Basic Information
VIS ID
TVIS44013907
Fusion event
HTLV-1-GDNF 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
p13.2
Reference genome
GRCh37/hg19
Start
37827867/37827765 (Hg38)
End
37827867/37827765 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
GDNF
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-128-3p ; hsa-mir-7-5p ; hsa-mir-129-5p ; hsa-mir-140-3p ; hsa-mir-4282 ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-448 ; hsa-mir-153-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-8066 ; hsa-mir-548an ; hsa-mir-548e-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-4307 ; hsa-mir-4255 ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-548aw ; hsa-mir-3124-3p ; hsa-mir-499b-5p ; hsa-mir-4304 ; hsa-mir-4499 ; hsa-mir-4724-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p ; hsa-mir-190a-3p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-5583-5p ; hsa-mir-3129-3p ; hsa-mir-9-5p ; hsa-mir-96-5p ; hsa-mir-133a-5p
Nearest miRNA
hsa-mir-10397/Upstream/1679777; hsa-mir-103a-1/Downstream/729737;
Nearest TSS
ENST00000502646/Upstream/16176; ENST00000503382/Downstream/7057;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/448211, chr5-CpG: 51/Downstream/6804
Upstream sequence
TTGTCATGGGGtgtatattaacatgtacatttgaattgaaaatgaagtcagaccttttctgaccaaaaagccaattgatttgggctgattagtttgaTca
Downstream sequence
ttttccatgaactaaataaactacataggcaggtgcaaagttttgccaaaagaatatttaaagcatataTACAGTTCCTGAAAGGgctagaaatgacatc
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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