Plant Circular RNA Database

Detail information of 1_circ_ag.2

			
						 General Information
					
						CircRNA Name
						1_circ_ag.2
					
						ID in PlantcircBase
						ath_circ_000252
					
						Alias
						1:453594-455902
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 453594-455902  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							1_circ_ag.36 AT1G02090_circ_g.1 AT1G02090_circ_g.2 AT1G02090_circ_g.3 AT1G02090_circ_g.4 AT1G02100_circ_g.1 AT1G02100_circ_g.2 AT1G02110_circ_g.1 AT1G02120_circ_g.1 AT1G02120_circ_g.2 AT1G02120_circ_g.3 AT1G02120_circ_g.4 AT1G02120_circ_g.5 AT1G02120_circ_g.6 AT1G02120_circ_g.7 AT1G02120_circ_g.8 AT1G02120_circ_g.9 AT1G02130_circ_g.1 AT1G02130_circ_g.2 AT1G02130_circ_g.3 AT1G02140_circ_g.1 AT1G02145_circ_g.1 AT1G02145_circ_g.2 AT1G02145_circ_g.3 AT1G02145_circ_g.4 AT1G02145_circ_g.5 AT1G02145_circ_g.6 AT1G02145_circ_g.7 AT1G02145_circ_g.8 AT1G02145_circ_g.9 AT1G02170_circ_g.1 AT1G02170_circ_g.2 AT1G02190_circ_g.1 1_circ_ag.2 AT1G02190_circ_g.3 AT1G02190_circ_g.4 AT1G02190_circ_g.5 AT1G02205_circ_g.1 AT1G02205_circ_g.2 AT1G02205_circ_g.3 AT1G02205_circ_g.4 AT1G02205_circ_g.5 1_circ_igg.1 AT1G02280_circ_g.1 AT1G02300_circ_g.1 AT1G02300_circ_g.3 1_circ_ag.4 1_circ_ag.5 AT1G02300_circ_g.6 AT1G02300_circ_g.7 1_circ_ag.8 AT1G02300_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 AT1G02305_circ_g.1 AT1G02305_circ_g.2 AT1G02305_circ_g.3 AT1G02305_circ_g.4 AT1G02305_circ_g.5 AT1G02305_circ_g.6 AT1G02305_circ_g.7 						
					
						Support reads
						5
					
						Tissues
						root
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	1_circ_ag.2
ID in PlantcircBase	ath_circ_000252
Alias	1:453594-455902
Organism	Arabidpsis thaliana
Position	chr1: 453594-455902 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	1_circ_ag.36 AT1G02090_circ_g.1 AT1G02090_circ_g.2 AT1G02090_circ_g.3 AT1G02090_circ_g.4 AT1G02100_circ_g.1 AT1G02100_circ_g.2 AT1G02110_circ_g.1 AT1G02120_circ_g.1 AT1G02120_circ_g.2 AT1G02120_circ_g.3 AT1G02120_circ_g.4 AT1G02120_circ_g.5 AT1G02120_circ_g.6 AT1G02120_circ_g.7 AT1G02120_circ_g.8 AT1G02120_circ_g.9 AT1G02130_circ_g.1 AT1G02130_circ_g.2 AT1G02130_circ_g.3 AT1G02140_circ_g.1 AT1G02145_circ_g.1 AT1G02145_circ_g.2 AT1G02145_circ_g.3 AT1G02145_circ_g.4 AT1G02145_circ_g.5 AT1G02145_circ_g.6 AT1G02145_circ_g.7 AT1G02145_circ_g.8 AT1G02145_circ_g.9 AT1G02170_circ_g.1 AT1G02170_circ_g.2 AT1G02190_circ_g.1 1_circ_ag.2 AT1G02190_circ_g.3 AT1G02190_circ_g.4 AT1G02190_circ_g.5 AT1G02205_circ_g.1 AT1G02205_circ_g.2 AT1G02205_circ_g.3 AT1G02205_circ_g.4 AT1G02205_circ_g.5 1_circ_igg.1 AT1G02280_circ_g.1 AT1G02300_circ_g.1 AT1G02300_circ_g.3 1_circ_ag.4 1_circ_ag.5 AT1G02300_circ_g.6 AT1G02300_circ_g.7 1_circ_ag.8 AT1G02300_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 AT1G02305_circ_g.1 AT1G02305_circ_g.2 AT1G02305_circ_g.3 AT1G02305_circ_g.4 AT1G02305_circ_g.5 AT1G02305_circ_g.6 AT1G02305_circ_g.7
Support reads	5
Tissues	root
Exon boundary	NA-NA "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	NA

