Plant Circular RNA Database

Detail information of 1_circ_ag.6

			
						 General Information
					
						CircRNA Name
						1_circ_ag.6
					
						ID in PlantcircBase
						ath_circ_008309
					
						Alias
						1:22665289-22685702
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 22665289-22685702  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.2 AT1G61380_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.7 AT1G61430_circ_g.1 1_circ_ag.2 AT1G61430_circ_g.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G61520_circ_g.1 AT1G61520_circ_g.2 AT1G61520_circ_g.3 AT1G61520_circ_g.4 AT1G61520_circ_g.5 AT1G61520_circ_g.6 AT1G61520_circ_g.7 AT1G61520_circ_g.8 AT1G61520_circ_g.9 AT1G61520_circ_g.10 AT1G61520_circ_g.11 AT1G61520_circ_g.12 AT1G61520_circ_g.13 AT1G61520_circ_g.14 AT1G61520_circ_g.15 AT1G61520_circ_g.16 AT1G61520_circ_g.17 AT1G61520_circ_g.18 AT1G61520_circ_g.19 						
					
						Support reads
						1/3/2/1
					
						Tissues
						root;leaf;flower
					
						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  
						
							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
						NA

General Information
CircRNA Name	1_circ_ag.6
ID in PlantcircBase	ath_circ_008309
Alias	1:22665289-22685702
Organism	Arabidpsis thaliana
Position	chr1: 22665289-22685702 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.2 AT1G61380_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.7 AT1G61430_circ_g.1 1_circ_ag.2 AT1G61430_circ_g.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G61520_circ_g.1 AT1G61520_circ_g.2 AT1G61520_circ_g.3 AT1G61520_circ_g.4 AT1G61520_circ_g.5 AT1G61520_circ_g.6 AT1G61520_circ_g.7 AT1G61520_circ_g.8 AT1G61520_circ_g.9 AT1G61520_circ_g.10 AT1G61520_circ_g.11 AT1G61520_circ_g.12 AT1G61520_circ_g.13 AT1G61520_circ_g.14 AT1G61520_circ_g.15 AT1G61520_circ_g.16 AT1G61520_circ_g.17 AT1G61520_circ_g.18 AT1G61520_circ_g.19
Support reads	1/3/2/1
Tissues	root;leaf;flower
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	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	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  
						
							CTCTCCGATGATAATTTCTAGCAGTAGAACTCCGAAGCTGTAAATGTCTGATTTCTCAGAGAAT
ACTCCGGTCCATGCATACTCAGGAGACATATATCCTagagttccgacaaccctgcgagtttttt
cctgatattgggttccctgaaacatccgagccaaaccaaaatctgatattttcgggttcatttt
ctcatcca

									
								

					

