Plant Circular RNA Database

Detail information of Os02g0556600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0556600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015024
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 21044658-21047859  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os02g0556600						
					
						Parent gene annotation
						
							Similar to Pherophorin-dz1 protein precursor. (Os02t0556600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0556600_circ_g.2 Os02g0556600_circ_g.3 Os02g0556600_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						seed
					
						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  
						
							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
						Os02t0556600-01:7

General Information
CircRNA Name	Os02g0556600_circ_g.1
ID in PlantcircBase	osa_circ_015024
Alias	NA
Organism	Oryza sativa
Position	chr2: 21044658-21047859 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os02g0556600
Parent gene annotation	Similar to Pherophorin-dz1 protein precursor. (Os02t0556600-01)
Parent gene strand	-
Alternative splicing	Os02g0556600_circ_g.2 Os02g0556600_circ_g.3 Os02g0556600_circ_g.4
Support reads	2
Tissues	seed
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	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	Os02t0556600-01:7

			
						 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  
						
							ACGGGTATCTTACTCTTCATCTTGACTATGGACTGCAATGGTAGGATATAGTGGGCCTTTAATT
TCTTTTTGAAAGGATCCAACTAGAGATCCATTTTTCctttagcaacccatcaaaagctttatgt
gtcaagaagttggccaggttagagcgagcatattttacagcatcctccagttgtccagcctaat
gcaagaga

									
								

					

