Plant Circular RNA Database

circRNA ID
AT1G01140_circ_g.4
Alias

				ath_circ_000016			
Organism

				Arabidpsis thaliana				
			
Position

				chr1: 66387-66449  JBrowse»			
Reference genome

				TAIR10.38			

				Type  
			
i-circRNA

					
				
Identification method
CIRCexplorer
Parent gene
AT1G01140
Parent gene annotation

				CBL-interacting protein kinase 9

			
Parent gene strand
-
Alternative splicing
NA

				Splice junction sequence  
			
CAAGAAGAGTGCACAAAAACAAAAGAAAGACctaagaagaatgaatatcgtaatcacaggaaa

					
				
Support reads
1
Tissues
aerial

				Exon boundary  
			
No-No
"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

				Splicing signals  
			
CT-AA
The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

				Sanger sequencing for BSS  
			
NA
Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

				PCR primers for BSS  
			
NA			
PCR primers used in back-splicing site (BSS) validation.

				Assembled circRNA sequence  
			
NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018).

				Sanger sequencing for FL  
			
NA
Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

				PCR primers for FL  
			
NA
PCR primers used in full-length (FL) sequence validation.
Genomic sequence

				CTAAGAAGAATGAATATCGTAATCACAGGAAACAAGAAGAGTGCACAAAAACAAAAGAAAGAC
			
Number of exons covered
0
Conserved circRNAs

				NA			
Coding potential
N
Potential coding position

				NA
			
Potential amino acid sequence

				NA
			
Sponge-miRNAs

				NA			

				circRNA-miRNA-mRNA network
			

				 VISUALIZATION
			
References
Chu et al., 2017

Copyright©2017-2018 Institute of Crop Sciences / Institute of Bioinformatics, Zhejiang University.
Any questions or suggestions, please contact the Fan's lab, bioinplant@zju.edu.cn
For submittion, please click here. Last modified at 2020-04-30.

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