						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: 1072
Transcript exons: 22665289-22665436,22666343-22666394,22666518-22666692,22
670876-22670966,22671090-22671128,22673274-22673383,2267
3459-22673625,22675163-22675341,22685592-22685702
AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC
CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG
GTGAATTACTCTGAGGCGTGGGTCAGGCTCACTGTACTAGCAACAATGGTCATCTTGCGCTTAT
TTACATCTCTAGCTCAGAACGTGCAAGACGAATGGAAAGAAGTTCTCCTGCTGCAGAAAATTGC
CTTGTGTCCATTAGATCCTTGCTCCACATTAAGCACCCTATTCCAGGAATATAAGAAAACGCCA
AGCAAGAACAATTGTGGAGGCAATTTTGGTGGCATTCTTCAGCATTCTGAGAATTCCAAAAACC
AAACGTGGCAAAGCCCAAGATCACAAAGAGGGTAAGGCTCACTGTACTAGCAACAATGGTCATC
TTGCGCTTATGTACATCTCTAGCTCAGAATGTGCAAGACGAATGGAAAGAATTTCTCCAAGAGC
GAGCGAGAGAGAGAGAGAGACAGAGAGTGATTTCTGCGGAGATGGAGGATTCAGGAGCGATTCT
ATGTCAGATCTCCATTTTCAAGGACATGCTTGATCAGGTCAGGTCAATCGGGAAATCGAAGCAA
ACATTCAGGTGACGCGAGAGATCGAATCACAGATCGGAGCGTGTTCTGAGATTGAATCTTCTCT
GTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTCAATTCGAGATCAGCGGTTTG
ATCTCCGTTACAGGCGAAGAGAAAAGTATCAAGGCTTTTGTTCAACATAAACTCATAAATCAAC
AGCCTCTCTTCTCCTTCAATGCAACATCCTAAAATCCGAACTAAGTTTTTGTGTTGTAGTTTTG
AGATGAGTACTATTTCATTCATGAACTCCTCTTTGCCCTGCCCTGAGCTGCTAGAAAGCCGTTT
TCTTGAGATCTTCTCTCCGATGATAATTTCTAGCAGTAGAACTCCGAAGCTGTAAATGTCTGAT
TTCTCAGAGAATACTCCGGTCCATGCATACTCAGGAGACATATATCCT
Transcript length: 1199
Transcript exons: 22665289-22665489,22666344-22666394,22666518-22666723,22
673271-22673383,22673459-22673624,22674940-22675068,2267
5163-22675300,22675318-22675375,22675452-22675555,226856
70-22685702
AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC
CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG
GTGAATTACTCTGAGGCGTGAGTCACGGTGGAGATAGAGAAGTCCACGTGCAATACCTTCAATG
ATCTCAAATGTCAGGCTCACTGTACTAGCAACAATGGTCATCTTGCGCTTATTTACATCTCTAG
CTCAGAACGTGCAAGACGAATGGAAAGAAGTTCTCCTGCTGCAGAAAATTGCCTTGTGTCCATT
AGATCCTTGCTCCACATTAAGCACCCTATTCCAGGAATATAAGAAAACGCCAAGCAAGAACAAT
TGTGGAGGCAATTTTGGTGGCATTCTTCAGCATTCTGAGAATTTGCATACTCGTAAAAGTCTGG
AGGCTTTATGAAGCAAGAGCGAGCGAGAGAGAGAGAGAGACAGAGAGTGATTTCTGCGGAGATG
GAGGATTCAGGAGCGATTCTATGTCAGATCTCCATTTTCAAGGACATGCTTGATCAGGTCAGGT
CAATCGGGAAATCGAAGCAAACATTCAGGTGACGCGAGAGATCGAATCACAGATCGGAGCGTGT
TCTGAGATTGAATCTTCTCTGTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTC
AATTCGAGATCAGCGGTTTGATCTCCGTTACAGGACCTTCAGATCACGGTGAATTACCTTGAGG
CATGAGTCACGATGGAGATAGTGAATTCCACGCGCAATACCTTGAATGATATCAAATCTCTTTG
GCCAGTCAATCTCAAGCCTTTTTCTTGAATCTAACGAAGAGAAAAGTATCAAGGCTTTTGTTCA
ACATAAACTCATAAATCAACAGCCTCTCTTCTCCTTCAATGCAACATCCTAAAATCCGAACTAA
GTTTTTGTGTTGTAGTTTTGAGATGAGTACTATTTCATTCATGACCTGAGCTGCTAGAAAGCCG
TTTTACAGCAATTTCTTTCCCATCTTGCAGCTTTCCCTCCTTGTAAACTGAACCAAATCCACCT
