Basic Information
VIS ID
TVIS44011425
Fusion event
HTLV-1-PHF3 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
chr6
Cytoband
q12
Reference genome
GRCh37/hg19
Start
64405233/63695343 (Hg38)
End
64405233/63695343 (Hg38)
Orient
+
Location type
Intronic
Target gene
PHF3
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-130b-3p ; hsa-mir-101-3p ; hsa-let-7e-5p ; hsa-mir-545-5p ; hsa-mir-548p ; hsa-mir-582-5p ; hsa-mir-144-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6873-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-942-5p ; hsa-mir-4680-3p ; hsa-mir-5187-3p ; hsa-mir-4427 ; hsa-mir-6845-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-5088-3p ; hsa-mir-4530 ; hsa-mir-338-3p
Nearest miRNA
hsa-mir-10398/Upstream/6305131; hsa-mir-10524/Downstream/7681617;
Nearest TSS
ENST00000381078/Upstream/15658; ENST00000503248/Downstream/6950;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/58783, chr6-CpG: 22/Downstream/1606017
Upstream sequence
ggcatttgaggagcaagaaagccactgtagagtgattagaaggtaatacataaagggatagaacagtgttagaagatgagttcagagaAAATTATTGCTC
Downstream sequence
GTACCCTAttttaaaacctgagtatatgtctatctgtatagcgttcctctccctgtctttcaggaacattattagtaggatgtgattaatttctcccaag
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