Basic Information
VIS ID
TVIS44006173
Fusion event
HTLV-1-SLC4A4 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
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
71976528/71110811 (Hg38)
End
71976528/71110811 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLC4A4
miRNAs that regulate target gene
hsa-mir-5585-3p ; hsa-mir-498 ; hsa-mir-4279 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p
Nearest miRNA
hsa-mir-12113/Upstream/4833883; hsa-mir-1243/Downstream/5462757;
Nearest TSS
ENST00000502981/Upstream/84927; ENST00000638464/Downstream/75946;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/116644, chr4-CpG: 123/Downstream/75715
Nearby gene
SLC4A4(+76475) ;
Upstream sequence
AGTCAACTGATGTTTTGTTTGTAGGTCATTGTATAATATCTGTTTGGGAGGCTCTAGATTCTTTTTAAATGATTTGCTTTGTAATGGGCTCTTCAGTTTG
Downstream sequence
AAGTACTGTGTATAATTTAGTTCTGTGTACAATACAATCCCCAGGCCCCTCTTTAATAAAGATGTTTACCTACATTTCCTTCTCAAGTGCTCTGTTGCCC
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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