Plant Circular RNA Database

Detail information of 1_circ_ag.16

			
						 General Information
					
						CircRNA Name
						1_circ_ag.16
					
						ID in PlantcircBase
						ath_circ_004886
					
						Alias
						1:10475084-10478799
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10475084-10478799  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
						
							AT1G29910_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G29910_circ_g.5 AT1G29910_circ_g.6 AT1G29910_circ_g.7 AT1G29910_circ_g.8 AT1G29910_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 1_circ_ag.13 1_circ_ag.14 1_circ_ag.15 AT1G29920_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G29920_circ_g.5 1_circ_ag.6 AT1G29920_circ_g.7 AT1G29920_circ_g.8 1_circ_ag.9 AT1G29920_circ_g.10 AT1G29930_circ_g.1 AT1G29930_circ_g.2 AT1G29930_circ_g.3 AT1G29930_circ_g.4 AT1G29930_circ_g.5 AT1G29930_circ_g.6 AT1G29930_circ_g.7 AT1G29930_circ_g.8 AT1G29930_circ_g.9 AT1G29930_circ_g.10 AT1G29930_circ_g.11 AT1G29930_circ_g.12 AT1G29930_circ_g.13 AT1G29930_circ_g.14 AT1G29930_circ_g.15 AT1G29930_circ_g.16 AT1G29930_circ_g.17 AT1G29930_circ_g.18 AT1G29930_circ_g.19 AT1G29930_circ_g.20 AT1G29930_circ_g.21 AT1G29930_circ_g.22 AT1G29930_circ_g.23 						
					
						Support reads
						1/3
					
						Tissues
						seedling;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.16
ID in PlantcircBase	ath_circ_004886
Alias	1:10475084-10478799
Organism	Arabidpsis thaliana
Position	chr1: 10475084-10478799 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	AT1G29910_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G29910_circ_g.5 AT1G29910_circ_g.6 AT1G29910_circ_g.7 AT1G29910_circ_g.8 AT1G29910_circ_g.9 1_circ_ag.10 1_circ_ag.11 1_circ_ag.12 1_circ_ag.13 1_circ_ag.14 1_circ_ag.15 AT1G29920_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G29920_circ_g.5 1_circ_ag.6 AT1G29920_circ_g.7 AT1G29920_circ_g.8 1_circ_ag.9 AT1G29920_circ_g.10 AT1G29930_circ_g.1 AT1G29930_circ_g.2 AT1G29930_circ_g.3 AT1G29930_circ_g.4 AT1G29930_circ_g.5 AT1G29930_circ_g.6 AT1G29930_circ_g.7 AT1G29930_circ_g.8 AT1G29930_circ_g.9 AT1G29930_circ_g.10 AT1G29930_circ_g.11 AT1G29930_circ_g.12 AT1G29930_circ_g.13 AT1G29930_circ_g.14 AT1G29930_circ_g.15 AT1G29930_circ_g.16 AT1G29930_circ_g.17 AT1G29930_circ_g.18 AT1G29930_circ_g.19 AT1G29930_circ_g.20 AT1G29930_circ_g.21 AT1G29930_circ_g.22 AT1G29930_circ_g.23
Support reads	1/3
Tissues	seedling;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  
						
							GTTGAAGGTGAAGGAGCTCAAGAACGGAAGATTGGCTATGTTCTCTATGTTTGGATTCTTCGTT
CAAGCCATCGTCACTGGTAAGGGACCGATAGAGAACttggctcactttccgggaacaaagttgg
tggcaaaggcccaagcgttgttgttgactggatcggccaaatggtcagcaaggttctctatcgg
tcccttac

									
								

					

