Plant Circular RNA Database

Detail information of 1_circ_ag.9

			
						 General Information
					
						CircRNA Name
						1_circ_ag.9
					
						ID in PlantcircBase
						ath_circ_004895
					
						Alias
						1:10475563-10478462
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10475563-10478462  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 1_circ_ag.16 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 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
						2
					
						Tissues
						leaf
					
						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.9
ID in PlantcircBase	ath_circ_004895
Alias	1:10475563-10478462
Organism	Arabidpsis thaliana
Position	chr1: 10475563-10478462 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 1_circ_ag.16 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 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	2
Tissues	leaf
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  
						
							TAGAAGTTATCCACAGCAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGTCTTCCCTGAGCTTTT
GGCTAGAAACGGAGTCAAGTTCGGAGAGGCGGTTTGggctccgagcatggcccacctgctgtgg
ataacttctagctcacggttccttgcgaatgtctcggggtcagcggatagaccagctgtgtccc
atccgtag

									
								

					

						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
						
							GGCTCCGAGCATGGCCCACCTGCTGTGGATAACTTCTAGCTCACGGTTCCTTGCGAATGTCTCG
GGGTCAGCGGATAGACCAGCTGTGTCCCATCCGTAGTCTCCAGGGAACTCTCCGGTAAGGTAGC
TGGGTGACTCGCCAGAGAATGGACCCAAGTACTTGACTCGGTCGGATCCGTACCATGGGCTGCC
TGATGGACCCTTTGGCTTGGCAACAGTCTTCCTCATTGTCACACGGCCGCTTCCAAGGACTTCT
GATGCCGCAGGGGAAAGGTTCACAGCCTTTCCGGCGAAAGCAGGGGAGGAGAGAGCCATTGTTG
AGGCGGCCATTGAAACTTTTTTGTGTTTTTTTTTTTTTTATGACTAACTTGTGAGTGAGAGTGA
TTAAAACTGGTTCGATAGTGTTGGATTATATAGGGATATTGTAACGTTTGTTATATCTGAAGTA
ATCTTTATCTGTTCATTCATTGGATTTTAAGATTTTTGTTTTATCGTTTAGTAGTCTTACGTGG
CAATCTCTAGTCCACCAGCATTTGTTTTGATTTTTTCATTGCAGCCAAGCGTTTTGTGACCACA
AGTTATGAGCCACTGAATACTTCAACGGTTACACTTACTTACACCCTCGTGACAAGAATGATTT
TTGCTACAACCCAATAACTAAAACTTAAAGTATAACATTTTGAAAATATAGATTCTGATGATCG
AAACATTAATATAAAGTAACATTATAAAAAGCATTTACCCACACATAAATATCAATATTTTCAA
TGGTAATTAGTTCATCATCACTACCAGTTTAATTTCAATTATGAATCGATTTCATCGTCACTTT
