Plant Circular RNA Database

Detail information of Os03g0297100_circ_ag.3

			
						 General Information
					
						CircRNA Name
						Os03g0297100_circ_ag.3
					
						ID in PlantcircBase
						osa_circ_019362
					
						Alias
						Os_ciR12
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 10394226-10398339  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os03g0297100_circ_ag.1 Os03g0297100_circ_ag.2 Os03g0297100_circ_ag.4 Os03g0297100_circ_g.1 Os03g0297100_circ_ag.2 Os03g0297100_circ_g.3 Os03g0297100_circ_g.4 Os03g0297100_circ_ag.5 						
					
						Support reads
						10823/321
					
						Tissues
						root/seed, pistil
					
						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  
						
							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	Os03g0297100_circ_ag.3
ID in PlantcircBase	osa_circ_019362
Alias	Os_ciR12
Organism	Oryza sativa
Position	chr3: 10394226-10398339 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os03g0297100_circ_ag.1 Os03g0297100_circ_ag.2 Os03g0297100_circ_ag.4 Os03g0297100_circ_g.1 Os03g0297100_circ_ag.2 Os03g0297100_circ_g.3 Os03g0297100_circ_g.4 Os03g0297100_circ_ag.5
Support reads	10823/321
Tissues	root/seed, pistil
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	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  
						
							CTTATGGCGGCTGTTGTCTTGTGTAGGCTTTCTTTGACCTCGAGAATGGCAACCAGGAGCTCAA
GAGCGAGCTCAAGGACCTGTACATCAACAATGCAGTccagatggatattgccgggaacaggaag
gctgtggtgatccacgtgccgtaccgtctgcgcaaggcattcaagaaaatccatgtcaggcttg
tcagggag

									
								

					

