Basic Information
VIS ID
TVIS44014568
Fusion event
HTLV-1-SLC12A6 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
chr15
Cytoband
q14
Reference genome
GRCh37/hg19
Start
34612695/34320494 (Hg38)
End
34612695/34320494 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLC12A6
miRNAs that regulate target gene
hsa-mir-652-3p ; hsa-mir-126-5p ; hsa-mir-888-5p ; hsa-mir-4795-3p ; hsa-mir-5689 ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-17-5p ; hsa-mir-186-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-302a-3p ; hsa-mir-302b-3p ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-302e ; hsa-mir-372-3p ; hsa-mir-373-3p ; hsa-mir-4438 ; hsa-mir-4731-5p ; hsa-mir-5089-5p ; hsa-mir-5095 ; hsa-mir-512-3p ; hsa-mir-519d-3p ; hsa-mir-520a-3p ; hsa-mir-520b ; hsa-mir-520c-3p ; hsa-mir-520d-3p ; hsa-mir-520e ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-526b-3p ; hsa-mir-5589-5p ; hsa-mir-5702 ; hsa-mir-619-5p ; hsa-mir-6504-3p ; hsa-mir-6506-5p ; hsa-mir-6890-3p ; hsa-mir-7151-3p ; hsa-mir-93-5p ; hsa-mir-937-5p
Nearest miRNA
hsa-mir-1268a/Upstream/3255353; hsa-mir-10393/Downstream/61575;
Nearest TSS
ENST00000557528/Upstream/1715; ENST00000537011/Downstream/16350;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/110196, chr15-CpG: 90/Downstream/16880
Upstream sequence
gagacaaatatcacattttcattcatacgtaggagctaaaaatgtggatctcatgaatatagaaagtagaatggttgttaccagaggctaggaagggtag
Downstream sequence
gggggaaggaggattaaagagGAAAAAAAGAAGGTAAATATAAAAGCACAATCACGTTGATAACTGATTTATGCTAGCAAGAATACTGGCCTTGTTTTGG
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