Basic Information
VIS ID
TVIS44007498
Fusion event
HTLV-1-GCK 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
p13
Reference genome
GRCh37/hg19
Start
44227728/44188129 (Hg38)
End
44227728/44188129 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7D
Target gene
GCK
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-409-3p ; hsa-mir-6079 ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-3191-3p ; hsa-mir-92b-5p ; hsa-mir-3202 ; hsa-mir-4533 ; hsa-mir-6087 ; hsa-mir-8080 ; hsa-mir-568 ; hsa-mir-4302 ; hsa-mir-6733-3p ; hsa-mir-5011-5p ; hsa-mir-1295b-3p ; hsa-mir-3163 ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-3924 ; hsa-mir-5580-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-4799-5p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-627-3p ; hsa-mir-6758-3p ; hsa-mir-4509 ; hsa-mir-4744 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-4524b-3p
Nearest miRNA
hsa-mir-1183/Upstream/77217; hsa-mir-10399/Downstream/693619;
Nearest TSS
ENST00000635602/Upstream/28847; ENST00000463014/Downstream/858;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/41544, chr7-CpG: 36/Downstream/12690
Upstream sequence
CCGCTTCCTTCTCCCCGGGTGGCCTGAAGGGGCCCTTTGGGCAGGATTTCTCATCCAAATTGCTGCCATAGCACCAGTGACAGGCAGATCTGGGACTTGG
Downstream sequence
TTGGGGCCTCGGCCGGTCCAGCTGTCTGGCTGCGCACCCTCTCACTTGGGTTGGTTGTTTTCCTCCTAACATCATTAGCTCTGCCAGAAGCACAGCCAGC
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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