Basic Information
VIS ID
TVIS44004269
Fusion event
HTLV-1-PTGFRN 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
p13.1
Reference genome
GRCh37/hg19
Start
117529705/116987083 (Hg38)
End
117529705/116987083 (Hg38)
Orient
+
Location type
UTR3
Target gene
PTGFRN
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-24-3p ; hsa-mir-877-5p ; hsa-mir-615-3p ; hsa-mir-18a-3p ; hsa-mir-92a-3p ; hsa-let-7b-5p ; hsa-mir-218-5p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-3185 ; hsa-mir-2115-3p ; hsa-mir-371a-3p ; hsa-mir-5197-3p ; hsa-mir-499b-3p ; hsa-mir-499a-3p ; hsa-mir-20a-5p ; hsa-mir-106a-5p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-106b-5p ; hsa-mir-93-5p ; hsa-mir-519d-3p ; hsa-mir-526b-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-1236-3p ; hsa-mir-877-3p ; hsa-mir-3922-5p ; hsa-mir-6881-3p ; hsa-mir-554 ; hsa-mir-6828-3p ; hsa-mir-23c ; hsa-mir-23b-3p ; hsa-mir-23a-3p ; hsa-mir-130a-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6502-5p ; hsa-mir-1301-5p ; hsa-mir-4522 ; hsa-mir-767-3p ; hsa-mir-6728-3p ; hsa-mir-139-5p ; hsa-mir-7112-5p ; hsa-mir-6812-3p ; hsa-mir-1972 ; hsa-mir-330-3p ; hsa-mir-15a-3p ; hsa-mir-4438 ; hsa-mir-6835-3p
Nearest miRNA
hsa-mir-101-1/Upstream/315266; hsa-mir-1182/Downstream/107560;
Nearest TSS
ENST00000473358/Upstream/43; ENST00000256652/Downstream/14667;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/42060, chr1-CpG: 64/Downstream/72683
Upstream sequence
AGTGACAGAGGGACGTTCTAGGAGCAATTGGGGCAAGAAGAGGACAGTGATATTTTAAAACAAAGTGTGTTACACTAAAAACCAGTCCTCTCTAATCTCA
Downstream sequence
GGTGGGACTTGGCGCTCTCTCTTTTCTGCATGTCAAGTTCTGAGCGCGGACATGTTTACCAGCACACGGCTCTTCTTCCCACGGCACTTTCTGATGTAAC
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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