						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) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							TTGGCTCACTTTCCGGGAACAAAGTTGGTGGCAAAGGCCCAAGCGTTGTTGTTGACTGGATCGG
CCAAATGGTCAGCAAGGTTCTCTATCGGTCCCTTACCAGTGACGATGGCTTGAACGAAGAATCC
AAACATAGAGAACATAGCCAATCTTCCGTTCTTGAGCTCCTTTACCTTCAACTCAGCGAAGGCC
TCTGGGTCGGTAGCCAAACCCAATGGGTCGAAACTGCCACCGGGGTAAAGCAAGTCCTCGGCCT
CTCCCAATGGCCCATTTCCTGCGACTCTGTAACCTTCAACGGCTCCCATCAAAATAACTTGTGT
GGCCCAAATGGCCAAAATGCTCTGAGCGTGAACCAAGCTAGGGTTTCCCAAGTAATCGAGCCCT
CCATCGCTGAAGATCTGTGAACCAGCCTTGAACCAAACTGCCTCTCCAAACTTGACTCCGTTCC
TGGCCAAAAGCTCAGGGAAGACGCAGCCTAGGGCTCCGAGCATGGCCCACCTGCTGTGGATAAC
TTCTAGCTCACGGTTCCTTGCGAATGTCTCGGGGTCAGCGGATAGACCAGCTGTGTCCCATCCG
TAGTCTCCAGGGAACTCTCCGGTAAGGTAGCTGGGTGACTCGCCAGAGAATGGACCCAAGTACT
TGACTCGGTCGGATCCGTACCATGGGCTGCCTGATGGACCCTTTGGCTTGGCAACAGTCTTCCT
CATTGTCACACGGCCGCTTCCAAGGACTTCTGATGCCGCAGGGGAAAGGTTCACAGCCTTTCCG
GCGAAAGCAGGGGAGGAGAGAGCCATTGTTGAGGCGGCCATTGAAACTTTTTTGTGTTTTTTTT
TTTTTTATGACTAACTTGTGAGTGAGAGTGATTAAAACTGGTTCGATAGTGTTGGATTATATAG
GGATATTGTAACGTTTGTTATATCTGAAGTAATCTTTATCTGTTCATTCATTGGATTTTAAGAT
TTTTGTTTTATCGTTTAGTAGTCTTACGTGGCAATCTCTAGTCCACCAGCATTTGTTTTGATTT
TTTCATTGCAGCCAAGCGTTTTGTGACCACAAGTTATGAGCCACTGAATACTTCAACGGTTACA
CTTACTTACACCCTCGTGACAAGAATGATTTTTGCTACAACCCAATAACTAAAACTTAAAGTAT
AACATTTTGAAAATATAGATTCTGATGATCGAAACATTAATATAAAGTAACATTATAAAAAGCA
TTTACCCACACATAAATATCAATATTTTCAATGGTAATTAGTTCATCATCACTACCAGTTTAAT
TTCAATTATGAATCGATTTCATCGTCACTTTATCCAATAACCAAAATAATCTCATGAATTATGT
GATATCACCTTAAAACTTTGACGTTTTACTCTTTATCGAAGAAACACAACGATTAATGAAACAC
TGTTTTAACTTATCGACCATTTCTAAGAACATGAAAGAACTATATTAATTCATATGGCATGTTC
ATCATCATGGGTTTAGACTTTAGAGAACATATAGCTACTTTTTTTCTTATCATGATTCAAGTTA
TCTTTATTGTAAACTTCAACAACCTTTTGAACAAACTTATTTATTCGCTTTTTCCGAATTCATC
AACAAATTACTCCTCAATCACACTCCTATAGAAAACGGTTTAAGCTATCATTACATGTCTAGTT
GGTTTTACTCAGCCCTAGAAGTGTTGTTTATTGCATCACTTTCCACGAAGCACAATTTTTCTTT
TTTACAATCACTAGACCTCACAGGCTCACACATATGCTTTAGAGCACATTCTAAACTTTGAACT
