Basic Information
VIS ID
TVIS44004549
Fusion event
HTLV-1-FAM13B 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
chr5
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
137347847/138012158 (Hg38)
End
137347847/138012158 (Hg38)
Orient
-
Location type
Intronic
Target gene
FAM13B
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-218-5p ; hsa-mir-19a-5p ; hsa-mir-19b-1-5p ; hsa-mir-19b-2-5p ; hsa-mir-579-3p ; hsa-mir-2052 ; hsa-mir-664b-3p ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-6830-5p ; hsa-mir-136-5p ; hsa-mir-4713-5p ; hsa-mir-550b-3p ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-222-5p ; hsa-mir-545-5p
Nearest miRNA
hsa-mir-10397/Upstream/364509; hsa-mir-103a-1/Downstream/2551513;
Nearest TSS
ENST00000502646/Upstream/57534; ENST00000500267/Downstream/20616;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/122370, chr5-CpG: 65/Downstream/20258
Upstream sequence
CCTCTTCACTTCCTCTACTGGGGCCAAATGCCTTAGGGCTTTGTATTTCACTTATGAAATGGAGAAGAGGTGGAGAAGAGGAGCTGGAAAAAAGGAACTC
Downstream sequence
AATCCCTTAATTGCTGGAGGATGTTTTCCTCATCTATTACTCATTGGCCCCAAttctcttttttttttttttttttttttAATTCTCATCCTACTGTCTC
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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