						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
						
							CCAGATGGATATTGCCGGGAACAGGAAGGCTGTGGTGATCCACGTGCCGTACCGTCTGCGCAAG
GCATTCAAGAAAATCCATGTCAGGCTTGTCAGGGAGCTCGAGAAGAAGTTCAGCGGCAAGGTCA
ATTACGTCTTTCCCATTTGTCTACTGTGTTGCATAGGTCGCATGCTAGGAGTTCAATTTACTAA
CTCATAATACATTGTTGTTAGTTCTTAATGTTGCGTGTCGGGGCGCAAAACCTGTAGCTTATGT
TGTTCATGCTTAACATGCAACGTAGATACTGTTAGTTTGGTTGAAGATAAAATGTTACCCTTTT
AGCGCTGAATTTGTAATATCATACTGTTGATATAACTGCTAACATCTTGGAGAACATACACGGT
ATTGCAAGCACCGTTTGTAAGGCTGCGACCTGAGCATTTTCCATTCATCTACTAGCATAGTACT
GGCTTTCTATATCGACACTGAAGTGTCTGATGTACACATGTAGTGGTTAACTGGCCTGGGGGTA
TCATCTTAAGTTACTCTGAGGATACCATCGAAGGGTAAACATCAATTTGTGTTGCTTACGAAAT
CCTGGCATTTTTGTTTTTTAACCTTGTTTCATGCACGACAGACTTCTTAATTTGTGTTATATTT
GTATGACCTTGGTGTCAGTTTGTTGTTACCATTCTCTGAACAAGTTACTATTACTTGACTATTT
GTGTTGATATTGTATGTTAAACTACAAACAGGATGTGGTAATTGTTGCAACAAGGAGGATTGTG
AGGCCTCCCAAGAAGGGCTCGGCTGTTCAGCGCCCTCGCACAAGAACTCTTACTGCTGTTCATG
ATGGTATCTTGGAGGATGTAGTCTACCCAGCTGAGATTGTTGGCAAGCGCATCAGATACCGTCT
GGATGGTGCCAAGGTCATCAAGGTAGATGCTACAAACTTGTGTCCCTTCTAAATTGTCATTTTA
ATATTTTATATTGTGCTCATCTGTCACTGCATGTACTCTCTACCAGCTACATCAGCTTCTCCAC
TATAATTTGCAAAAACTGAAATCATTGATGTTTTTTTTTCCTCATGTACAATGGGCTTGTTGTA
AGCCTGTAACTAATCCTGCAGCATGACACTTCTGTTTGCTAGGTTAGTATTGACCCATGTGTTT
TGATGTGTTTTCAGATTTTCTTGGACCCAAAGGAGCGCAACAATACCGAATACAAGCTCGAGAC
CTTCTCCGCGGTCTACCGCAGGCTTTGTGGGAAAGATGTTGCCTTTGAGTACCCTATGACTGAA
ACTGCTTGAAGATGCATTCCTTGGATTGTTCCCAATGTATTCCAGAAATCATAGTTTTGATGCC
AAAGTTGGTACTTGGGTATTTGTTACTTTGAGACGACAAATCGACTTGAACAATGTTAAAGTTT
TGGGCATTTAAATTATAGACCTTTGCTTTGGCACGGTTAGCTTGTTTCAATCCATTGTTTGTTG
TGGAATTAGTTTTCACTTATGTGGTAGGGGAAGAATCTCATTATGACCGCCTATTTCATTTTTT
TTGCTCCAGCTACTCGTTATCTGTTACCTTAGTCATTTAATCGTTGTTTTGTTGGGCCTCCTGC
TTGCATCCGTTTTGTCGTTTGATCTCTTGAGAGCGGCCAGGCTTATGAAAAAACACCCTCGTAT
TAAAGAGGAACGTCACGCCGTTATCGTTTTTTTGGATTGAGAAATGGAAAAATAGTAAATCTGC
ATATTGTAAAAATAAGGGCTATTTGATTCGTAGGGTACAATCAAACGGCTGTATTTAGAATTGT
GTTTTTCTTATTGATTTGTTCTTTTTTCATTCCTTCGTTTTCATTCTTTTTTTTTCTCGCAGTC
TGATCAAATGTCTGTTTAGAATTATGTTTTTTTCTATTTTTTCACATTTTAAGAGGGGGTGTCA
TATCTGGTATCGTGGGTAGGTTCCGGGGTATGAATCAGTTATGGGAGTCAAAGTGGACTTATTC
CTACGGAGTAACCCTCTAGAGCACAAGTCACGGCCCAAAGGAGGTCGAAGGCCCATTTTCCGAA
