Basic Information
VIS ID
TVIS44006446
Fusion event
HTLV-1-chr4 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
q34.1
Reference genome
GRCh37/hg19
Start
174327636/173406485 (Hg38)
End
174327636/173406485 (Hg38)
Orient
+
Location type
Intronic
Target gene
LOC112268474 ; SCRG1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4524a-3p ; hsa-mir-4524b-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-4695-3p ; hsa-mir-2276-3p ; hsa-mir-1304-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-660-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-937-5p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6499-3p ; hsa-mir-2467-3p ; hsa-mir-5702 ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-1827 ; hsa-mir-3192-5p ; hsa-mir-4257 ; hsa-mir-3174 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-1273h-5p ; hsa-mir-149-3p ; hsa-mir-30b-3p ; hsa-mir-34c-3p ; hsa-mir-3614-5p ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-4728-5p ; hsa-mir-490-3p ; hsa-mir-550b-2-5p ; hsa-mir-6500-3p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6785-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-7106-5p ; hsa-mir-7851-3p
Nearest miRNA
hsa-mir-12113/Upstream/138252; hsa-mir-1305/Downstream/1017310;
Nearest TSS
ENST00000502981/Upstream/105; ENST00000505032/Downstream/63556;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/34363, chr4-CpG: 21/Downstream/93711
Nearby gene
SCRG1(-7019) ;
Upstream sequence
tcagtgaggttgtttcatacatgagtaataaagttagattgttttgtcacattctgtttttatcctgggattgtccaacctcctaaataattgttagtaa
Downstream sequence
tttgcatgtattaaggttcagtctttgtgctgaaaaggtctgtgggttttgacaagcacatagtgtcttgtacataccattacattatgatacagaatag
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