Plant Circular RNA Database

Detail information of AT3G20080_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G20080_circ_g.1
					
						ID in PlantcircBase
						ath_circ_022899
					
						Alias
						3:7008905-7010470
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 7008905-7010470  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G20080						
					
						Parent gene annotation
						
							CYP705A15
							
						Parent gene strand
						+
					
						Alternative splicing
						
							3_circ_ag.2 AT3G20080_circ_g.3 						
					
						Support reads
						1/2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-Yes							"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  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT3G20080.5:2
AT3G20080.3:2
AT3G20080.4:2
AT3G20080.1:2
AT3G20080.6:2
AT3G20080.2:2

General Information
CircRNA Name	AT3G20080_circ_g.1
ID in PlantcircBase	ath_circ_022899
Alias	3:7008905-7010470
Organism	Arabidpsis thaliana
Position	chr3: 7008905-7010470 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G20080
Parent gene annotation	CYP705A15
Parent gene strand	+
Alternative splicing	3_circ_ag.2 AT3G20080_circ_g.3
Support reads	1/2
Tissues	root
Exon boundary	Yes-Yes "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	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT3G20080.5:2 AT3G20080.3:2 AT3G20080.4:2 AT3G20080.1:2 AT3G20080.6:2 AT3G20080.2:2

			
						 Experimental Information
					
						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.

						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.

Experimental Information
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.
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.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CTGAGCTTGACCATGGCTTATCCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAA
CTCAGAATCCACTGAACCGGAGTTCATGAATCTTTGgaaaccaaaggaacctcgacttcactat
gatttacctccgagccctccgactcttcccatcattggtcatcttcaccttcttctctctgttc
tagtccac

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 1487
Transcript exons: 7008905-7009733,7009813-7010470
GAAACCAAAGGAACCTCGACTTCACTATGATTTACCTCCGAGCCCTCCGACTCTTCCCATCATT
GGTCATCTTCACCTTCTTCTCTCTGTTCTAGTCCACAGATCTTTACAGACACTCTCCACCAAGT
ATGGGTCTATTCTCTATCTTCGCGTCTTCAGTTTCCCTGTAGCCCTCGTCTCCTCAGCATCTAT
TGCTTATGAGATCTTCAGGGAACACGACGTGAACATCTCGTCTCGTGGTTTCCCTCCTACCGAT
GATTCCCTTTTTGCTGGATCTTTCAGCTTCACCTCTGCTCCCTATGGAGATTACTGGAAGTTCA
TGAAGAAGCTCCTGGTCACGAACTTGCTTGGACCCCAGGCACTCGAGCGGTCACGAGGATTCCG
TGCAGATGAGCTAGATCTGTTTTACGAGAACCTGTTGGATAAAGCGATGAAGAAGGAGAGCGTG
GATATCTGTGTGGAGGCGTTGAAGCTCAGTAACAACAGCATCTGCAAGATGATCATGGGGAGGA
GTTGTTCAGAGGAGAATGGTGAGGCAGAGAGAGTTAGGGCTTTGGCTACCCAGTTAGATGGCTT
GACGAAGAAGATCTTATTGGCGAACATGTTGCGTGCGGGGTTTAAAAAGCTTGTTGTCTCACTG
TTTAGAAAGGAAATGATGGATGTTTCCAGCAGATTTGATGAGCTGCTCGAAAGGATCCTTGTGG
AACATGAAGATAAACTGGACATGCATCATCAAGGTACAGACTTAGTGGACGCGTTGTTGGCAGC
TTGTCGGGACAAAAATGCAGAGTATAAGATCTCTAGGAACCATATCAAGTCGTTTTTCGCGGAT
CTCTTATTTGCAAGCACTGACACCTTTGTGCAAACAACACAGTGGACAGTGGCGGAGATCATTA
ATAACCCTAATGTTCTTGAGAGATTGAGAGGAGAAATCGATTCCGTGGTCGGGAAAGCAAGGTT
GATTCAAGAAACTGATTTGCCAAACCTCCCTTATTTGCAAGCGGTGGTCAAGGAAGGGCTAAGA
CTGCATCCGCCGGGGCCTCTCTTTGCAAGGTTCTCCCAAGAAGGGTGTAGGATCGGAGGGTTCT
ATGTACCGGAGAAAACAACATTAATGATTAATGCTTATGCTGTGATGAGAGATTCTGATTCTTG
GGAAGATCCTGATGAGTTTAAACCAGAGAGGTTTCTAGCTTCGTCAAGATCAGAGCAGGAAAAG
GAGAGAAGAGAGCAAGCAATTAAGTACATTGCTTTCGGAAGCGGACGAAGAAGCTGTCCTGGAG
AAAATCTAGCATATATCTTTTTAGGAACTGCAATTGGAGTGATGGTACAGGGATTTGAGTGGAG
AATCAAAGAAGAGAAAGTTAACATGGAAGAGGCTAATGTAGGACTGAGCTTGACCATGGCTTAT
CCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAACTCAGAATCCACTGAACCGGA
GTTCATGAATCTTTG
						
