Plant Circular RNA Database

Detail information of Os02g0606700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0606700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015406
					
						Alias
						Os_ciR4656
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23770369-23771102  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0606700						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os02t0606700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0606700_circ_g.2 Os02g0606700_circ_g.3 						
					
						Support reads
						4/2
					
						Tissues
						root/shoot, root
					
						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
						Os02t0606700-01:3

General Information
CircRNA Name	Os02g0606700_circ_g.1
ID in PlantcircBase	osa_circ_015406
Alias	Os_ciR4656
Organism	Oryza sativa
Position	chr2: 23770369-23771102 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0606700
Parent gene annotation	Conserved hypothetical protein. (Os02t0606700-01)
Parent gene strand	+
Alternative splicing	Os02g0606700_circ_g.2 Os02g0606700_circ_g.3
Support reads	4/2
Tissues	root/shoot, root
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	Os02t0606700-01:3

			
						 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  
						
							TTCATTCTACACAGGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCA
GACGCGGTATTTGATCATGTGCTTTTTCCATCTGAGgcaaggttgaggaagaaaagcttgctga
tttgtgatggctgccccaactgcaacagctgtttttcttgatgagaacctgcatatccataggg
gtaaggct

									
								

					

						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: 111
Transcript exons: 23770369-23770447,23771071-23771102
GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT
CTTGATGAGAACCTGCGGTATTTGATCATGTGCTTTTTCCATCTGAG
Transcript length: 547
Transcript exons: 23770369-23770460,23770545-23770913,23771017-23771102
GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT
CTTGATGAGAACCTGCATATCCATAGGGGGCCTGCTGGCAAGAGGGCTGATGGATTGAAGGCCA
AGCCACTGAAGCCATTAGCAGCAAAGCAAGGGCTTCAAGAGAAGAAGGCCCTGAGGGATGTATC
CAACATTGGCAAGCCCCCGGTGTCTACGCGGAAGCCCCTGCAGGACGTGTCCAACACCGCCAAG
CCCCGAGGGCGCAACATTTCTGATGGCACTACCTTGAAGAAGACTGCTCTTCGCAGCCATGAGG
CCACCAAGAACCCAGTGAAGAAGACTGTAATCTTTTCTGATGAGACCGCAAAATGTCATGAATG
GGCTAAGGATGGGGTGGAGGGCACCCACTTCACTGGGAATGATTCTCAGAAGTTGGAAAAGGAC
AGTCAAGACAAACGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCAG
ACGCGGTATTTGATCATGTGCTTTTTCCATCTGAG
						
					

						Genomic sequence
						
							GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT
CTTGATGAGAACCTGCATATCCATAGGGGTAAGGCTGCTTTTGATCTGACTAATTCATCACAAG
GAGGATTTCCTGTGGTAAATGACTGACATGTTTGGTCCATGTGTGCAGGGCCTGCTGGCAAGAG
GGCTGATGGATTGAAGGCCAAGCCACTGAAGCCATTAGCAGCAAAGCAAGGGCTTCAAGAGAAG
AAGGCCCTGAGGGATGTATCCAACATTGGCAAGCCCCCGGTGTCTACGCGGAAGCCCCTGCAGG
ACGTGTCCAACACCGCCAAGCCCCGAGGGCGCAACATTTCTGATGGCACTACCTTGAAGAAGAC
TGCTCTTCGCAGCCATGAGGCCACCAAGAACCCAGTGAAGAAGACTGTAATCTTTTCTGATGAG
ACCGCAAAATGTCATGAATGGGCTAAGGATGGGGTGGAGGGCACCCACTTCACTGGGAATGATT
CTCAGAAGTTGGAAAAGGACAGTCAAGACAAACGTAAGAGTTCACTTCCTGCAGTTCAATATGC
CATAGAACCCTTTTGCTTTCAGTAGGCTCAGATAATGAGATAACTTGTTTTGTTATTGTTCATT
CTACACAGGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCAGACGCG
GTATTTGATCATGTGCTTTTTCCATCTGAG
						
					

			
		