ATCCAATAACCAAAATAATCTCATGAATTATGTGATATCACCTTAAAACTTTGACGTTTTACTC
TTTATCGAAGAAACACAACGATTAATGAAACACTGTTTTAACTTATCGACCATTTCTAAGAACA
TGAAAGAACTATATTAATTCATATGGCATGTTCATCATCATGGGTTTAGACTTTAGAGAACATA
TAGCTACTTTTTTTCTTATCATGATTCAAGTTATCTTTATTGTAAACTTCAACAACCTTTTGAA
CAAACTTATTTATTCGCTTTTTCCGAATTCATCAACAAATTACTCCTCAATCACACTCCTATAG
AAAACGGTTTAAGCTATCATTACATGTCTAGTTGGTTTTACTCAGCCCTAGAAGTGTTGTTTAT
TGCATCACTTTCCACGAAGCACAATTTTTCTTTTTTACAATCACTAGACCTCACAGGCTCACAC
ATATGCTTTAGAGCACATTCTAAACTTTGAACTATAAAAGCTGTTAACACTAATACACTATGCG
TTCTTTTTTGCTCCAAACACTTTTGATCCATTATTAGGAGACACTCCACTTAGAAAGATTTTCT
AATCCTTTGGTCAACTAGGAAGTTCAAGGTTTTTCTAAACAGAAATTCATTTCACAAGTAATTT
AATTTATAAGGAAATGAATAGAGAAATCAAATCATTGAAGAACTACAAAATATAGATTCAAGGT
CAGGTCTAAGAAAATATTCCTGAAGCTCAAAAAAGAGTTTTCCTCTCACATTATAGAATTGGCC
TTTACTTCAACATTTTCCCACCTATTCCACATTTGGTCAGAACATTTTTAATTACTTGTGGATC
AATTTCCGGTTGAAATGGGTTTGGTGAATATCCGGTTCAGTTATATGGTGGCCGTTGGAATTGG
CTTATTAGTTGTGGCCGTTGTTGAAGCCGTTGGTATTGGTAAGGGAGAAGCAGACTTGTGGCTA
TGAGTCTATGACCATGACTCGTGATTATGGAGCTGTCTTATGACCCTGACCATCACCTTGATCT
GGTGGATTCCAATGTTTTCTTCTTCTTCTAATAAAATATTATGGTCAATACAGGTGCTAATTAA
GATGGTAATAATTTCTTATGTTTCTGTGGTAAAGTTTGATTCAATTCCGTAGTTTTAGATAATC
TTATTTCCATACATAAATTTTATAGTTTTATCTACTTTGTTCTTATGTTTTATCTCTAGCCAAG
AGTTATTATTATTATCAGAAGAAGAAAAAAAAAAGAAGCATATATACAAAAGGTTTAATAAAAT
GTATTATACAAGGCAATTATCCAAATTTTTTTTGTTTTGGTTTACATTGATGCTCTCAGGATTT
CATAAGGATAGAGAGATCTATTCGTATACGTGTCACGTCATGAGTGGGTGTTTCGCCAATCCAT
GAAACGCACCTAGATATCTAAAACACATATCAATTGCGAATCTGCGAAGTGCGAGCCATTAACC
ACGTAAGCAAACAAACAATCTAAACCCCAAAAAAAATCTATGACTAGCCAATAGCAACCTCAGA
GATTGATATTTCAAGATAAGACAGTATTTAGATTTCTGTATTATATATAGCGAAAATCGCATCA
ATACCAAACCACCCATTTCTTGGCTTACAACAACAAATCTTAAACGTTTTACTTTGTGCTGCAC
TACTCAACCTCAATGGCCGCCTCAACAATGGCTCTCTCCTCCCCTGCCTTCGCCGGTAAGGCCG
TCAAGCTTTCCCCCGCGGCATCTGAAGTCCTTGGAAGCGGCCGTGTGACAATGAGGAAGACTGT
TGCCAAGCCAAAGGGCCCATCAGGCAGCCCATGGTACGGATCTGACCGTGTCAAGTACTTGGGT
CCATTCTCTGGCGAATCACCGAGCTACCTTACCGGAGAGTTCCCCGGAGACTACGGATGGGACA
CCGCCGGACTTTCAGCTGACCCCGAGACATTCGCAAGGAACCGTGAACTAGAAGTTATCCACAG
CAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGTCTTCCCTGAGCTTTTGGCTAGAAACGGAGTC
AAGTTCGGAGAGGCGGTTTG
						