					

						Genomic sequence
						
							GAAACCAAAGGAACCTCGACTTCACTATGATTTACCTCCGAGCCCTCCGACTCTTCCCATCATT
GGTCATCTTCACCTTCTTCTCTCTGTTCTAGTCCACAGATCTTTACAGACACTCTCCACCAAGT
ATGGGTCTATTCTCTATCTTCGCGTCTTCAGTTTCCCTGTAGCCCTCGTCTCCTCAGCATCTAT
TGCTTATGAGATCTTCAGGGAACACGACGTGAACATCTCGTCTCGTGGTTTCCCTCCTACCGAT
GATTCCCTTTTTGCTGGATCTTTCAGCTTCACCTCTGCTCCCTATGGAGATTACTGGAAGTTCA
TGAAGAAGCTCCTGGTCACGAACTTGCTTGGACCCCAGGCACTCGAGCGGTCACGAGGATTCCG
TGCAGATGAGCTAGATCTGTTTTACGAGAACCTGTTGGATAAAGCGATGAAGAAGGAGAGCGTG
GATATCTGTGTGGAGGCGTTGAAGCTCAGTAACAACAGCATCTGCAAGATGATCATGGGGAGGA
GTTGTTCAGAGGAGAATGGTGAGGCAGAGAGAGTTAGGGCTTTGGCTACCCAGTTAGATGGCTT
GACGAAGAAGATCTTATTGGCGAACATGTTGCGTGCGGGGTTTAAAAAGCTTGTTGTCTCACTG
TTTAGAAAGGAAATGATGGATGTTTCCAGCAGATTTGATGAGCTGCTCGAAAGGATCCTTGTGG
AACATGAAGATAAACTGGACATGCATCATCAAGGTACAGACTTAGTGGACGCGTTGTTGGCAGC
TTGTCGGGACAAAAATGCAGAGTATAAGATCTCTAGGAACCATATCAAGTCGTTTTTCGCGGTA
AATGTTCCTCCCATAAGGTGGTTTCATTGAGAATGCATAACTTTTTTGCCTAAGAAAAAACGTT
TTGCAACTGCAGGATCTCTTATTTGCAAGCACTGACACCTTTGTGCAAACAACACAGTGGACAG
TGGCGGAGATCATTAATAACCCTAATGTTCTTGAGAGATTGAGAGGAGAAATCGATTCCGTGGT
CGGGAAAGCAAGGTTGATTCAAGAAACTGATTTGCCAAACCTCCCTTATTTGCAAGCGGTGGTC
AAGGAAGGGCTAAGACTGCATCCGCCGGGGCCTCTCTTTGCAAGGTTCTCCCAAGAAGGGTGTA
GGATCGGAGGGTTCTATGTACCGGAGAAAACAACATTAATGATTAATGCTTATGCTGTGATGAG
AGATTCTGATTCTTGGGAAGATCCTGATGAGTTTAAACCAGAGAGGTTTCTAGCTTCGTCAAGA
TCAGAGCAGGAAAAGGAGAGAAGAGAGCAAGCAATTAAGTACATTGCTTTCGGAAGCGGACGAA
GAAGCTGTCCTGGAGAAAATCTAGCATATATCTTTTTAGGAACTGCAATTGGAGTGATGGTACA
GGGATTTGAGTGGAGAATCAAAGAAGAGAAAGTTAACATGGAAGAGGCTAATGTAGGACTGAGC
TTGACCATGGCTTATCCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAACTCAGA
ATCCACTGAACCGGAGTTCATGAATCTTTG
						