ATGGAATAAGTCCTATTTGCCCCCCTGAACACATGCCCCTAGTTGAATCATATCTCTCAACCGT
AAAACCGAGTATAACCAGTCCCCCGTCTTTCAAAGTTTTGTGCTACATGCCACTTACGTGGTAG
GTTAACTTGGTCTTCATCCCATGTGACGCTTACGTGGCATTAAAATAAAACAAACTTAAATGGG
GCCCACATGGCAGTCAGTAAAACAATTAAAAAAATTCAGACCTACTTGTCAGTTACCCTTTCTC
TCTCTAATGTGAATGGCGGCTGCAGCGACGAGTGAGATGGAGGGGCTTGCCTATCGTGGTGCAT
GGGTGGGGAGGAATCAGTTGCCACGGCGCGCGCGCGCGGGTGTGTGTGTGGGGGGGGGGGTTGC
CATTCACGGCGCTCCGCGAGCTCAACGGCCACAGCACACGCACGGCGAGGACTCGCCTGCCACA
GCACGCAAGGGGGAGGGCTTGCCGGTCGCAACACAAGCGGGGCAGGGGCTCGTCGACCTCTGAC
TCCACCTCCCGAATCGGCGAGACAACGCGACAGCCACGTAAATCCGACAGCGCAGCGGCGGTCC
TATTTCTATTCTCCCCCCAATCCCCACACTCTCTCCCCTCGCCGCCTTCTCATCATAGCAGGGC
GGCAAACGGTGGCGGCTGTGGCTATAAACAACATCCACCAAGGAGATGATGACGAACGAGCTCA
GGGAAAGCTAGAATAGCGTCAACATGGCTCGGCAACAGCGTCTCCGATGCTAAGTCGCCAAGAA
CAAGCACCTCCCTGCTCCCTGGTCGAAGAGGAGTGCTTGTTGCCAGCTGTTGTCGCTCCTCTTC
GCTGTTGTGCCGCCCGCGAGAAGATGGAGTGTCTCTATTGCCGCTGATGGGTTGTATGACGCTC
GGAGATGCCCAACGCCTCACCGCCGCTTGGACCAACCATGGCATGGCTGGATCCCACCACTAGG
TCCGAGCCTCTGTTTGGCGGCATAAGAGAGAAGGAGAGATCCAGTGGTCGTAGAGGCGGTCGGG
GTGGTCGTGCACGAGAGGGAATTTCCAGCGCTGAAGCCGGTGTGGGTGCACGATACCATTGGCC
TGCTCCTGTCCTGAGTCAGCACTAGAGAGGTAGCAACAGCACTAGAACACCCTCCCGCCACTGA
TGGCCCCGAGAGAGAGAGAGGGGGGGATGGAGGGAGGGAGAAAGGATGGGAGGAGCCGCCGGTG
CCCTCCGAGTCTCCGACTCGTCGCTGTCGGCCCGCTGCCACCCTCTCAGCAGACTTGAGCTGCT
GCTGGAAACTTGAGGAGAGGAAGATGCAAGGGAGGAAAGAGGGAAGAGATTGGTGAGAAGATGA
GTGGAGACTTACATTTGGGCCCCACATGCTAACTTAGCCGATTGATCAGGTCAATGAGCCACGT
CAGCGAAAACCCCCATCCAATACTGTTGAGGGAGTCAATTTGCAATGGTTTTATGAGTTGGAGG
ATGGGTTATACTCGGTGCAGTTGAGTAATGCGATTCAACCACGGGCATGAATTGAAGGATGCAG
ATTAGACTTATTGCCAGGCTAGAGAGCTCACAGCCTGCTGGCCCAACGATGCGATGCCTAGGGT
TTATAAGAACACTTCCTGGCCACCCCCTCCGCCGCCTCCGAATCGTAGCGCCGGCGCTGCCACT
TCCCTCGCTCTCGCATCTTCTCCTCGCGCCCAGGTATCTCTCTCTCTCCATCTATGCCTCAAAT
CCGCACGACGCTATAATTCGTCTTCTTCGCTCGGTTTGCTTGATTGCTGATCTGACCTTGTGTG
TGTGTGCGTCTCTGGGGATCGAATCTTGCGGCAGGGGCCAGGTAAGCGAAGATGTACACCGCGA
GGAAGAAGATCCAGAAGGAGAAGGGCCTCGAGCCCTCCGAGTTCGAGGACTCCGTCGCGCAGGT
GAGACCCGCTGCTCTTTGCTTTTGAGATGGGTCGAGGAGTGGTTTGCTTATGGCGGCTGTTGTC
TTGTGTAGGCTTTCTTTGACCTCGAGAATGGCAACCAGGAGCTCAAGAGCGAGCTCAAGGACCT
GTACATCAACAATGCAGT
						