TGTCCCAGTTTATTTGAGAGACTGAAATTATTGGTGGCAGTTTGAATGGTGTTCATCTCAAACA
AATATGAACCTGAGCCGGTCCATGCATACTCAGGAGACATATATCCT
Transcript length: 785
Transcript exons: 22665289-22665512,22673499-22673624,22673700-22673747,22
674855-22674955,22674975-22675065,22675312-22675375,2267
5452-22675582
AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC
CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG
GTGAATTACTCTGAGGCGTGAGTCACGGTGGAGATAGAGAAGTCCACGTGCAATACCTTCAATG
ATCTCAAATCTCTTTGGCCAATCAAGTTCGAGGAGAGATCGAATCACAGATCGGAGCGTGTTCT
GAGATTGAATCTTCTCTGTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTCAAT
TCGAGATCAGCGGTTTGATCTCCGTTACAGAGCTGATTCAAGAAACTCTCTGAAGCTATTGGAG
GATGAGATTTGTTGCCTGATATTCGGTTCCCTGATACATCCGAGCCAATCCAAAATCTGATATC
TTTGGATTCATCTTCTCGTCAAGAAGAATATTGCTGACCTTCAGATCACGGAGTCACGATGGAG
ATAGTGAATTCCACGCGCAATACCTTGAATGATATCAAATCTCTTTGGCCAGTCAATCTCAAGC
CTTTTTCTTGAATCCCCTGCCCTGAGCTGCTAGAAAGCCGTTTTACAGCAATTTCTTTCCCATC
TTGCAGCTTTCCCTCCTTGTAAACTGAACCAAATCCACCTTGTCCCAGTTTATTTGAGAGACTG
AAATTATTGGTGGCAGTTTGAATGGTGTTCATCTCAAACAAATATGAACCTGAGACATCTTGTG
GTTCCAAATCATATTTC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CTCTCCGATGATAATTTCTAGCAGTAGAACTCCGAAGCTGTAAATGTCTGATTTCTCAGAGAAT ACTCCGGTCCATGCATACTCAGGAGACATATATCCTagagttccgacaaccctgcgagtttttt cctgatattgggttccctgaaacatccgagccaaaccaaaatctgatattttcgggttcatttt ctcatcca
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: 1072 Transcript exons: 22665289-22665436,22666343-22666394,22666518-22666692,22 670876-22670966,22671090-22671128,22673274-22673383,2267 3459-22673625,22675163-22675341,22685592-22685702 AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG GTGAATTACTCTGAGGCGTGGGTCAGGCTCACTGTACTAGCAACAATGGTCATCTTGCGCTTAT TTACATCTCTAGCTCAGAACGTGCAAGACGAATGGAAAGAAGTTCTCCTGCTGCAGAAAATTGC CTTGTGTCCATTAGATCCTTGCTCCACATTAAGCACCCTATTCCAGGAATATAAGAAAACGCCA AGCAAGAACAATTGTGGAGGCAATTTTGGTGGCATTCTTCAGCATTCTGAGAATTCCAAAAACC AAACGTGGCAAAGCCCAAGATCACAAAGAGGGTAAGGCTCACTGTACTAGCAACAATGGTCATC TTGCGCTTATGTACATCTCTAGCTCAGAATGTGCAAGACGAATGGAAAGAATTTCTCCAAGAGC GAGCGAGAGAGAGAGAGAGACAGAGAGTGATTTCTGCGGAGATGGAGGATTCAGGAGCGATTCT ATGTCAGATCTCCATTTTCAAGGACATGCTTGATCAGGTCAGGTCAATCGGGAAATCGAAGCAA ACATTCAGGTGACGCGAGAGATCGAATCACAGATCGGAGCGTGTTCTGAGATTGAATCTTCTCT GTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTCAATTCGAGATCAGCGGTTTG ATCTCCGTTACAGGCGAAGAGAAAAGTATCAAGGCTTTTGTTCAACATAAACTCATAAATCAAC AGCCTCTCTTCTCCTTCAATGCAACATCCTAAAATCCGAACTAAGTTTTTGTGTTGTAGTTTTG AGATGAGTACTATTTCATTCATGAACTCCTCTTTGCCCTGCCCTGAGCTGCTAGAAAGCCGTTT TCTTGAGATCTTCTCTCCGATGATAATTTCTAGCAGTAGAACTCCGAAGCTGTAAATGTCTGAT TTCTCAGAGAATACTCCGGTCCATGCATACTCAGGAGACATATATCCT Transcript length: 1199 Transcript exons: 22665289-22665489,22666344-22666394,22666518-22666723,22 