Plant Circular RNA Database

Detail information of AT5G59050_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G59050_circ_g.1
					
						ID in PlantcircBase
						ath_circ_044805
					
						Alias
						5:23839965-23841828
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 23839965-23841828  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G59050						
					
						Parent gene annotation
						
							unknown protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						Tissues
						flower
					
						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  
						
							CT-AC							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
						AT5G59050.3:2
AT5G59050.4:2
AT5G59050.2:1
AT5G59050.1:2

General Information
CircRNA Name	AT5G59050_circ_g.1
ID in PlantcircBase	ath_circ_044805
Alias	5:23839965-23841828
Organism	Arabidpsis thaliana
Position	chr5: 23839965-23841828 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G59050
Parent gene annotation	unknown protein
Parent gene strand	-
Alternative splicing	NA
Support reads	1/1
Tissues	flower
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	CT-AC 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	AT5G59050.3:2 AT5G59050.4:2 AT5G59050.2:1 AT5G59050.1:2

			
						 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  
						
							TCTGGTTCTGGTGGAGGTGGTGGTAGTTTCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTG
CCTCTCTTTCTCTTTCTCCTTTTTAATCTTCTGGAAcatgaaaaggagggatatcagaagagaa
tgtagaaggaacacccaatttgtcaaagtgaactttcaaggcttcaactactcttgctggtatt
attactgt

									
								

					

						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: 331
Transcript exons: 23839965-23840072,23841606-23841828
CATGAAAAGGAGGGATATCAGAAGAGAATGTAGAAGGAACACCCAATTTGTCAAAGTGAACTTT
CAAGGCTTCAACTACTCTTGCTGGTATTATTACTGTTGAACATCCTGATTTCTTGCGTGACTCC
ACAACGGTACCATGACCACGCGGTAAGAACACTCCGGTACCACCCGACCCGGTTCTTGAACCCG
ACCCGTCAACAAACACCGCCTTAACGCCTGACCTAGGTCTCTGGTTCTGGTGGAGGTGGTGGTA
GTTTCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTGCCTCTCTTTCTCTTTCTCCTTTTTA
ATCTTCTGGAA
						
					

						Genomic sequence
						
							CATGAAAAGGAGGGATATCAGAAGAGAATGTAGAAGGAACACCCAATTTGTCAAAGTGAACTTT
CAAGGCTTCAACTACTCTTGCTGGTATTATTACTGTTGAACATCCTGCAACCAATTTATTTCCA
TACACAAAAGTCAAAACCAAAACCAAAACTACATCTAACCAAACTTAAACCGGTTAGGCAATTT
CAGAGTAACAACTCATAAAACTGTTTGGTTGAAACATCAGTTTCATCGAACGACAACAAATCTG
AATACAAACAGTACAATAAATAGTAAATTGTCACCACCACCACCACCCACCAATATCCAAGCCA
CGTCAAAACATATGATGATAAAACAAGAATGATTTCTAAAAAAAATGGTGGTTGATATTTAGTA
GACAAACTCACCGACTCCTAGATTGGGTAACGGTTAAGACTTGAAAATGAAATTGTCAGAAAAT
CTTTAATCTTGAGAGTTGTTAAGTATAATCCTTTGTGTTGAAAGAACATCATCAACAAACCTGG
TAAGTGCTACATGTGGGTGTGAGAATTTTAAGTTTCTATCTAATACGGGACTCGAATATAATAC
TATATTTAGAAAGAAACAAAGTTAACACTATGTGGTTTGGTTTATAGCCTTGGGTAATTGTCAA
TGATCGAACGGTAACAAATAAAGAATCACAAAATGAATAAATATCTAGGTTATCTAAGATTATA
ATCCACCTATTGAATGAAACTAGTGGGGTCTTATAAGAAAATAAATGATTTAGATTGATTTTTG
AACCTAAATAGTTTATTTTTGTTGATAGTGAAAGGGAGACAAATGGGGACCAACTAGTTGAGGG
AAGATTCTAATTTAGGAGGGTGTATCTGTCAAACCAATAGCCACACAATAGATTAATTGGTGAC
AAGGAATCTTTGGAATCTTACTCAGTCAAACAAAGTAATAATGTACGCAAGATTCTTACTATAA
TATAATTTTTGTCCTAAATAATTGAGTTTTGAGCTTTTACTCAATCAGCTAAACTTAACCCAAC
CTGACCTTAACCCAACTAATAACCATTCACATTATTTTATGTCACAACTCTTTAAGATTCTTCT
AACACTTAAGTGTCAGTTAAATCGAAAAAAACAAAAACAGATTTGACTAAAGATTATCACAACA
GAAAGAATGGAATCTGTGCAAAATCAAAAATTCGATTCCAACACTATGCTAATGTATGGCAAGG
TAATGAAATCTTATCCTTCTCGTAGACCCCATAAAGATTTACCAACACTAATTTAAACATAATC
TTATGTCGATTGTCGAACTACTTATCGAAAACAAACTCTAATTCTAACATATTCAGTGGTTTAA
TTGTTATCTTAAAGAAACAATTATGAAATTATCTAGGAAATATCTTAATACTATACAAGATTCG
AACTTTGTCAACCCCCAAAAAAAACAAAGTGGAATCTCAAAGTATTTTGATTAAATGTTAGATG
ACGTCATCCTATTTTTATTTAAAATGTTTTGTCCTTTATCATACGTAACCTTCATGAAAACCAC
TAGATTATTTTTTTTGGAAAACCCAAAAACAAAAATTGATAACGGAATGAAGAGAAAAAGTGTA
ATGATGATAAACTAATTTGCATAACTACTATAGGCTCTAACCTGATTTCTTGCGTGACTCCACA
ACGGTACCATGACCACGCGGTAAGAACACTCCGGTACCACCCGACCCGGTTCTTGAACCCGACC
CGTCAACAAACACCGCCTTAACGCCTGACCTAGGTCTCTGGTTCTGGTGGAGGTGGTGGTAGTT
TCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTGCCTCTCTTTCTCTTTCTCCTTTTTAATC
TTCTGGAA
						