					

			
		

Sequences
Splice junction sequence	TAGAAGTTATCCACAGCAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGTCTTCCCTGAGCTTTT GGCTAGAAACGGAGTCAAGTTCGGAGAGGCGGTTTGggctccgagcatggcccacctgctgtgg ataacttctagctcacggttccttgcgaatgtctcggggtcagcggatagaccagctgtgtccc atccgtag
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	GGCTCCGAGCATGGCCCACCTGCTGTGGATAACTTCTAGCTCACGGTTCCTTGCGAATGTCTCG GGGTCAGCGGATAGACCAGCTGTGTCCCATCCGTAGTCTCCAGGGAACTCTCCGGTAAGGTAGC TGGGTGACTCGCCAGAGAATGGACCCAAGTACTTGACTCGGTCGGATCCGTACCATGGGCTGCC TGATGGACCCTTTGGCTTGGCAACAGTCTTCCTCATTGTCACACGGCCGCTTCCAAGGACTTCT GATGCCGCAGGGGAAAGGTTCACAGCCTTTCCGGCGAAAGCAGGGGAGGAGAGAGCCATTGTTG AGGCGGCCATTGAAACTTTTTTGTGTTTTTTTTTTTTTTATGACTAACTTGTGAGTGAGAGTGA TTAAAACTGGTTCGATAGTGTTGGATTATATAGGGATATTGTAACGTTTGTTATATCTGAAGTA ATCTTTATCTGTTCATTCATTGGATTTTAAGATTTTTGTTTTATCGTTTAGTAGTCTTACGTGG CAATCTCTAGTCCACCAGCATTTGTTTTGATTTTTTCATTGCAGCCAAGCGTTTTGTGACCACA AGTTATGAGCCACTGAATACTTCAACGGTTACACTTACTTACACCCTCGTGACAAGAATGATTT TTGCTACAACCCAATAACTAAAACTTAAAGTATAACATTTTGAAAATATAGATTCTGATGATCG AAACATTAATATAAAGTAACATTATAAAAAGCATTTACCCACACATAAATATCAATATTTTCAA TGGTAATTAGTTCATCATCACTACCAGTTTAATTTCAATTATGAATCGATTTCATCGTCACTTT ATCCAATAACCAAAATAATCTCATGAATTATGTGATATCACCTTAAAACTTTGACGTTTTACTC TTTATCGAAGAAACACAACGATTAATGAAACACTGTTTTAACTTATCGACCATTTCTAAGAACA TGAAAGAACTATATTAATTCATATGGCATGTTCATCATCATGGGTTTAGACTTTAGAGAACATA TAGCTACTTTTTTTCTTATCATGATTCAAGTTATCTTTATTGTAAACTTCAACAACCTTTTGAA CAAACTTATTTATTCGCTTTTTCCGAATTCATCAACAAATTACTCCTCAATCACACTCCTATAG AAAACGGTTTAAGCTATCATTACATGTCTAGTTGGTTTTACTCAGCCCTAGAAGTGTTGTTTAT TGCATCACTTTCCACGAAGCACAATTTTTCTTTTTTACAATCACTAGACCTCACAGGCTCACAC ATATGCTTTAGAGCACATTCTAAACTTTGAACTATAAAAGCTGTTAACACTAATACACTATGCG TTCTTTTTTGCTCCAAACACTTTTGATCCATTATTAGGAGACACTCCACTTAGAAAGATTTTCT AATCCTTTGGTCAACTAGGAAGTTCAAGGTTTTTCTAAACAGAAATTCATTTCACAAGTAATTT AATTTATAAGGAAATGAATAGAGAAATCAAATCATTGAAGAACTACAAAATATAGATTCAAGGT CAGGTCTAAGAAAATATTCCTGAAGCTCAAAAAAGAGTTTTCCTCTCACATTATAGAATTGGCC TTTACTTCAACATTTTCCCACCTATTCCACATTTGGTCAGAACATTTTTAATTACTTGTGGATC AATTTCCGGTTGAAATGGGTTTGGTGAATATCCGGTTCAGTTATATGGTGGCCGTTGGAATTGG CTTATTAGTTGTGGCCGTTGTTGAAGCCGTTGGTATTGGTAAGGGAGAAGCAGACTTGTGGCTA TGAGTCTATGACCATGACTCGTGATTATGGAGCTGTCTTATGACCCTGACCATCACCTTGATCT GGTGGATTCCAATGTTTTCTTCTTCTTCTAATAAAATATTATGGTCAATACAGGTGCTAATTAA GATGGTAATAATTTCTTATGTTTCTGTGGTAAAGTTTGATTCAATTCCGTAGTTTTAGATAATC TTATTTCCATACATAAATTTTATAGTTTTATCTACTTTGTTCTTATGTTTTATCTCTAGCCAAG AGTTATTATTATTATCAGAAGAAGAAAAAAAAAAGAAGCATATATACAAAAGGTTTAATAAAAT GTATTATACAAGGCAATTATCCAAATTTTTTTTGTTTTGGTTTACATTGATGCTCTCAGGATTT CATAAGGATAGAGAGATCTATTCGTATACGTGTCACGTCATGAGTGGGTGTTTCGCCAATCCAT GAAACGCACCTAGATATCTAAAACACATATCAATTGCGAATCTGCGAAGTGCGAGCCATTAACC ACGTAAGCAAACAAACAATCTAAACCCCAAAAAAAATCTATGACTAGCCAATAGCAACCTCAGA GATTGATATTTCAAGATAAGACAGTATTTAGATTTCTGTATTATATATAGCGAAAATCGCATCA ATACCAAACCACCCATTTCTTGGCTTACAACAACAAATCTTAAACGTTTTACTTTGTGCTGCAC TACTCAACCTCAATGGCCGCCTCAACAATGGCTCTCTCCTCCCCTGCCTTCGCCGGTAAGGCCG TCAAGCTTTCCCCCGCGGCATCTGAAGTCCTTGGAAGCGGCCGTGTGACAATGAGGAAGACTGT TGCCAAGCCAAAGGGCCCATCAGGCAGCCCATGGTACGGATCTGACCGTGTCAAGTACTTGGGT CCATTCTCTGGCGAATCACCGAGCTACCTTACCGGAGAGTTCCCCGGAGACTACGGATGGGACA CCGCCGGACTTTCAGCTGACCCCGAGACATTCGCAAGGAACCGTGAACTAGAAGTTATCCACAG CAGGTGGGCCATGCTCGGAGCCCTAGGCTGCGTCTTCCCTGAGCTTTTGGCTAGAAACGGAGTC AAGTTCGGAGAGGCGGTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.205289427

Conservation Information
Conserved circRNAs	NA
PMCS	0.205289427

			
						 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.9

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