Basic Information
VIS ID
TVIS44010359
Fusion event
HTLV-1-RAB3C 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
q11.2
Reference genome
GRCh37/hg19
Start
57933749/58637922 (Hg38)
End
57933749/58637922 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5H
Target gene
RAB3C
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-8485 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-8064 ; hsa-mir-502-5p ; hsa-mir-3189-3p ; hsa-mir-212-5p ; hsa-mir-5587-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-6867-5p ; hsa-mir-3926 ; hsa-mir-8069 ; hsa-mir-648 ; hsa-mir-6872-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-491-3p ; hsa-mir-6836-3p ; hsa-mir-6873-3p ; hsa-mir-4633-5p ; hsa-mir-103a-2-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6845-3p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-532-5p
Nearest miRNA
hsa-mir-10397/Upstream/107813; hsa-mir-103a-1/Downstream/1065684;
Nearest TSS
ENST00000502646/Upstream/54882; ENST00000507977/Downstream/6442;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/54572, chr5-CpG: 120/Downstream/401087
Upstream sequence
ttttccctatatatatgtTCCATATTTTAAAGAAAATATACATATGATATCACCAACTGTGTTTTCACATATATGTTATGAATCTTTTCTAAAATATTTA
Downstream sequence
AATATACATTGAAATCCTGGTTATAAGTAGCAACACAGGAGTAATTTATTTAAGCAATACCTTATTACTGGCTTTTCTTTTTTCCTGATTATTTTTGTCA
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