					

			
		

Sequences
Splice junction sequence	TCTGGTTCTGGTGGAGGTGGTGGTAGTTTCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTG CCTCTCTTTCTCTTTCTCCTTTTTAATCTTCTGGAAcatgaaaaggagggatatcagaagagaa tgtagaaggaacacccaatttgtcaaagtgaactttcaaggcttcaactactcttgctggtatt attactgt
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: 331 Transcript exons: 23839965-23840072,23841606-23841828 CATGAAAAGGAGGGATATCAGAAGAGAATGTAGAAGGAACACCCAATTTGTCAAAGTGAACTTT CAAGGCTTCAACTACTCTTGCTGGTATTATTACTGTTGAACATCCTGATTTCTTGCGTGACTCC ACAACGGTACCATGACCACGCGGTAAGAACACTCCGGTACCACCCGACCCGGTTCTTGAACCCG ACCCGTCAACAAACACCGCCTTAACGCCTGACCTAGGTCTCTGGTTCTGGTGGAGGTGGTGGTA GTTTCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTGCCTCTCTTTCTCTTTCTCCTTTTTA ATCTTCTGGAA
Genomic sequence	CATGAAAAGGAGGGATATCAGAAGAGAATGTAGAAGGAACACCCAATTTGTCAAAGTGAACTTT CAAGGCTTCAACTACTCTTGCTGGTATTATTACTGTTGAACATCCTGCAACCAATTTATTTCCA TACACAAAAGTCAAAACCAAAACCAAAACTACATCTAACCAAACTTAAACCGGTTAGGCAATTT CAGAGTAACAACTCATAAAACTGTTTGGTTGAAACATCAGTTTCATCGAACGACAACAAATCTG AATACAAACAGTACAATAAATAGTAAATTGTCACCACCACCACCACCCACCAATATCCAAGCCA CGTCAAAACATATGATGATAAAACAAGAATGATTTCTAAAAAAAATGGTGGTTGATATTTAGTA GACAAACTCACCGACTCCTAGATTGGGTAACGGTTAAGACTTGAAAATGAAATTGTCAGAAAAT CTTTAATCTTGAGAGTTGTTAAGTATAATCCTTTGTGTTGAAAGAACATCATCAACAAACCTGG TAAGTGCTACATGTGGGTGTGAGAATTTTAAGTTTCTATCTAATACGGGACTCGAATATAATAC TATATTTAGAAAGAAACAAAGTTAACACTATGTGGTTTGGTTTATAGCCTTGGGTAATTGTCAA TGATCGAACGGTAACAAATAAAGAATCACAAAATGAATAAATATCTAGGTTATCTAAGATTATA ATCCACCTATTGAATGAAACTAGTGGGGTCTTATAAGAAAATAAATGATTTAGATTGATTTTTG AACCTAAATAGTTTATTTTTGTTGATAGTGAAAGGGAGACAAATGGGGACCAACTAGTTGAGGG AAGATTCTAATTTAGGAGGGTGTATCTGTCAAACCAATAGCCACACAATAGATTAATTGGTGAC AAGGAATCTTTGGAATCTTACTCAGTCAAACAAAGTAATAATGTACGCAAGATTCTTACTATAA TATAATTTTTGTCCTAAATAATTGAGTTTTGAGCTTTTACTCAATCAGCTAAACTTAACCCAAC CTGACCTTAACCCAACTAATAACCATTCACATTATTTTATGTCACAACTCTTTAAGATTCTTCT AACACTTAAGTGTCAGTTAAATCGAAAAAAACAAAAACAGATTTGACTAAAGATTATCACAACA GAAAGAATGGAATCTGTGCAAAATCAAAAATTCGATTCCAACACTATGCTAATGTATGGCAAGG TAATGAAATCTTATCCTTCTCGTAGACCCCATAAAGATTTACCAACACTAATTTAAACATAATC TTATGTCGATTGTCGAACTACTTATCGAAAACAAACTCTAATTCTAACATATTCAGTGGTTTAA TTGTTATCTTAAAGAAACAATTATGAAATTATCTAGGAAATATCTTAATACTATACAAGATTCG AACTTTGTCAACCCCCAAAAAAAACAAAGTGGAATCTCAAAGTATTTTGATTAAATGTTAGATG ACGTCATCCTATTTTTATTTAAAATGTTTTGTCCTTTATCATACGTAACCTTCATGAAAACCAC TAGATTATTTTTTTTGGAAAACCCAAAAACAAAAATTGATAACGGAATGAAGAGAAAAAGTGTA ATGATGATAAACTAATTTGCATAACTACTATAGGCTCTAACCTGATTTCTTGCGTGACTCCACA ACGGTACCATGACCACGCGGTAAGAACACTCCGGTACCACCCGACCCGGTTCTTGAACCCGACC CGTCAACAAACACCGCCTTAACGCCTGACCTAGGTCTCTGGTTCTGGTGGAGGTGGTGGTAGTT TCTTGCTTTGTGCCCCAAAACGTCAGCGTTGCGTTGCCTCTCTTTCTCTTTCTCCTTTTTAATC TTCTGGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.192060692

Conservation Information
Conserved circRNAs	NA
PMCS	0.192060692

			
						 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 AT5G59050_circ_g.1

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