					

			
		

Sequences
Splice junction sequence	CTGAGCTTGACCATGGCTTATCCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAA CTCAGAATCCACTGAACCGGAGTTCATGAATCTTTGgaaaccaaaggaacctcgacttcactat gatttacctccgagccctccgactcttcccatcattggtcatcttcaccttcttctctctgttc tagtccac
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 1487 Transcript exons: 7008905-7009733,7009813-7010470 GAAACCAAAGGAACCTCGACTTCACTATGATTTACCTCCGAGCCCTCCGACTCTTCCCATCATT GGTCATCTTCACCTTCTTCTCTCTGTTCTAGTCCACAGATCTTTACAGACACTCTCCACCAAGT ATGGGTCTATTCTCTATCTTCGCGTCTTCAGTTTCCCTGTAGCCCTCGTCTCCTCAGCATCTAT TGCTTATGAGATCTTCAGGGAACACGACGTGAACATCTCGTCTCGTGGTTTCCCTCCTACCGAT GATTCCCTTTTTGCTGGATCTTTCAGCTTCACCTCTGCTCCCTATGGAGATTACTGGAAGTTCA TGAAGAAGCTCCTGGTCACGAACTTGCTTGGACCCCAGGCACTCGAGCGGTCACGAGGATTCCG TGCAGATGAGCTAGATCTGTTTTACGAGAACCTGTTGGATAAAGCGATGAAGAAGGAGAGCGTG GATATCTGTGTGGAGGCGTTGAAGCTCAGTAACAACAGCATCTGCAAGATGATCATGGGGAGGA GTTGTTCAGAGGAGAATGGTGAGGCAGAGAGAGTTAGGGCTTTGGCTACCCAGTTAGATGGCTT GACGAAGAAGATCTTATTGGCGAACATGTTGCGTGCGGGGTTTAAAAAGCTTGTTGTCTCACTG TTTAGAAAGGAAATGATGGATGTTTCCAGCAGATTTGATGAGCTGCTCGAAAGGATCCTTGTGG AACATGAAGATAAACTGGACATGCATCATCAAGGTACAGACTTAGTGGACGCGTTGTTGGCAGC TTGTCGGGACAAAAATGCAGAGTATAAGATCTCTAGGAACCATATCAAGTCGTTTTTCGCGGAT CTCTTATTTGCAAGCACTGACACCTTTGTGCAAACAACACAGTGGACAGTGGCGGAGATCATTA ATAACCCTAATGTTCTTGAGAGATTGAGAGGAGAAATCGATTCCGTGGTCGGGAAAGCAAGGTT GATTCAAGAAACTGATTTGCCAAACCTCCCTTATTTGCAAGCGGTGGTCAAGGAAGGGCTAAGA CTGCATCCGCCGGGGCCTCTCTTTGCAAGGTTCTCCCAAGAAGGGTGTAGGATCGGAGGGTTCT ATGTACCGGAGAAAACAACATTAATGATTAATGCTTATGCTGTGATGAGAGATTCTGATTCTTG GGAAGATCCTGATGAGTTTAAACCAGAGAGGTTTCTAGCTTCGTCAAGATCAGAGCAGGAAAAG GAGAGAAGAGAGCAAGCAATTAAGTACATTGCTTTCGGAAGCGGACGAAGAAGCTGTCCTGGAG AAAATCTAGCATATATCTTTTTAGGAACTGCAATTGGAGTGATGGTACAGGGATTTGAGTGGAG AATCAAAGAAGAGAAAGTTAACATGGAAGAGGCTAATGTAGGACTGAGCTTGACCATGGCTTAT CCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAACTCAGAATCCACTGAACCGGA GTTCATGAATCTTTG