						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
						
							CTTTAGCAACCCATCAAAAGCTTTATGTGTCAAGAAGTTGGCCAGGTTAGAGCGAGCATATTTT
ACAGCATCCTCCAGTTGTCCAGCCTAATGCAAGAGAAACTGAGATTATATCATTATGAAACAGG
ATATAGTGTAATAATGCAACATGTCCAAGTGCCCATCACCACCAGTGAGCATGCAAACGAAAGC
CCTAGGTGGGCAACATCAAACAGAACCACATGCCAATTTGACCAGATGTCAAAATAAGTTGATC
TCACATATGCTCCCTCCAGTCAAAAACAAATGTGTGTTTTGGGGTGCATCAGCCAAACTCCATT
TACTACTGTTTTTTTTAGATTGGACAATTTATCATAATCTTACATGTGTGTTGTATTTTATTTT
ATTAAAGTACGTAGTGTATTATTTTTCATGTGTGTATAAGTAGTTTGTCAGTTGATGATATGCT
TATTTGCATGCAATTTTGTAGCTTCGATCTCTAGAGTATAATATACATATTTAACCAAATAGCT
GAATGTTAGGAGTTCAGATAATTACCCCGATAAATTCAATGAATCTTTGGGAATGGAGTAAGAA
GCAAATAATTGATGTTTCATCCTGCAAAAAAGAAATGATTTCTTAGTGGTGAACTAACTCTTTG
CGGAAAGTACATCATGGCAACTGAAAATGCTAGGATAAACATAGTATTTGACTAATCGTAATGC
AAGCAGGTTATTAAACTTGCAAAGCGTACAACTTTCCTCCCAAAACTTGTGTTACAAAGTAAAA
TGCAAGTTCAGGGATGAAAGTGGAGCCACCTCATAAACTTGTATTACAAAGTAAAATGCAAGTT
CAGGGACGAAATTGGAGTCTGCACCTATCAATTCACATTAGAAGTTTGTGGAAACTGCAATGAG
TAAATGAATAATTAATTATCAGATAGAAGACTGTACCTTTATCACCTGTGGATACCATTCTCCA
AGTTTTTTGAATGCAGAATCAATATCTCCACTCATGATAAGCTTCACGAAATCAAACAAACTGT
TTTCAGAAGGCAGAAACCACACCAAAAGGGGGGAAAATCGAAAGGGGCCAATTCTATGAATTAT
GTAGTATCTGCACAGTATAGCAGACAAATGGAATAGCTGCACACAACGGTGTGCAACCAAAAAT
ATGGAAGAGATTAAGTGCAGTGCAGTCCAAATACAGCCGAGCTGTGATAAAACCTTGTTTTACT
TCAGGGAAAAAGATATCTGCCTATGAAGCTTGCATTAATAAATCGTAACATCTCAAAAGGTTAA
TGAAATCTAAAAAAAAACATAAACACTAAAAAATAGTGGACGTGAGCTGGAGCCTTTAAGACTG
AAAACAAATGTCAGGTTAGTCCACTCACAACACTACAGTCTACAGGTGGTGACCACAACAAAAA
TCAATATGGATACTTGGCACAAAGATGCTCTAATCATCAGTGGGTAGTAACTGGTATTTAACTG
ATTAACTACTGTAAAGCCCTGGTTTCAAGAGAATATGTATGATCTTGTAAAAATCTTATAAATA
CTAACAATTGACTCCCCAGTGTTGCTTATTAGTAGATTAGAAAAATGGTTCAACAGCAATAACA
ATTCAGTTTCAAATAAGTTTTCCTTAGCTCACCTGACGCAGCAATTTTCTGTGGCTAAGACCAT
ACATTTCAGGAGGTTCCCCATAACCATTTTGATGATTGGATGGAGGATCAGTTTCACTTGCCAT
ATCAAAAGAATTTAATGTATCTTGGTAGCCGTAATGTAGGAGATATGAACGAACAATCCTGTTA
CAAGTGCACAGTACATGTACATAAGGCGGCAAAGTATAAAAGATTTAATGTCAATATAGGTACA
ATTAAAGATTGAGACAAGGTAGGAATGAAGGGCGGAGTGAATATGGTATCAAATGTAGATTACG
TAATATGGTAAATTTCACATAAACATAACAGGAGCAGACAAATAATTGACAGCACAAGTCAGTG
ATTATCAAACATAACTCGCTAACCTATCTCACAAGATACAGAATGATCTCAAGATGAAACAGTG
ATGGATTCTTAACATGAGAAAGCATACCAATGACTGATGTCTGGTTGCAAATCCAATTTGTCGC
TGACAGATTGTTGCTTCATTTTCTCTTCAAAAATATAGCCCTGCCAATAAGAATCATACTTAGT
GTTATATCATGTGTGCATGAACTAAACACCAAATAGGTAAATATACATGAAAAGAATGAGCTGA
GTGATAATTGTAGGCTATAATTCCATAATGAAAACCAATTGGTTCTTATGGCACCATACACCAT
ATTTTGGTGGCCTGATTACTACCTAAAAGGATGCATGCAACCAAAAGTTCTTTCAATTATATGA
AAGGAGCTGCGCTTAAGATGCAATGCATCTGAATTTGGAAAACTAAGATGGATAATCTATAAGA
CATTATGATATATGTTTAATTGATGCAGCAAACTGTGGAATGGAAAACATGGAATTTGAAATAA
TACTCCATAAGGAAATCATGACAATATTACATTTTTGTGTGAGGTCCTTAATAGGTGAATAGGA
ATATCTAGATCTATTGGCTCACCTCAATGTCAAAACAGAATGGTTCTTTTCCAAAGTTTACTGT
CACCCTGATTTGCAAAAATGAACAATCAGATCCATTGAAAAGCTGAAAATTAATATAATAATTT
ATGAGTTATGGCACATAACGCATGCAATTCCAAGCCTAAATAATATATTAACACAAGCAAATAA
TTTCACTTAACACCATTTTTCAGCAACTTAGGTTTAACTGTCTTGGTTAAAATGCAATTTTCCA
TATTTGGAATGTCTATTTTCATTGAAATAATCACTTAGGCAGCATTCTTGCTGTTAGGTTGGAG
AGAGTTTTTCAGCGCACGCAAAACGAGAAAGCTCATTAGCATGGATTAATTAAGTATTAATTAT
TGTAAACTTGAAAAATGAATTCATTTGAATTTTTTAAACAGCTTCTATATAGAATTTTTTTTTT
GTAAAAGATACATCATTTGACAGTTTGAAAAGCGTGCAAATGGAAAACCAGGAAGTTGAAGTTT
GGAGTTGAAGAAAAGAACTAAGTCTTAGGAACGGGTATCTTACTCTTCATCTTGACTATGGACT
GCAATGGTAGGATATAGTGGGCCTTTAATTTCTTTTTGAAAGGATCCAACTAGAGATCCATTTT
TC
						
