Plant Circular RNA Database

Detail information of Os12g0623900_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Os12g0623900_circ_ag.1
					
						ID in PlantcircBase
						osa_circ_012397
					
						Alias
						Os_ciR1
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 26649462-26661205  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
						
							Os12g0623950_circ_ag.1 Os12g0623950_circ_g.1 Os12g0623950_circ_g.2 Os12g0623950_circ_ag.3 Os12g0623950_circ_g.4 Os12g0623950_circ_g.5 Os12g0623950_circ_g.6 Os12g0623950_circ_g.7 Os12g0623950_circ_ag.8 Os12g0623950_circ_ag.9 Os12g0623950_circ_ag.10 Os12g0623950_circ_g.11 Os12g0623950_circ_g.12 Os12g0623950_circ_ag.13 Os12g0623950_circ_ag.14 Os12g0623950_circ_ag.15 Os12g0623900_circ_g.1 Os12g0623900_circ_g.2 Os12g0623900_circ_g.3 Os12g0623900_circ_ag.2 Os12g0623900_circ_g.3 Os12g0623900_circ_g.4 Os12g0623900_circ_ag.5 Os12g0623900_circ_ag.6 Os12g0623900_circ_g.7 Os12g0623900_circ_ag.8 Os12g0623900_circ_g.9 Os12g0623900_circ_ag.10 Os12g0623900_circ_ag.11 Os12g0623900_circ_ag.12 Os12g0624000_circ_g.1 Os12g0624000_circ_g.2 Os12g0624000_circ_g.3 						
					
						Support reads
						40360/305
					
						Tissues
						root/shoot, 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	Os12g0623900_circ_ag.1
ID in PlantcircBase	osa_circ_012397
Alias	Os_ciR1
Organism	Oryza sativa
Position	chr12: 26649462-26661205 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	Os12g0623950_circ_ag.1 Os12g0623950_circ_g.1 Os12g0623950_circ_g.2 Os12g0623950_circ_ag.3 Os12g0623950_circ_g.4 Os12g0623950_circ_g.5 Os12g0623950_circ_g.6 Os12g0623950_circ_g.7 Os12g0623950_circ_ag.8 Os12g0623950_circ_ag.9 Os12g0623950_circ_ag.10 Os12g0623950_circ_g.11 Os12g0623950_circ_g.12 Os12g0623950_circ_ag.13 Os12g0623950_circ_ag.14 Os12g0623950_circ_ag.15 Os12g0623900_circ_g.1 Os12g0623900_circ_g.2 Os12g0623900_circ_g.3 Os12g0623900_circ_ag.2 Os12g0623900_circ_g.3 Os12g0623900_circ_g.4 Os12g0623900_circ_ag.5 Os12g0623900_circ_ag.6 Os12g0623900_circ_g.7 Os12g0623900_circ_ag.8 Os12g0623900_circ_g.9 Os12g0623900_circ_ag.10 Os12g0623900_circ_ag.11 Os12g0623900_circ_ag.12 Os12g0624000_circ_g.1 Os12g0624000_circ_g.2 Os12g0624000_circ_g.3
Support reads	40360/305
Tissues	root/shoot, 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  
						
							AGAAGAAGCTCAACCTTCCAGTCCTTCCTACAACCACAATTGGTTCATTCCCACAGACTGTGGA
GCTCAGGAGAGTCCGCCGTGAGTACAAGGCTAAAAAgatctctgaggaggagtacatcagtgcc
atcaaggaggaaatcagcaaggttgttaagatccaggaagagcttgacatcgatgtccttgttc
acggcgag

									
								

					