673271-22673383,22673459-22673624,22674940-22675068,2267 5163-22675300,22675318-22675375,22675452-22675555,226856 70-22685702 AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG GTGAATTACTCTGAGGCGTGAGTCACGGTGGAGATAGAGAAGTCCACGTGCAATACCTTCAATG ATCTCAAATGTCAGGCTCACTGTACTAGCAACAATGGTCATCTTGCGCTTATTTACATCTCTAG CTCAGAACGTGCAAGACGAATGGAAAGAAGTTCTCCTGCTGCAGAAAATTGCCTTGTGTCCATT AGATCCTTGCTCCACATTAAGCACCCTATTCCAGGAATATAAGAAAACGCCAAGCAAGAACAAT TGTGGAGGCAATTTTGGTGGCATTCTTCAGCATTCTGAGAATTTGCATACTCGTAAAAGTCTGG AGGCTTTATGAAGCAAGAGCGAGCGAGAGAGAGAGAGAGACAGAGAGTGATTTCTGCGGAGATG GAGGATTCAGGAGCGATTCTATGTCAGATCTCCATTTTCAAGGACATGCTTGATCAGGTCAGGT CAATCGGGAAATCGAAGCAAACATTCAGGTGACGCGAGAGATCGAATCACAGATCGGAGCGTGT TCTGAGATTGAATCTTCTCTGTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTC AATTCGAGATCAGCGGTTTGATCTCCGTTACAGGACCTTCAGATCACGGTGAATTACCTTGAGG CATGAGTCACGATGGAGATAGTGAATTCCACGCGCAATACCTTGAATGATATCAAATCTCTTTG GCCAGTCAATCTCAAGCCTTTTTCTTGAATCTAACGAAGAGAAAAGTATCAAGGCTTTTGTTCA ACATAAACTCATAAATCAACAGCCTCTCTTCTCCTTCAATGCAACATCCTAAAATCCGAACTAA GTTTTTGTGTTGTAGTTTTGAGATGAGTACTATTTCATTCATGACCTGAGCTGCTAGAAAGCCG TTTTACAGCAATTTCTTTCCCATCTTGCAGCTTTCCCTCCTTGTAAACTGAACCAAATCCACCT TGTCCCAGTTTATTTGAGAGACTGAAATTATTGGTGGCAGTTTGAATGGTGTTCATCTCAAACA AATATGAACCTGAGCCGGTCCATGCATACTCAGGAGACATATATCCT Transcript length: 785 Transcript exons: 22665289-22665512,22673499-22673624,22673700-22673747,22 674855-22674955,22674975-22675065,22675312-22675375,2267 5452-22675582 AGAGTTCCGACAACCCTGCGAGTTTTTTCCTGATATTGGGTTCCCTGAAACATCCGAGCCAAAC CAAAATCTGATATTTTCGGGTTCATTTTCTCATCCAGAAGAATGTTGCTGACCTTCAGGTCTCG GTGAATTACTCTGAGGCGTGAGTCACGGTGGAGATAGAGAAGTCCACGTGCAATACCTTCAATG ATCTCAAATCTCTTTGGCCAATCAAGTTCGAGGAGAGATCGAATCACAGATCGGAGCGTGTTCT GAGATTGAATCTTCTCTGTCTCTCAAGGAACCTGAGCTTACTAGATCGTTCCTTGCTTCTCAAT TCGAGATCAGCGGTTTGATCTCCGTTACAGAGCTGATTCAAGAAACTCTCTGAAGCTATTGGAG GATGAGATTTGTTGCCTGATATTCGGTTCCCTGATACATCCGAGCCAATCCAAAATCTGATATC TTTGGATTCATCTTCTCGTCAAGAAGAATATTGCTGACCTTCAGATCACGGAGTCACGATGGAG ATAGTGAATTCCACGCGCAATACCTTGAATGATATCAAATCTCTTTGGCCAGTCAATCTCAAGC CTTTTTCTTGAATCCCCTGCCCTGAGCTGCTAGAAAGCCGTTTTACAGCAATTTCTTTCCCATC TTGCAGCTTTCCCTCCTTGTAAACTGAACCAAATCCACCTTGTCCCAGTTTATTTGAGAGACTG AAATTATTGGTGGCAGTTTGAATGGTGTTCATCTCAAACAAATATGAACCTGAGACATCTTGTG GTTCCAAATCATATTTC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.457368059

Conservation Information
Conserved circRNAs	NA
PMCS	0.457368059

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR167a-3p 						
					
						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	ath-miR167a-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of 1_circ_ag.6

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