					

			
		

Sequences
Splice junction sequence	ACGGGTATCTTACTCTTCATCTTGACTATGGACTGCAATGGTAGGATATAGTGGGCCTTTAATT TCTTTTTGAAAGGATCCAACTAGAGATCCATTTTTCctttagcaacccatcaaaagctttatgt gtcaagaagttggccaggttagagcgagcatattttacagcatcctccagttgtccagcctaat gcaagaga
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	CTTTAGCAACCCATCAAAAGCTTTATGTGTCAAGAAGTTGGCCAGGTTAGAGCGAGCATATTTT ACAGCATCCTCCAGTTGTCCAGCCTAATGCAAGAGAAACTGAGATTATATCATTATGAAACAGG ATATAGTGTAATAATGCAACATGTCCAAGTGCCCATCACCACCAGTGAGCATGCAAACGAAAGC CCTAGGTGGGCAACATCAAACAGAACCACATGCCAATTTGACCAGATGTCAAAATAAGTTGATC TCACATATGCTCCCTCCAGTCAAAAACAAATGTGTGTTTTGGGGTGCATCAGCCAAACTCCATT TACTACTGTTTTTTTTAGATTGGACAATTTATCATAATCTTACATGTGTGTTGTATTTTATTTT ATTAAAGTACGTAGTGTATTATTTTTCATGTGTGTATAAGTAGTTTGTCAGTTGATGATATGCT TATTTGCATGCAATTTTGTAGCTTCGATCTCTAGAGTATAATATACATATTTAACCAAATAGCT GAATGTTAGGAGTTCAGATAATTACCCCGATAAATTCAATGAATCTTTGGGAATGGAGTAAGAA GCAAATAATTGATGTTTCATCCTGCAAAAAAGAAATGATTTCTTAGTGGTGAACTAACTCTTTG CGGAAAGTACATCATGGCAACTGAAAATGCTAGGATAAACATAGTATTTGACTAATCGTAATGC AAGCAGGTTATTAAACTTGCAAAGCGTACAACTTTCCTCCCAAAACTTGTGTTACAAAGTAAAA TGCAAGTTCAGGGATGAAAGTGGAGCCACCTCATAAACTTGTATTACAAAGTAAAATGCAAGTT CAGGGACGAAATTGGAGTCTGCACCTATCAATTCACATTAGAAGTTTGTGGAAACTGCAATGAG TAAATGAATAATTAATTATCAGATAGAAGACTGTACCTTTATCACCTGTGGATACCATTCTCCA AGTTTTTTGAATGCAGAATCAATATCTCCACTCATGATAAGCTTCACGAAATCAAACAAACTGT TTTCAGAAGGCAGAAACCACACCAAAAGGGGGGAAAATCGAAAGGGGCCAATTCTATGAATTAT GTAGTATCTGCACAGTATAGCAGACAAATGGAATAGCTGCACACAACGGTGTGCAACCAAAAAT ATGGAAGAGATTAAGTGCAGTGCAGTCCAAATACAGCCGAGCTGTGATAAAACCTTGTTTTACT TCAGGGAAAAAGATATCTGCCTATGAAGCTTGCATTAATAAATCGTAACATCTCAAAAGGTTAA TGAAATCTAAAAAAAAACATAAACACTAAAAAATAGTGGACGTGAGCTGGAGCCTTTAAGACTG AAAACAAATGTCAGGTTAGTCCACTCACAACACTACAGTCTACAGGTGGTGACCACAACAAAAA TCAATATGGATACTTGGCACAAAGATGCTCTAATCATCAGTGGGTAGTAACTGGTATTTAACTG ATTAACTACTGTAAAGCCCTGGTTTCAAGAGAATATGTATGATCTTGTAAAAATCTTATAAATA CTAACAATTGACTCCCCAGTGTTGCTTATTAGTAGATTAGAAAAATGGTTCAACAGCAATAACA ATTCAGTTTCAAATAAGTTTTCCTTAGCTCACCTGACGCAGCAATTTTCTGTGGCTAAGACCAT ACATTTCAGGAGGTTCCCCATAACCATTTTGATGATTGGATGGAGGATCAGTTTCACTTGCCAT ATCAAAAGAATTTAATGTATCTTGGTAGCCGTAATGTAGGAGATATGAACGAACAATCCTGTTA CAAGTGCACAGTACATGTACATAAGGCGGCAAAGTATAAAAGATTTAATGTCAATATAGGTACA