Sequences
Splice junction sequence	TTCATTCTACACAGGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCA GACGCGGTATTTGATCATGTGCTTTTTCCATCTGAGgcaaggttgaggaagaaaagcttgctga tttgtgatggctgccccaactgcaacagctgtttttcttgatgagaacctgcatatccataggg gtaaggct
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: 111 Transcript exons: 23770369-23770447,23771071-23771102 GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT CTTGATGAGAACCTGCGGTATTTGATCATGTGCTTTTTCCATCTGAG Transcript length: 547 Transcript exons: 23770369-23770460,23770545-23770913,23771017-23771102 GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT CTTGATGAGAACCTGCATATCCATAGGGGGCCTGCTGGCAAGAGGGCTGATGGATTGAAGGCCA AGCCACTGAAGCCATTAGCAGCAAAGCAAGGGCTTCAAGAGAAGAAGGCCCTGAGGGATGTATC CAACATTGGCAAGCCCCCGGTGTCTACGCGGAAGCCCCTGCAGGACGTGTCCAACACCGCCAAG CCCCGAGGGCGCAACATTTCTGATGGCACTACCTTGAAGAAGACTGCTCTTCGCAGCCATGAGG CCACCAAGAACCCAGTGAAGAAGACTGTAATCTTTTCTGATGAGACCGCAAAATGTCATGAATG GGCTAAGGATGGGGTGGAGGGCACCCACTTCACTGGGAATGATTCTCAGAAGTTGGAAAAGGAC AGTCAAGACAAACGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCAG ACGCGGTATTTGATCATGTGCTTTTTCCATCTGAG
Genomic sequence	GCAAGGTTGAGGAAGAAAAGCTTGCTGATTTGTGATGGCTGCCCCAACTGCAACAGCTGTTTTT CTTGATGAGAACCTGCATATCCATAGGGGTAAGGCTGCTTTTGATCTGACTAATTCATCACAAG GAGGATTTCCTGTGGTAAATGACTGACATGTTTGGTCCATGTGTGCAGGGCCTGCTGGCAAGAG GGCTGATGGATTGAAGGCCAAGCCACTGAAGCCATTAGCAGCAAAGCAAGGGCTTCAAGAGAAG AAGGCCCTGAGGGATGTATCCAACATTGGCAAGCCCCCGGTGTCTACGCGGAAGCCCCTGCAGG ACGTGTCCAACACCGCCAAGCCCCGAGGGCGCAACATTTCTGATGGCACTACCTTGAAGAAGAC TGCTCTTCGCAGCCATGAGGCCACCAAGAACCCAGTGAAGAAGACTGTAATCTTTTCTGATGAG ACCGCAAAATGTCATGAATGGGCTAAGGATGGGGTGGAGGGCACCCACTTCACTGGGAATGATT CTCAGAAGTTGGAAAAGGACAGTCAAGACAAACGTAAGAGTTCACTTCCTGCAGTTCAATATGC CATAGAACCCTTTTGCTTTCAGTAGGCTCAGATAATGAGATAACTTGTTTTGTTATTGTTCATT CTACACAGGTGTCAAGAAGAAGGTGGAGAAAATAATGTCAGCATTGCACGACTGGCCAGACGCG GTATTTGATCATGTGCTTTTTCCATCTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.243115213

Conservation Information
Conserved circRNAs	NA
PMCS	0.243115213

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23770404-23770434(+)
23770458-23771022(-)
23770597-23771083(-)
						
						Potential amino acid sequence
						
							MAAPTATAVFLDENLHIHRGPAGKRADGLKAKPLKPLAAKQGLQEKKALRDVSNIGKPPVSTRK
PLQDVSNTAKPRGRNISDGTTLKKTALRSHEATKNPVKKTVIFSDETAKCHEWAKDGVEGTHFT
GNDSQKLEKDSQDKRVKKKVEKIMSALHDWPDAVFDHVLFPSEARLRKKSLLICDGCPNCNSCF
S*(+)
MDMQVLIKKNSCCSWGSHHKSASFSSSTLPQMEKAHDQIPRLASRAMLTLFSPPSS*(-)
MASVAWPSIHQPSCQQAPYGYAGSHQEKQLLQLGQPSQISKLFFLNLASDGKST*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23770404-23770434(+) 23770458-23771022(-) 23770597-23771083(-)
Potential amino acid sequence	MAAPTATAVFLDENLHIHRGPAGKRADGLKAKPLKPLAAKQGLQEKKALRDVSNIGKPPVSTRK PLQDVSNTAKPRGRNISDGTTLKKTALRSHEATKNPVKKTVIFSDETAKCHEWAKDGVEGTHFT GNDSQKLEKDSQDKRVKKKVEKIMSALHDWPDAVFDHVLFPSEARLRKKSLLICDGCPNCNSCF S(+) MDMQVLIKKNSCCSWGSHHKSASFSSSTLPQMEKAHDQIPRLASRAMLTLFSPPSS(-) MASVAWPSIHQPSCQQAPYGYAGSHQEKQLLQLGQPSQISKLFFLNLASDGKST*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0606700_circ_g.1

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