Genomic sequence	GAAACCAAAGGAACCTCGACTTCACTATGATTTACCTCCGAGCCCTCCGACTCTTCCCATCATT GGTCATCTTCACCTTCTTCTCTCTGTTCTAGTCCACAGATCTTTACAGACACTCTCCACCAAGT ATGGGTCTATTCTCTATCTTCGCGTCTTCAGTTTCCCTGTAGCCCTCGTCTCCTCAGCATCTAT TGCTTATGAGATCTTCAGGGAACACGACGTGAACATCTCGTCTCGTGGTTTCCCTCCTACCGAT GATTCCCTTTTTGCTGGATCTTTCAGCTTCACCTCTGCTCCCTATGGAGATTACTGGAAGTTCA TGAAGAAGCTCCTGGTCACGAACTTGCTTGGACCCCAGGCACTCGAGCGGTCACGAGGATTCCG TGCAGATGAGCTAGATCTGTTTTACGAGAACCTGTTGGATAAAGCGATGAAGAAGGAGAGCGTG GATATCTGTGTGGAGGCGTTGAAGCTCAGTAACAACAGCATCTGCAAGATGATCATGGGGAGGA GTTGTTCAGAGGAGAATGGTGAGGCAGAGAGAGTTAGGGCTTTGGCTACCCAGTTAGATGGCTT GACGAAGAAGATCTTATTGGCGAACATGTTGCGTGCGGGGTTTAAAAAGCTTGTTGTCTCACTG TTTAGAAAGGAAATGATGGATGTTTCCAGCAGATTTGATGAGCTGCTCGAAAGGATCCTTGTGG AACATGAAGATAAACTGGACATGCATCATCAAGGTACAGACTTAGTGGACGCGTTGTTGGCAGC TTGTCGGGACAAAAATGCAGAGTATAAGATCTCTAGGAACCATATCAAGTCGTTTTTCGCGGTA AATGTTCCTCCCATAAGGTGGTTTCATTGAGAATGCATAACTTTTTTGCCTAAGAAAAAACGTT TTGCAACTGCAGGATCTCTTATTTGCAAGCACTGACACCTTTGTGCAAACAACACAGTGGACAG TGGCGGAGATCATTAATAACCCTAATGTTCTTGAGAGATTGAGAGGAGAAATCGATTCCGTGGT CGGGAAAGCAAGGTTGATTCAAGAAACTGATTTGCCAAACCTCCCTTATTTGCAAGCGGTGGTC AAGGAAGGGCTAAGACTGCATCCGCCGGGGCCTCTCTTTGCAAGGTTCTCCCAAGAAGGGTGTA GGATCGGAGGGTTCTATGTACCGGAGAAAACAACATTAATGATTAATGCTTATGCTGTGATGAG AGATTCTGATTCTTGGGAAGATCCTGATGAGTTTAAACCAGAGAGGTTTCTAGCTTCGTCAAGA TCAGAGCAGGAAAAGGAGAGAAGAGAGCAAGCAATTAAGTACATTGCTTTCGGAAGCGGACGAA GAAGCTGTCCTGGAGAAAATCTAGCATATATCTTTTTAGGAACTGCAATTGGAGTGATGGTACA GGGATTTGAGTGGAGAATCAAAGAAGAGAAAGTTAACATGGAAGAGGCTAATGTAGGACTGAGC TTGACCATGGCTTATCCTCTTAAGGTCACTCCTGTTCCTCGAACCCTAGTCCCCTTAACTCAGA ATCCACTGAACCGGAGTTCATGAATCTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.220894336

Conservation Information
Conserved circRNAs	NA
PMCS	0.220894336

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT3G20080_circ_g.1

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