ATAAAAGCTGTTAACACTAATACACTATGCGTTCTTTTTTGCTCCAAACACTTTTGATCCATTA
TTAGGAGACACTCCACTTAGAAAGATTTTCTAATCCTTTGGTCAACTAGGAAGTTCAAGGTTTT
TCTAAACAGAAATTCATTTCACAAGTAATTTAATTTATAAGGAAATGAATAGAGAAATCAAATC
ATTGAAGAACTACAAAATATAGATTCAAGGTCAGGTCTAAGAAAATATTCCTGAAGCTCAAAAA
AGAGTTTTCCTCTCACATTATAGAATTGGCCTTTACTTCAACATTTTCCCACCTATTCCACATT
TGGTCAGAACATTTTTAATTACTTGTGGATCAATTTCCGGTTGAAATGGGTTTGGTGAATATCC
GGTTCAGTTATATGGTGGCCGTTGGAATTGGCTTATTAGTTGTGGCCGTTGTTGAAGCCGTTGG
TATTGGTAAGGGAGAAGCAGACTTGTGGCTATGAGTCTATGACCATGACTCGTGATTATGGAGC
TGTCTTATGACCCTGACCATCACCTTGATCTGGTGGATTCCAATGTTTTCTTCTTCTTCTAATA
AAATATTATGGTCAATACAGGTGCTAATTAAGATGGTAATAATTTCTTATGTTTCTGTGGTAAA
GTTTGATTCAATTCCGTAGTTTTAGATAATCTTATTTCCATACATAAATTTTATAGTTTTATCT
ACTTTGTTCTTATGTTTTATCTCTAGCCAAGAGTTATTATTATTATCAGAAGAAGAAAAAAAAA
AGAAGCATATATACAAAAGGTTTAATAAAATGTATTATACAAGGCAATTATCCAAATTTTTTTT
GTTTTGGTTTACATTGATGCTCTCAGGATTTCATAAGGATAGAGAGATCTATTCGTATACGTGT
CACGTCATGAGTGGGTGTTTCGCCAATCCATGAAACGCACCTAGATATCTAAAACACATATCAA
TTGCGAATCTGCGAAGTGCGAGCCATTAACCACGTAAGCAAACAAACAATCTAAACCCCAAAAA
AAATCTATGACTAGCCAATAGCAACCTCAGAGATTGATATTTCAAGATAAGACAGTATTTAGAT
TTCTGTATTATATATAGCGAAAATCGCATCAATACCAAACCACCCATTTCTTGGCTTACAACAA
CAAATCTTAAACGTTTTACTTTGTGCTGCACTACTCAACCTCAATGGCCGCCTCAACAATGGCT
CTCTCCTCCCCTGCCTTCGCCGGTAAGGCCGTCAAGCTTTCCCCCGCGGCATCTGAAGTCCTTG
GAAGCGGCCGTGTGACAATGAGGAAGACTGTTGCCAAGCCAAAGGGCCCATCAGGCAGCCCATG
GTACGGATCTGACCGTGTCAAGTACTTGGGTCCATTCTCTGGCGAATCACCGAGCTACCTTACC
GGAGAGTTCCCCGGAGACTACGGATGGGACACCGCCGGACTTTCAGCTGACCCCGAGACATTCG
CAAGGAACCGTGAACTAGAAGTTATCCACAGCAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGT
CTTCCCTGAGCTTTTGGCTAGAAACGGAGTCAAGTTCGGAGAGGCGGTTTGGTTCAAGGCCGGT
TCACAGATCTTCAGCGATGGAGGGCTCGATTACTTGGGAAACCCTAGCTTGGTTCACGCTCAGA
GCATTTTGGCCATTTGGGCCACACAAGTTATTTTGATGGGAGCCGTTGAAGGCTACAGAGTCGC
AGGAAATGGGCCATTGGGAGAGGCCGAGGACTTGCTTTACCCCGGTGGCAGCTTCGACCCATTG
GGTTTGGCTACCGACCCAGAGGCATTCGCTGAGTTGAAGGTGAAGGAGCTCAAGAACGGAAGAT
TGGCTATGTTCTCTATGTTTGGATTCTTCGTTCAAGCCATCGTCACTGGTAAGGGACCGATAGA
GAAC
						