						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: 2067
Transcript exons: 26649462-26649608,26649712-26649968,26650054-26650328,26
650406-26650624,26658603-26658827,26658924-26659014,2665
9754-26659886,26659960-26660154,26660257-26660350,266605
72-26660738,26660853-26660949,26661039-26661205
GATCTCTGAGGAGGAGTACATCAGTGCCATCAAGGAGGAAATCAGCAAGGTTGTTAAGATCCAG
GAAGAGCTTGACATCGATGTCCTTGTTCACGGCGAGCCTGAGGTCAGTATCCTTGTGTACTGTT
TGTGTTTTCTAGACTTTGCTCAGAGAAACGATATGGTTGAGTACTTCGGTGAGCAGCTTTCTGG
TTTTGCATTCACTGCCAACGGATGGGTGCAATCTTATGGATCACGGTGTGTCAAGCCACCAATT
ATCTATGGTGATGTGAGCCGCCCCAACCCCATGACTGTGTTCTGGTCCAAGTTGGCGCAGAGCA
TGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGT
CAGGAATGACCAGCCGAGGTCAGGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGG
AGGTCGAGGACCTTGAGGCTGGTGGTATTCAGGTTGGTCCTGTTCTATAATTTGGTTCTCAAGA
GAATCTTGCTTACGTTTTTTTAATGGTCCTTTGCAGGTCATCCAAATCGATGAGGCTGCTTTGA
GAGAAGGTCTGCCACTCCGCAAGGCGGAGCATGCTTTCTACTTGGACTGGGCTGTTCACTCCTT
CAGAATCACCAACTGCGGTGTTCAGGACACCACCCAGGTACAGATCCACACCCACATGTGCTAC
TCTAACTTCAACGACATCATCCACTCCATCATCAACATGGACGCTGATGTGATCACCATCGAGA
ACTCCCGGTCCGACGAGAAGCTGCTCTCCGTCTTCCGCGAGGGTGTGAAGTATGGTGCTGGCAT
TGGCCCTGGTGTCTATGACATCCACTCCCCAAGGATCCCGTCCACAGAGGAGATTGCGGACCGC
GTGCCAGCATCTGGAAGCAAATGGCTGACGCTGGGATCAAGTATATCCCCAGCAACACCTTCTC
GTACTATGATCAGGTTCTTGACACGACCGCCATGCTTGGTGCTGTCCCAGAGCGCTACTCATGG
ACCGGTGGAGAGATTGGGTTCAGCACCTACTTCTCGATGGCTAGGGGAAATGCCACTGTCCCTG
CTATGGAGATGACCAAGTGGTTTGACACCAACTAGGCCACTTTATCGTCCCTGAACTTGGTCCC
AACACCAAGTTCTCCTACTCTTCCCACAAGGCTGTGAATGAATACAAGGAGGCCAAGGCGGTAG
CTCGGCGTTGACACCGTGCCAGTACTTGTTGGACCAGTTTCATACTTGTTGCTCTCCAAGCCTG
CCAAGGGTGTAGAGAAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA
GTAGGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGATGAGCCCAC
ACTTGTTCTTGACCTTGACTCTCACCAATTGGCTGCATTCTCTGCAGCGTACACAGAACTCGAG
TCGGCACTTTCTGGATTGAATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCAT
ACAAGTGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCGTGGTTCC
AAGACTCTTGACCTTGTCAAGAGTGCTGGTTTCCCCAGACAAGCTTGTGGTCTCGACTTCCTGC
TCACTCATGCACACCGCTGTGGATCTTGTAAATGAGACCAAGCTCGATAGCGAGATTAAGTCAT
GGCTTGCTTTTGCTGCCCAAAAAGTGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACA
GAAGGATGAGGCAATATTGTACAGGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGA
GGTCATCACCTCGTGTGACAAACGAGGAAGTCCAAAAGGCTGTAGCTGCTGCTCTGAGGGGGTC
TGACCACCGCCGTGCTACCAATGTTAGCGCTAGGTTGGACGCACAGCAGAAGAAGCTCAACCTT
CCAGTCCTTCCTACAACCACAATTGGTTCATTCCCACAGACTGTGGAGCTCAGGAGAGTCCGCC
GTGAGTACAAGGCTAAAAA
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	AGAAGAAGCTCAACCTTCCAGTCCTTCCTACAACCACAATTGGTTCATTCCCACAGACTGTGGA GCTCAGGAGAGTCCGCCGTGAGTACAAGGCTAAAAAgatctctgaggaggagtacatcagtgcc atcaaggaggaaatcagcaaggttgttaagatccaggaagagcttgacatcgatgtccttgttc acggcgag