					

			
		

Sequences
Splice junction sequence	CTTATGGCGGCTGTTGTCTTGTGTAGGCTTTCTTTGACCTCGAGAATGGCAACCAGGAGCTCAA GAGCGAGCTCAAGGACCTGTACATCAACAATGCAGTccagatggatattgccgggaacaggaag gctgtggtgatccacgtgccgtaccgtctgcgcaaggcattcaagaaaatccatgtcaggcttg tcagggag
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	CCAGATGGATATTGCCGGGAACAGGAAGGCTGTGGTGATCCACGTGCCGTACCGTCTGCGCAAG GCATTCAAGAAAATCCATGTCAGGCTTGTCAGGGAGCTCGAGAAGAAGTTCAGCGGCAAGGTCA ATTACGTCTTTCCCATTTGTCTACTGTGTTGCATAGGTCGCATGCTAGGAGTTCAATTTACTAA CTCATAATACATTGTTGTTAGTTCTTAATGTTGCGTGTCGGGGCGCAAAACCTGTAGCTTATGT TGTTCATGCTTAACATGCAACGTAGATACTGTTAGTTTGGTTGAAGATAAAATGTTACCCTTTT AGCGCTGAATTTGTAATATCATACTGTTGATATAACTGCTAACATCTTGGAGAACATACACGGT ATTGCAAGCACCGTTTGTAAGGCTGCGACCTGAGCATTTTCCATTCATCTACTAGCATAGTACT GGCTTTCTATATCGACACTGAAGTGTCTGATGTACACATGTAGTGGTTAACTGGCCTGGGGGTA TCATCTTAAGTTACTCTGAGGATACCATCGAAGGGTAAACATCAATTTGTGTTGCTTACGAAAT CCTGGCATTTTTGTTTTTTAACCTTGTTTCATGCACGACAGACTTCTTAATTTGTGTTATATTT GTATGACCTTGGTGTCAGTTTGTTGTTACCATTCTCTGAACAAGTTACTATTACTTGACTATTT GTGTTGATATTGTATGTTAAACTACAAACAGGATGTGGTAATTGTTGCAACAAGGAGGATTGTG AGGCCTCCCAAGAAGGGCTCGGCTGTTCAGCGCCCTCGCACAAGAACTCTTACTGCTGTTCATG ATGGTATCTTGGAGGATGTAGTCTACCCAGCTGAGATTGTTGGCAAGCGCATCAGATACCGTCT GGATGGTGCCAAGGTCATCAAGGTAGATGCTACAAACTTGTGTCCCTTCTAAATTGTCATTTTA ATATTTTATATTGTGCTCATCTGTCACTGCATGTACTCTCTACCAGCTACATCAGCTTCTCCAC TATAATTTGCAAAAACTGAAATCATTGATGTTTTTTTTTCCTCATGTACAATGGGCTTGTTGTA AGCCTGTAACTAATCCTGCAGCATGACACTTCTGTTTGCTAGGTTAGTATTGACCCATGTGTTT TGATGTGTTTTCAGATTTTCTTGGACCCAAAGGAGCGCAACAATACCGAATACAAGCTCGAGAC CTTCTCCGCGGTCTACCGCAGGCTTTGTGGGAAAGATGTTGCCTTTGAGTACCCTATGACTGAA ACTGCTTGAAGATGCATTCCTTGGATTGTTCCCAATGTATTCCAGAAATCATAGTTTTGATGCC AAAGTTGGTACTTGGGTATTTGTTACTTTGAGACGACAAATCGACTTGAACAATGTTAAAGTTT TGGGCATTTAAATTATAGACCTTTGCTTTGGCACGGTTAGCTTGTTTCAATCCATTGTTTGTTG TGGAATTAGTTTTCACTTATGTGGTAGGGGAAGAATCTCATTATGACCGCCTATTTCATTTTTT TTGCTCCAGCTACTCGTTATCTGTTACCTTAGTCATTTAATCGTTGTTTTGTTGGGCCTCCTGC TTGCATCCGTTTTGTCGTTTGATCTCTTGAGAGCGGCCAGGCTTATGAAAAAACACCCTCGTAT TAAAGAGGAACGTCACGCCGTTATCGTTTTTTTGGATTGAGAAATGGAAAAATAGTAAATCTGC ATATTGTAAAAATAAGGGCTATTTGATTCGTAGGGTACAATCAAACGGCTGTATTTAGAATTGT GTTTTTCTTATTGATTTGTTCTTTTTTCATTCCTTCGTTTTCATTCTTTTTTTTTCTCGCAGTC TGATCAAATGTCTGTTTAGAATTATGTTTTTTTCTATTTTTTCACATTTTAAGAGGGGGTGTCA TATCTGGTATCGTGGGTAGGTTCCGGGGTATGAATCAGTTATGGGAGTCAAAGTGGACTTATTC CTACGGAGTAACCCTCTAGAGCACAAGTCACGGCCCAAAGGAGGTCGAAGGCCCATTTTCCGAA ATGGAATAAGTCCTATTTGCCCCCCTGAACACATGCCCCTAGTTGAATCATATCTCTCAACCGT