					

			
		

Sequences
Splice junction sequence	GTTGAAGGTGAAGGAGCTCAAGAACGGAAGATTGGCTATGTTCTCTATGTTTGGATTCTTCGTT CAAGCCATCGTCACTGGTAAGGGACCGATAGAGAACttggctcactttccgggaacaaagttgg tggcaaaggcccaagcgttgttgttgactggatcggccaaatggtcagcaaggttctctatcgg tcccttac
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) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	TTGGCTCACTTTCCGGGAACAAAGTTGGTGGCAAAGGCCCAAGCGTTGTTGTTGACTGGATCGG CCAAATGGTCAGCAAGGTTCTCTATCGGTCCCTTACCAGTGACGATGGCTTGAACGAAGAATCC AAACATAGAGAACATAGCCAATCTTCCGTTCTTGAGCTCCTTTACCTTCAACTCAGCGAAGGCC TCTGGGTCGGTAGCCAAACCCAATGGGTCGAAACTGCCACCGGGGTAAAGCAAGTCCTCGGCCT CTCCCAATGGCCCATTTCCTGCGACTCTGTAACCTTCAACGGCTCCCATCAAAATAACTTGTGT GGCCCAAATGGCCAAAATGCTCTGAGCGTGAACCAAGCTAGGGTTTCCCAAGTAATCGAGCCCT CCATCGCTGAAGATCTGTGAACCAGCCTTGAACCAAACTGCCTCTCCAAACTTGACTCCGTTCC TGGCCAAAAGCTCAGGGAAGACGCAGCCTAGGGCTCCGAGCATGGCCCACCTGCTGTGGATAAC TTCTAGCTCACGGTTCCTTGCGAATGTCTCGGGGTCAGCGGATAGACCAGCTGTGTCCCATCCG TAGTCTCCAGGGAACTCTCCGGTAAGGTAGCTGGGTGACTCGCCAGAGAATGGACCCAAGTACT TGACTCGGTCGGATCCGTACCATGGGCTGCCTGATGGACCCTTTGGCTTGGCAACAGTCTTCCT CATTGTCACACGGCCGCTTCCAAGGACTTCTGATGCCGCAGGGGAAAGGTTCACAGCCTTTCCG GCGAAAGCAGGGGAGGAGAGAGCCATTGTTGAGGCGGCCATTGAAACTTTTTTGTGTTTTTTTT TTTTTTATGACTAACTTGTGAGTGAGAGTGATTAAAACTGGTTCGATAGTGTTGGATTATATAG GGATATTGTAACGTTTGTTATATCTGAAGTAATCTTTATCTGTTCATTCATTGGATTTTAAGAT TTTTGTTTTATCGTTTAGTAGTCTTACGTGGCAATCTCTAGTCCACCAGCATTTGTTTTGATTT TTTCATTGCAGCCAAGCGTTTTGTGACCACAAGTTATGAGCCACTGAATACTTCAACGGTTACA CTTACTTACACCCTCGTGACAAGAATGATTTTTGCTACAACCCAATAACTAAAACTTAAAGTAT AACATTTTGAAAATATAGATTCTGATGATCGAAACATTAATATAAAGTAACATTATAAAAAGCA TTTACCCACACATAAATATCAATATTTTCAATGGTAATTAGTTCATCATCACTACCAGTTTAAT TTCAATTATGAATCGATTTCATCGTCACTTTATCCAATAACCAAAATAATCTCATGAATTATGT GATATCACCTTAAAACTTTGACGTTTTACTCTTTATCGAAGAAACACAACGATTAATGAAACAC TGTTTTAACTTATCGACCATTTCTAAGAACATGAAAGAACTATATTAATTCATATGGCATGTTC ATCATCATGGGTTTAGACTTTAGAGAACATATAGCTACTTTTTTTCTTATCATGATTCAAGTTA TCTTTATTGTAAACTTCAACAACCTTTTGAACAAACTTATTTATTCGCTTTTTCCGAATTCATC AACAAATTACTCCTCAATCACACTCCTATAGAAAACGGTTTAAGCTATCATTACATGTCTAGTT GGTTTTACTCAGCCCTAGAAGTGTTGTTTATTGCATCACTTTCCACGAAGCACAATTTTTCTTT TTTACAATCACTAGACCTCACAGGCTCACACATATGCTTTAGAGCACATTCTAAACTTTGAACT