			
						 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  
						
							AAGAGAAAGATCCATGGCTGATAATTGTATCAGACTTCTTCACTCAGCCTCTGTTTTCTTCTGT
TTAGGGCTTCTAATTTCATCCTTCAACTTGTTGCAGggtattgcagcggaaaatctttccaagc
agaaactgacctcactgattcttcaggttttgatcttaatccacacaattatctgtattgtttt
cgtctctt

									
								

					

						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: 409
Transcript exons: 453594-453632,455242-455423,455715-455902
GGTATTGCAGCGGAAAATCTTTCCAAGCAGAAACTGACCGATGGTTACTTCAAGATCAGGAGAG
GAACGAACGAATGTGGCATTGAACAGAGTGTTGTAGCTGGTTTACCTTCAGAGAAGAACGTATT
TAAAGGTATTACCACTTCAGATGATCTTCTGGTTTCCTCAGTCTAAACAAGACGATGTGTCCCT
ACTTCTGTAATATATCATTTGCAACTGTGAGAAAACTTTGTACCTTTTCCAAAGTCTAAGCAAA
TCATTGTTTTTGATTACTGGAACTCGTTGAGGGATTGAGAAAAAAATAATCAGAAGAGAAAGAT
CCATGGCTGATAATTGTATCAGACTTCTTCACTCAGCCTCTGTTTTCTTCTGTTTAGGGCTTCT
AATTTCATCCTTCAACTTGTTGCAG
						
					

						Genomic sequence
						
							GGTATTGCAGCGGAAAATCTTTCCAAGCAGAAACTGACCTCACTGATTCTTCAGGTTTTGATCT
TAATCCACACAATTATCTGTATTGTTTTCGTCTCTTTTAGATTGCCTAAACGTTGATGATCAAC
TTTTGCAGAATGAGATTGTAAAGGAAGTCAATGAGAATCCAAACGCTGGTTGGAAAGCTGCTTT
CAATGATCGGTTTGCAAATGCCACCGTGAGTTTATTATCACCTCCATGCTCTTATCTCTTTAAG
AGCTACGTTACTTATCATTGTTCCTGAAAGTTTGTGTTTTTGTGTATGTATGTGCAGGTTGCAG
AGTTTAAGCGACTCCTCGGTGTTATACAAACACCAAAGACGGCATACTTAGGTGTACCTATTGT
AAGACATGATTTATCGTTGAAGCTTCCTAAAGAATTTGATGCTAGAACCGCTTGGTCACATTGC
ACCAGTATTCGAAGGATCTTAGGTCGGTTTTAATCTCTTAGCTTCCACTATCTCTGTCATTAAC
CCAATGATTTACTGACTCTTCTTATGTTTTGTTTCAAATTATCTCCCTCTTTATTGCACTAAAG
ATCAGGTGAAACATCATTTCATTTGAGTGGGTTATATATTGAACAATGTGTTACTCTGGTCGAC
GATAACTTTATGGTTTTGGTTTCTTTTGGGTCATTGTGGTTCTTGCTGGGCATTTGGTGCTGTT
GAATCACTGTCCGACAGGTTCTGCATCAAATATAACTTGGTAACACAACTTTCTCCATCAAGCC
AAGATTGACGATTGCTACAGCTTTTTAATGTAATTGCTCTTCTTCCCTTGCAGAATGTTTCCTT
ATCTGCCAATGATGTCATAGCATGTTGTGGATTACTTTGCGGTTTTGGTTGTAATGGTGGTTTC
CCAATGGGTGCATGGTTGTACTTTAAGTACCACGGTGTAGTAACCCAAGAGGTAAATTCTCAGC
AAAGAACAAATAATAATGGCAATGTGGTCAAAGTGTATTGAACTTTTGTAATGCTGTTGGTTCT
TCAGTGTGATCCATACTTTGACAATACTGGTTGCTCTCACCCGGGATGTGAACCCACTTACCCT
ACACCAAAATGTGAGAGGAAATGTGTAAGCAGAAACCAGCTATGGGGTGAATCAAAACACTATG
GTGTCGGCGCATACAGAATCAATCCTGACCCTCAAGACATTATGGCTGAGGTTTACAAGAATGG
ACCTGTCGAGGTTGCTTTTACCGTTTACGAGGTAATGAAAAAGATTTTTGATTGATCAAACCAT
ATTGATTATATCTTGGTGAAGTCCACATTTTCATGTATCTTTTTGTTCTTCAGGACTTTGCACA
TTACAAATCAGGAGTATACAAGTACATAACGGGTACTAAGATTGGAGGTCATGCAGTTAAGCTC
ATTGGCTGGGGAACTTCTGATGACGGCGAAGATTATTGGGTATGAATTCTCTGGATTTTGATTC
AGATCAAGCTGAAAAAGTAATAACATTTTCTTGTTCGTTGTTGCAGTTGCTTGCAAATCAATGG
AACCGAAGCTGGGGTGATGTAAGTTCTTCTTTTCTCCAATCAAAACTTTTAAATTAGACCTTCC
AAGTAAACAAAAGCACAGAACCTGAGATAGAAAATGTGAAAATCTCAGGATGGTTACTTCAAGA
TCAGGAGAGGAACGAACGAATGTGGCATTGAACAGAGTGTTGTAGCTGGTTTACCTTCAGAGAA
GAACGTATTTAAAGGTATTACCACTTCAGATGATCTTCTGGTTTCCTCAGTCTAAACAAGACGA
TGTGTCCCTACTTCTGTAATATATCATTTGCAACTGTGTTGTAAGTTTAATATACCATTGAAAG
AATCACCTTCAATCAAAACAAAAGTATGTATAGCTTCTGTTAATATTCAATTTTACATGTTACC
ATGCAAGAGGACTGTTACAGTGTTTATTTGGTTTTGGTAAATTATAGCCACCTAAAAGTAACGC
CTTAATTAATCATTTTAAATTATGATTAACAATCAAGTAAGTGGAACAAATCAACGGTCAGGAT
CTTATCCTCGCAGTAATATGATCTGTCATTCTCTAACTAAAAAGATAAGCCTCTCTCTGTCTCT
TCCTAGAAAAGAAAACTTTGTACCTTTTCCAAAGTCTAAGCAAATCATTGTTTTTGATTACTGG
AACTCGTTGAGGGATTGAGAAAAAAATAATCAGAAGAGAAAGATCCATGGCTGATAATTGTATC
AGACTTCTTCACTCAGCCTCTGTTTTCTTCTGTTTAGGGCTTCTAATTTCATCCTTCAACTTGT
TGCAG
						
