Basic Information
VIS ID
TVIS44004831
Fusion event
HTLV-1-PTPRM 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
chr18
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
7859184/7859186 (Hg38)
End
7859184/7859186 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPRM
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-205-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-580-3p ; hsa-mir-4753-3p ; hsa-mir-452-3p ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-1279 ; hsa-mir-130b-5p ; hsa-mir-4461 ; hsa-mir-1264
Nearest miRNA
hsa-mir-3976/Upstream/1484761; hsa-mir-1-2/Downstream/2900398;
Nearest TSS
ENST00000575820/Upstream/85046; ENST00000578916/Downstream/87684;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/290354, chr18-CpG: 38/Downstream/508089
Upstream sequence
ACTTATAACCTAATTTCTACTGATATTCCCAGTTTTGTGTAAACGTCTACAAAATGAGTTCTATCTAAAGCTGACGCCAACTGTTTAatatgtgtattag
Downstream sequence
atatacatatatgtatagatatatatgataaatatgtattatgtatattaatgtatatGTTGTGCTGGACCCAGTTTATTCATCTCCCAGGATCTTCTTG
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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