ATAAAAGCTGTTAACACTAATACACTATGCGTTCTTTTTTGCTCCAAACACTTTTGATCCATTA TTAGGAGACACTCCACTTAGAAAGATTTTCTAATCCTTTGGTCAACTAGGAAGTTCAAGGTTTT TCTAAACAGAAATTCATTTCACAAGTAATTTAATTTATAAGGAAATGAATAGAGAAATCAAATC ATTGAAGAACTACAAAATATAGATTCAAGGTCAGGTCTAAGAAAATATTCCTGAAGCTCAAAAA AGAGTTTTCCTCTCACATTATAGAATTGGCCTTTACTTCAACATTTTCCCACCTATTCCACATT TGGTCAGAACATTTTTAATTACTTGTGGATCAATTTCCGGTTGAAATGGGTTTGGTGAATATCC GGTTCAGTTATATGGTGGCCGTTGGAATTGGCTTATTAGTTGTGGCCGTTGTTGAAGCCGTTGG TATTGGTAAGGGAGAAGCAGACTTGTGGCTATGAGTCTATGACCATGACTCGTGATTATGGAGC TGTCTTATGACCCTGACCATCACCTTGATCTGGTGGATTCCAATGTTTTCTTCTTCTTCTAATA AAATATTATGGTCAATACAGGTGCTAATTAAGATGGTAATAATTTCTTATGTTTCTGTGGTAAA GTTTGATTCAATTCCGTAGTTTTAGATAATCTTATTTCCATACATAAATTTTATAGTTTTATCT ACTTTGTTCTTATGTTTTATCTCTAGCCAAGAGTTATTATTATTATCAGAAGAAGAAAAAAAAA AGAAGCATATATACAAAAGGTTTAATAAAATGTATTATACAAGGCAATTATCCAAATTTTTTTT GTTTTGGTTTACATTGATGCTCTCAGGATTTCATAAGGATAGAGAGATCTATTCGTATACGTGT CACGTCATGAGTGGGTGTTTCGCCAATCCATGAAACGCACCTAGATATCTAAAACACATATCAA TTGCGAATCTGCGAAGTGCGAGCCATTAACCACGTAAGCAAACAAACAATCTAAACCCCAAAAA AAATCTATGACTAGCCAATAGCAACCTCAGAGATTGATATTTCAAGATAAGACAGTATTTAGAT TTCTGTATTATATATAGCGAAAATCGCATCAATACCAAACCACCCATTTCTTGGCTTACAACAA CAAATCTTAAACGTTTTACTTTGTGCTGCACTACTCAACCTCAATGGCCGCCTCAACAATGGCT CTCTCCTCCCCTGCCTTCGCCGGTAAGGCCGTCAAGCTTTCCCCCGCGGCATCTGAAGTCCTTG GAAGCGGCCGTGTGACAATGAGGAAGACTGTTGCCAAGCCAAAGGGCCCATCAGGCAGCCCATG GTACGGATCTGACCGTGTCAAGTACTTGGGTCCATTCTCTGGCGAATCACCGAGCTACCTTACC GGAGAGTTCCCCGGAGACTACGGATGGGACACCGCCGGACTTTCAGCTGACCCCGAGACATTCG CAAGGAACCGTGAACTAGAAGTTATCCACAGCAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGT CTTCCCTGAGCTTTTGGCTAGAAACGGAGTCAAGTTCGGAGAGGCGGTTTGGTTCAAGGCCGGT TCACAGATCTTCAGCGATGGAGGGCTCGATTACTTGGGAAACCCTAGCTTGGTTCACGCTCAGA GCATTTTGGCCATTTGGGCCACACAAGTTATTTTGATGGGAGCCGTTGAAGGCTACAGAGTCGC AGGAAATGGGCCATTGGGAGAGGCCGAGGACTTGCTTTACCCCGGTGGCAGCTTCGACCCATTG GGTTTGGCTACCGACCCAGAGGCATTCGCTGAGTTGAAGGTGAAGGAGCTCAAGAACGGAAGAT TGGCTATGTTCTCTATGTTTGGATTCTTCGTTCAAGCCATCGTCACTGGTAAGGGACCGATAGA GAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.374144178

Conservation Information
Conserved circRNAs	NA
PMCS	0.374144178

			
						 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.16

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