					

			
		

Sequences
Splice junction sequence	AAGAGAAAGATCCATGGCTGATAATTGTATCAGACTTCTTCACTCAGCCTCTGTTTTCTTCTGT TTAGGGCTTCTAATTTCATCCTTCAACTTGTTGCAGggtattgcagcggaaaatctttccaagc agaaactgacctcactgattcttcaggttttgatcttaatccacacaattatctgtattgtttt cgtctctt
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: 409 Transcript exons: 453594-453632,455242-455423,455715-455902 GGTATTGCAGCGGAAAATCTTTCCAAGCAGAAACTGACCGATGGTTACTTCAAGATCAGGAGAG GAACGAACGAATGTGGCATTGAACAGAGTGTTGTAGCTGGTTTACCTTCAGAGAAGAACGTATT TAAAGGTATTACCACTTCAGATGATCTTCTGGTTTCCTCAGTCTAAACAAGACGATGTGTCCCT ACTTCTGTAATATATCATTTGCAACTGTGAGAAAACTTTGTACCTTTTCCAAAGTCTAAGCAAA TCATTGTTTTTGATTACTGGAACTCGTTGAGGGATTGAGAAAAAAATAATCAGAAGAGAAAGAT CCATGGCTGATAATTGTATCAGACTTCTTCACTCAGCCTCTGTTTTCTTCTGTTTAGGGCTTCT AATTTCATCCTTCAACTTGTTGCAG
Genomic sequence	GGTATTGCAGCGGAAAATCTTTCCAAGCAGAAACTGACCTCACTGATTCTTCAGGTTTTGATCT TAATCCACACAATTATCTGTATTGTTTTCGTCTCTTTTAGATTGCCTAAACGTTGATGATCAAC TTTTGCAGAATGAGATTGTAAAGGAAGTCAATGAGAATCCAAACGCTGGTTGGAAAGCTGCTTT CAATGATCGGTTTGCAAATGCCACCGTGAGTTTATTATCACCTCCATGCTCTTATCTCTTTAAG AGCTACGTTACTTATCATTGTTCCTGAAAGTTTGTGTTTTTGTGTATGTATGTGCAGGTTGCAG AGTTTAAGCGACTCCTCGGTGTTATACAAACACCAAAGACGGCATACTTAGGTGTACCTATTGT AAGACATGATTTATCGTTGAAGCTTCCTAAAGAATTTGATGCTAGAACCGCTTGGTCACATTGC ACCAGTATTCGAAGGATCTTAGGTCGGTTTTAATCTCTTAGCTTCCACTATCTCTGTCATTAAC CCAATGATTTACTGACTCTTCTTATGTTTTGTTTCAAATTATCTCCCTCTTTATTGCACTAAAG ATCAGGTGAAACATCATTTCATTTGAGTGGGTTATATATTGAACAATGTGTTACTCTGGTCGAC GATAACTTTATGGTTTTGGTTTCTTTTGGGTCATTGTGGTTCTTGCTGGGCATTTGGTGCTGTT GAATCACTGTCCGACAGGTTCTGCATCAAATATAACTTGGTAACACAACTTTCTCCATCAAGCC AAGATTGACGATTGCTACAGCTTTTTAATGTAATTGCTCTTCTTCCCTTGCAGAATGTTTCCTT ATCTGCCAATGATGTCATAGCATGTTGTGGATTACTTTGCGGTTTTGGTTGTAATGGTGGTTTC