Basic Information
VIS ID
TVIS44004610
Fusion event
HTLV-1-PTPRG 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
chr3
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
62212375/62226701 (Hg38)
End
62212375/62226701 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA3B
Target gene
PTPRG
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-mir-342-5p ; hsa-mir-624-5p ; hsa-mir-193b-3p ; hsa-mir-10a-5p ; hsa-mir-19a-3p ; hsa-mir-130a-3p ; hsa-mir-301a-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-4671-3p ; hsa-mir-7844-5p ; hsa-mir-218-5p ; hsa-mir-6867-3p ; hsa-mir-4685-3p ; hsa-mir-642a-5p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; 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 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-6854-3p ; hsa-mir-4282
Nearest miRNA
hsa-let-7g/Upstream/1608831; hsa-mir-12124/Downstream/4998763;
Nearest TSS
ENST00000440867/Upstream/9118; ENST00000468576/Downstream/16875;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/661798, chr3-CpG: 35/Downstream/92138
Upstream sequence
CAAAAGTATAGAGCAGCTTTACTTCTCAAATTCAGATAGGACTGAGCTAACTGCAGATTCTGGAACAGAAAACTGGAAACTCCCTAAGTGGGAATTGTAA
Downstream sequence
CATCTGACCCAGGTTTGTTAAAATTTGGTATGAGAAGGATTTCACACTCTGATCTGGTAGATTCACTTCAGCACATGACCAAGCCATCTGTAAATTCTGT
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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