AAAACCGAGTATAACCAGTCCCCCGTCTTTCAAAGTTTTGTGCTACATGCCACTTACGTGGTAG GTTAACTTGGTCTTCATCCCATGTGACGCTTACGTGGCATTAAAATAAAACAAACTTAAATGGG GCCCACATGGCAGTCAGTAAAACAATTAAAAAAATTCAGACCTACTTGTCAGTTACCCTTTCTC TCTCTAATGTGAATGGCGGCTGCAGCGACGAGTGAGATGGAGGGGCTTGCCTATCGTGGTGCAT GGGTGGGGAGGAATCAGTTGCCACGGCGCGCGCGCGCGGGTGTGTGTGTGGGGGGGGGGGTTGC CATTCACGGCGCTCCGCGAGCTCAACGGCCACAGCACACGCACGGCGAGGACTCGCCTGCCACA GCACGCAAGGGGGAGGGCTTGCCGGTCGCAACACAAGCGGGGCAGGGGCTCGTCGACCTCTGAC TCCACCTCCCGAATCGGCGAGACAACGCGACAGCCACGTAAATCCGACAGCGCAGCGGCGGTCC TATTTCTATTCTCCCCCCAATCCCCACACTCTCTCCCCTCGCCGCCTTCTCATCATAGCAGGGC GGCAAACGGTGGCGGCTGTGGCTATAAACAACATCCACCAAGGAGATGATGACGAACGAGCTCA GGGAAAGCTAGAATAGCGTCAACATGGCTCGGCAACAGCGTCTCCGATGCTAAGTCGCCAAGAA CAAGCACCTCCCTGCTCCCTGGTCGAAGAGGAGTGCTTGTTGCCAGCTGTTGTCGCTCCTCTTC GCTGTTGTGCCGCCCGCGAGAAGATGGAGTGTCTCTATTGCCGCTGATGGGTTGTATGACGCTC GGAGATGCCCAACGCCTCACCGCCGCTTGGACCAACCATGGCATGGCTGGATCCCACCACTAGG TCCGAGCCTCTGTTTGGCGGCATAAGAGAGAAGGAGAGATCCAGTGGTCGTAGAGGCGGTCGGG GTGGTCGTGCACGAGAGGGAATTTCCAGCGCTGAAGCCGGTGTGGGTGCACGATACCATTGGCC TGCTCCTGTCCTGAGTCAGCACTAGAGAGGTAGCAACAGCACTAGAACACCCTCCCGCCACTGA TGGCCCCGAGAGAGAGAGAGGGGGGGATGGAGGGAGGGAGAAAGGATGGGAGGAGCCGCCGGTG CCCTCCGAGTCTCCGACTCGTCGCTGTCGGCCCGCTGCCACCCTCTCAGCAGACTTGAGCTGCT GCTGGAAACTTGAGGAGAGGAAGATGCAAGGGAGGAAAGAGGGAAGAGATTGGTGAGAAGATGA GTGGAGACTTACATTTGGGCCCCACATGCTAACTTAGCCGATTGATCAGGTCAATGAGCCACGT CAGCGAAAACCCCCATCCAATACTGTTGAGGGAGTCAATTTGCAATGGTTTTATGAGTTGGAGG ATGGGTTATACTCGGTGCAGTTGAGTAATGCGATTCAACCACGGGCATGAATTGAAGGATGCAG ATTAGACTTATTGCCAGGCTAGAGAGCTCACAGCCTGCTGGCCCAACGATGCGATGCCTAGGGT TTATAAGAACACTTCCTGGCCACCCCCTCCGCCGCCTCCGAATCGTAGCGCCGGCGCTGCCACT TCCCTCGCTCTCGCATCTTCTCCTCGCGCCCAGGTATCTCTCTCTCTCCATCTATGCCTCAAAT CCGCACGACGCTATAATTCGTCTTCTTCGCTCGGTTTGCTTGATTGCTGATCTGACCTTGTGTG TGTGTGCGTCTCTGGGGATCGAATCTTGCGGCAGGGGCCAGGTAAGCGAAGATGTACACCGCGA GGAAGAAGATCCAGAAGGAGAAGGGCCTCGAGCCCTCCGAGTTCGAGGACTCCGTCGCGCAGGT GAGACCCGCTGCTCTTTGCTTTTGAGATGGGTCGAGGAGTGGTTTGCTTATGGCGGCTGTTGTC TTGTGTAGGCTTTCTTTGACCTCGAGAATGGCAACCAGGAGCTCAAGAGCGAGCTCAAGGACCT GTACATCAACAATGCAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_012880 						
					
						PMCS
						1.028969807

Conservation Information
Conserved circRNAs	osi_circ_012880
PMCS	1.028969807

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR2919 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	osa-miR2919
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os03g0297100_circ_ag.3

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