ATTAAAGATTGAGACAAGGTAGGAATGAAGGGCGGAGTGAATATGGTATCAAATGTAGATTACG TAATATGGTAAATTTCACATAAACATAACAGGAGCAGACAAATAATTGACAGCACAAGTCAGTG ATTATCAAACATAACTCGCTAACCTATCTCACAAGATACAGAATGATCTCAAGATGAAACAGTG ATGGATTCTTAACATGAGAAAGCATACCAATGACTGATGTCTGGTTGCAAATCCAATTTGTCGC TGACAGATTGTTGCTTCATTTTCTCTTCAAAAATATAGCCCTGCCAATAAGAATCATACTTAGT GTTATATCATGTGTGCATGAACTAAACACCAAATAGGTAAATATACATGAAAAGAATGAGCTGA GTGATAATTGTAGGCTATAATTCCATAATGAAAACCAATTGGTTCTTATGGCACCATACACCAT ATTTTGGTGGCCTGATTACTACCTAAAAGGATGCATGCAACCAAAAGTTCTTTCAATTATATGA AAGGAGCTGCGCTTAAGATGCAATGCATCTGAATTTGGAAAACTAAGATGGATAATCTATAAGA CATTATGATATATGTTTAATTGATGCAGCAAACTGTGGAATGGAAAACATGGAATTTGAAATAA TACTCCATAAGGAAATCATGACAATATTACATTTTTGTGTGAGGTCCTTAATAGGTGAATAGGA ATATCTAGATCTATTGGCTCACCTCAATGTCAAAACAGAATGGTTCTTTTCCAAAGTTTACTGT CACCCTGATTTGCAAAAATGAACAATCAGATCCATTGAAAAGCTGAAAATTAATATAATAATTT ATGAGTTATGGCACATAACGCATGCAATTCCAAGCCTAAATAATATATTAACACAAGCAAATAA TTTCACTTAACACCATTTTTCAGCAACTTAGGTTTAACTGTCTTGGTTAAAATGCAATTTTCCA TATTTGGAATGTCTATTTTCATTGAAATAATCACTTAGGCAGCATTCTTGCTGTTAGGTTGGAG AGAGTTTTTCAGCGCACGCAAAACGAGAAAGCTCATTAGCATGGATTAATTAAGTATTAATTAT TGTAAACTTGAAAAATGAATTCATTTGAATTTTTTAAACAGCTTCTATATAGAATTTTTTTTTT GTAAAAGATACATCATTTGACAGTTTGAAAAGCGTGCAAATGGAAAACCAGGAAGTTGAAGTTT GGAGTTGAAGAAAAGAACTAAGTCTTAGGAACGGGTATCTTACTCTTCATCTTGACTATGGACT GCAATGGTAGGATATAGTGGGCCTTTAATTTCTTTTTGAAAGGATCCAACTAGAGATCCATTTT TC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.101954823

Conservation Information
Conserved circRNAs	NA
PMCS	0.101954823

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21046790-21047820(-)
						
						Potential amino acid sequence
						
							MKQQSVSDKLDLQPDISHWIVRSYLLHYGYQDTLNSFDMASETDPPSNHQNGYGEPPEMYGLSH
RKLLRQLIMSGDIDSAFKKLGEWYPQVIKDETSIICFLLHSQRFIEFIGAGQLEDAVKYARSNL
ANFLTHKAFDGLLKEKWISSWILSKRN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21046790-21047820(-)
Potential amino acid sequence	MKQQSVSDKLDLQPDISHWIVRSYLLHYGYQDTLNSFDMASETDPPSNHQNGYGEPPEMYGLSH RKLLRQLIMSGDIDSAFKKLGEWYPQVIKDETSIICFLLHSQRFIEFIGAGQLEDAVKYARSNL ANFLTHKAFDGLLKEKWISSWILSKRN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0556600_circ_g.1

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