Basic Information
VIS ID
TVIS44008253
Fusion event
HTLV-1-LHFPL3 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
chr7
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
104520579/104880132 (Hg38)
End
104520579/104880132 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
LHFPL3
miRNAs that regulate target gene
hsa-mir-4709-3p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-4635 ; hsa-mir-8067 ; hsa-mir-6508-5p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-1269b ; hsa-mir-1269a ; hsa-mir-4497 ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-5196-5p ; hsa-mir-4271 ; hsa-mir-4747-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4515 ; hsa-mir-1288-3p ; hsa-mir-4740-5p ; hsa-mir-3202 ; hsa-mir-4749-5p ; hsa-mir-3195 ; hsa-mir-4706 ; hsa-mir-3179 ; hsa-mir-525-3p ; hsa-mir-524-3p ; hsa-mir-342-3p ; hsa-mir-6793-3p ; hsa-mir-574-3p ; hsa-mir-8485 ; hsa-mir-3939 ; hsa-mir-361-3p
Nearest miRNA
hsa-mir-10525/Upstream/2408601; hsa-mir-10399/Downstream/9773213;
Nearest TSS
ENST00000635602/Upstream/551432; ENST00000415513/Downstream/60931;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/550621, chr7-CpG: 45/Downstream/103758
Upstream sequence
tcttcaaaaaaaaaaaccaaagacaggctctctttttaggggctgataaggtttggatatctgtcccctctaaatctcatgttgaaatgtgattcccagt
Downstream sequence
gttggaggtggggccttagtgggaggtgtttgagtcatgggggtggatccctcatgaatggcctggtgccctcatggtaatgagtgagttcttgctctaa
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.
Curate