; hsa-mir-5692a ; hsa-mir-4672 ; hsa-let-7c-3p ; hsa-mir-7109-3p ; hsa-mir-202-5p ; hsa-mir-337-3p ; hsa-mir-4789-5p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-1284 ; hsa-mir-16-1-3p ; hsa-mir-6768-5p ; hsa-mir-5582-3p ; 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-101-1/Upstream/2399941; hsa-mir-11399/Downstream/5089204;
Nearest TSS
ENST00000473358/Upstream/72424; ENST00000436111/Downstream/13827;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/72593, chr1-CpG: 44/Downstream/133652
Upstream sequence
TAGTCACACCATCTTATATTGTAGAGGAGTGAAGGGAACATTGAAGCACAAAGGTAAAGTAACTTGCAGTTTAGGCAGTTTTCCAGTCATGACCAAGTTA
Downstream sequence
CTTATCACCTGAACCAGGGTAGTACCCTAGTCTTTAGCTTTTATAGAAGTAAAGGGACCTGGTGTGGATAAAAATACAAAACACTAAACTTAAAATATGA
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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