CCAATGGGTGCATGGTTGTACTTTAAGTACCACGGTGTAGTAACCCAAGAGGTAAATTCTCAGC AAAGAACAAATAATAATGGCAATGTGGTCAAAGTGTATTGAACTTTTGTAATGCTGTTGGTTCT TCAGTGTGATCCATACTTTGACAATACTGGTTGCTCTCACCCGGGATGTGAACCCACTTACCCT ACACCAAAATGTGAGAGGAAATGTGTAAGCAGAAACCAGCTATGGGGTGAATCAAAACACTATG GTGTCGGCGCATACAGAATCAATCCTGACCCTCAAGACATTATGGCTGAGGTTTACAAGAATGG ACCTGTCGAGGTTGCTTTTACCGTTTACGAGGTAATGAAAAAGATTTTTGATTGATCAAACCAT ATTGATTATATCTTGGTGAAGTCCACATTTTCATGTATCTTTTTGTTCTTCAGGACTTTGCACA TTACAAATCAGGAGTATACAAGTACATAACGGGTACTAAGATTGGAGGTCATGCAGTTAAGCTC ATTGGCTGGGGAACTTCTGATGACGGCGAAGATTATTGGGTATGAATTCTCTGGATTTTGATTC AGATCAAGCTGAAAAAGTAATAACATTTTCTTGTTCGTTGTTGCAGTTGCTTGCAAATCAATGG AACCGAAGCTGGGGTGATGTAAGTTCTTCTTTTCTCCAATCAAAACTTTTAAATTAGACCTTCC AAGTAAACAAAAGCACAGAACCTGAGATAGAAAATGTGAAAATCTCAGGATGGTTACTTCAAGA TCAGGAGAGGAACGAACGAATGTGGCATTGAACAGAGTGTTGTAGCTGGTTTACCTTCAGAGAA GAACGTATTTAAAGGTATTACCACTTCAGATGATCTTCTGGTTTCCTCAGTCTAAACAAGACGA TGTGTCCCTACTTCTGTAATATATCATTTGCAACTGTGTTGTAAGTTTAATATACCATTGAAAG AATCACCTTCAATCAAAACAAAAGTATGTATAGCTTCTGTTAATATTCAATTTTACATGTTACC ATGCAAGAGGACTGTTACAGTGTTTATTTGGTTTTGGTAAATTATAGCCACCTAAAAGTAACGC CTTAATTAATCATTTTAAATTATGATTAACAATCAAGTAAGTGGAACAAATCAACGGTCAGGAT CTTATCCTCGCAGTAATATGATCTGTCATTCTCTAACTAAAAAGATAAGCCTCTCTCTGTCTCT TCCTAGAAAAGAAAACTTTGTACCTTTTCCAAAGTCTAAGCAAATCATTGTTTTTGATTACTGG AACTCGTTGAGGGATTGAGAAAAAAATAATCAGAAGAGAAAGATCCATGGCTGATAATTGTATC AGACTTCTTCACTCAGCCTCTGTTTTCTTCTGTTTAGGGCTTCTAATTTCATCCTTCAACTTGT TGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.850435005

Conservation Information
Conserved circRNAs	NA
PMCS	0.850435005

			
						 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 1_circ_ag.2

Address

Any questions?

Supported by