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: 2067 Transcript exons: 26649462-26649608,26649712-26649968,26650054-26650328,26 650406-26650624,26658603-26658827,26658924-26659014,2665 9754-26659886,26659960-26660154,26660257-26660350,266605 72-26660738,26660853-26660949,26661039-26661205 GATCTCTGAGGAGGAGTACATCAGTGCCATCAAGGAGGAAATCAGCAAGGTTGTTAAGATCCAG GAAGAGCTTGACATCGATGTCCTTGTTCACGGCGAGCCTGAGGTCAGTATCCTTGTGTACTGTT TGTGTTTTCTAGACTTTGCTCAGAGAAACGATATGGTTGAGTACTTCGGTGAGCAGCTTTCTGG TTTTGCATTCACTGCCAACGGATGGGTGCAATCTTATGGATCACGGTGTGTCAAGCCACCAATT ATCTATGGTGATGTGAGCCGCCCCAACCCCATGACTGTGTTCTGGTCCAAGTTGGCGCAGAGCA TGACCTCTCGCCCCATGAAGGGAATGTTGACTGGTCCCGTCACAATCCTTAACTGGTCTTTTGT CAGGAATGACCAGCCGAGGTCAGGTTTGAGACATGCTACCAGATTGCTCTTGCCATCAAGAAGG AGGTCGAGGACCTTGAGGCTGGTGGTATTCAGGTTGGTCCTGTTCTATAATTTGGTTCTCAAGA GAATCTTGCTTACGTTTTTTTAATGGTCCTTTGCAGGTCATCCAAATCGATGAGGCTGCTTTGA GAGAAGGTCTGCCACTCCGCAAGGCGGAGCATGCTTTCTACTTGGACTGGGCTGTTCACTCCTT CAGAATCACCAACTGCGGTGTTCAGGACACCACCCAGGTACAGATCCACACCCACATGTGCTAC TCTAACTTCAACGACATCATCCACTCCATCATCAACATGGACGCTGATGTGATCACCATCGAGA ACTCCCGGTCCGACGAGAAGCTGCTCTCCGTCTTCCGCGAGGGTGTGAAGTATGGTGCTGGCAT TGGCCCTGGTGTCTATGACATCCACTCCCCAAGGATCCCGTCCACAGAGGAGATTGCGGACCGC GTGCCAGCATCTGGAAGCAAATGGCTGACGCTGGGATCAAGTATATCCCCAGCAACACCTTCTC GTACTATGATCAGGTTCTTGACACGACCGCCATGCTTGGTGCTGTCCCAGAGCGCTACTCATGG ACCGGTGGAGAGATTGGGTTCAGCACCTACTTCTCGATGGCTAGGGGAAATGCCACTGTCCCTG CTATGGAGATGACCAAGTGGTTTGACACCAACTAGGCCACTTTATCGTCCCTGAACTTGGTCCC AACACCAAGTTCTCCTACTCTTCCCACAAGGCTGTGAATGAATACAAGGAGGCCAAGGCGGTAG CTCGGCGTTGACACCGTGCCAGTACTTGTTGGACCAGTTTCATACTTGTTGCTCTCCAAGCCTG CCAAGGGTGTAGAGAAGTCGTTCGCTCTTCTTTCCCTTCTCAGCAGCATCCTTCCTGTCTACAA GTAGGGAGGTTATTGCTGAGTTGAAGGCAGCTGGTGCTACATGGATTCAGTTTGATGAGCCCAC ACTTGTTCTTGACCTTGACTCTCACCAATTGGCTGCATTCTCTGCAGCGTACACAGAACTCGAG TCGGCACTTTCTGGATTGAATGTGCTTATTGAGACATACTTCGCTGACATTCCTGCTGAATCAT ACAAGTGACCCTCACATCCCTGAACAGCGTGACTGCTTATGGTTTTGACCTTATCCGTGGTTCC AAGACTCTTGACCTTGTCAAGAGTGCTGGTTTCCCCAGACAAGCTTGTGGTCTCGACTTCCTGC TCACTCATGCACACCGCTGTGGATCTTGTAAATGAGACCAAGCTCGATAGCGAGATTAAGTCAT GGCTTGCTTTTGCTGCCCAAAAAGTGGTTGAGGTGAATGCCCTTGCTAAGGCATTGGCTGGACA GAAGGATGAGGCAATATTGTACAGGCTTACTTTGCAGCAAACACTGCTGCTCAGGCCTCCAGGA GGTCATCACCTCGTGTGACAAACGAGGAAGTCCAAAAGGCTGTAGCTGCTGCTCTGAGGGGGTC TGACCACCGCCGTGCTACCAATGTTAGCGCTAGGTTGGACGCACAGCAGAAGAAGCTCAACCTT CCAGTCCTTCCTACAACCACAATTGGTTCATTCCCACAGACTGTGGAGCTCAGGAGAGTCCGCC GTGAGTACAAGGCTAAAAA
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010006 						
					
						PMCS
						0.725332965

Conservation Information
Conserved circRNAs	osi_circ_010006
PMCS	0.725332965

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os12g0623900_circ_ag.1

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