Plant Circular RNA Database

Detail information of Os01g0563000_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Os01g0563000_circ_igg.1
					
						ID in PlantcircBase
						osa_circ_002233
					
						Alias
						Os01circ14789/Os_ciR976
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 21414887-21415515  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os01g0563000_circ_igg.2 Os01g0563000_circ_igg.3 Os01g0563000_circ_igg.4 Os01g0563000_circ_g.1 Os01g0563000_circ_g.2 Os01g0563000_circ_g.3 Os01g0563000_circ_g.4 Os01g0563000_circ_g.5 Os01g0563000_circ_g.6 Os01g0563000_circ_g.7 Os01g0563000_circ_g.8 Os01g0563000_circ_g.9 Os01g0563000_circ_g.10 Os01g0563000_circ_g.11 Os01g0563000_circ_g.12 Os01g0563000_circ_g.13 Os01g0563000_circ_g.14 						
					
						Support reads
						4/20
					
						Tissues
						leaf/root
					
						Exon boundary  
						
							No-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	Os01g0563000_circ_igg.1
ID in PlantcircBase	osa_circ_002233
Alias	Os01circ14789/Os_ciR976
Organism	Oryza sativa
Position	chr1: 21414887-21415515 JBrowse»
Reference genome	IRGSP-1.0.38
Type	igg-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os01g0563000_circ_igg.2 Os01g0563000_circ_igg.3 Os01g0563000_circ_igg.4 Os01g0563000_circ_g.1 Os01g0563000_circ_g.2 Os01g0563000_circ_g.3 Os01g0563000_circ_g.4 Os01g0563000_circ_g.5 Os01g0563000_circ_g.6 Os01g0563000_circ_g.7 Os01g0563000_circ_g.8 Os01g0563000_circ_g.9 Os01g0563000_circ_g.10 Os01g0563000_circ_g.11 Os01g0563000_circ_g.12 Os01g0563000_circ_g.13 Os01g0563000_circ_g.14
Support reads	4/20
Tissues	leaf/root
Exon boundary	No-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  
						
							CGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCG
CCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAGgtaggaggtcgtgatcgtcggtaacatc
gaggcacagttacaagctattcatgtaaaatcctagtcttgcaaatggtgtggttcgcgtcaac
gcatgtgg

									
								

					

						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: 208
Transcript exons: 21414887-21414928,21415350-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAGAAGAACTGTGGGAGGAAGAGG
ACGAACTGTGGGGGGACGAAGATGTTGAGGAGGAGCTGTCGCTGCGTCACCCTGGATTCAACAA
GTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAAGAACTTTTAC
TGCTTTGAGGTCCAAG
Transcript length: 227
Transcript exons: 21414887-21415003,21415406-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGGCTGTCGCTGC
GTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGC
CAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
Transcript length: 231
Transcript exons: 21414887-21415065,21415464-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT
ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGGGACCATATTC
GCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
Transcript length: 281
Transcript exons: 21414887-21414959,21414969-21415069,21415409-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAATATCTCTTGC
TCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGAAGTCGCTGCGTCACCCTGG
ATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAAG
AACTTTTACTGCTTTGAGGTCCAAG
Transcript length: 282
Transcript exons: 21414887-21415042,21415390-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT
ATCTCTTGCTCGATATAAACGGGCCGGGAAGATGTTGAGGAGGAGCTGTCGCTGCGTCACCCTG
GATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAA
GAACTTTTACTGCTTTGAGGTCCAAG
Transcript length: 290
Transcript exons: 21414887-21415048,21415388-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT
ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCCGAAGATGTTGAGGAGGAGCTGTCGCTGCG
TCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCC
AAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
Transcript length: 306
Transcript exons: 21414887-21415047,21415371-21415515
GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT
ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGGACGAACTGTGGGGGGACGAAGATGTTGAGG
AGGAGCTGTCGCTGCGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGG
GGACCATATTCGCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
						
					

						Genomic sequence
						
							GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG
TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT
ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGAAGAGAATATC
TGCAGCTTGATCAGTTCCAAAACTGAGATATATCTGCAGCTTGATCAGTTCCAAAACTTTAGCT
GGGCACGCACTACCGGCAGGTATACTCGATCGCTTTGCTTTAATTTGCACTATTTAATTTGTCC
ATGCCACTGACAGATTCCTCCTCTTGGCAGCAGTTCAAGGACAAACCAATTTGAAGGCGGCTAG
CGCCAGCACAGGCATGCCGATCTCGCATGAGCTGGGCGAGCCTGACGAAAGCTTCTACAATCTA
TGGAAGGAAGAGTGTGAAGAACTGTGGGAGGAAGAGGACGAACTGTGGGGGGACGAAGATGTTG
AGGAGGAGCTGTCGCTGCGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGG
CGGGGACCATATTCGCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
						
					

			
		

Sequences
Splice junction sequence	CGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCG CCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAGgtaggaggtcgtgatcgtcggtaacatc gaggcacagttacaagctattcatgtaaaatcctagtcttgcaaatggtgtggttcgcgtcaac gcatgtgg
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: 208 Transcript exons: 21414887-21414928,21415350-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAGAAGAACTGTGGGAGGAAGAGG ACGAACTGTGGGGGGACGAAGATGTTGAGGAGGAGCTGTCGCTGCGTCACCCTGGATTCAACAA GTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAAGAACTTTTAC TGCTTTGAGGTCCAAG Transcript length: 227 Transcript exons: 21414887-21415003,21415406-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGGCTGTCGCTGC GTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGC CAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG Transcript length: 231 Transcript exons: 21414887-21415065,21415464-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGGGACCATATTC GCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG Transcript length: 281 Transcript exons: 21414887-21414959,21414969-21415069,21415409-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAATATCTCTTGC TCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGAAGTCGCTGCGTCACCCTGG ATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAAG AACTTTTACTGCTTTGAGGTCCAAG Transcript length: 282 Transcript exons: 21414887-21415042,21415390-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT ATCTCTTGCTCGATATAAACGGGCCGGGAAGATGTTGAGGAGGAGCTGTCGCTGCGTCACCCTG GATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCCAAGGACAA GAACTTTTACTGCTTTGAGGTCCAAG Transcript length: 290 Transcript exons: 21414887-21415048,21415388-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCCGAAGATGTTGAGGAGGAGCTGTCGCTGCG TCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGGGGACCATATTCGCGCC AAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG Transcript length: 306 Transcript exons: 21414887-21415047,21415371-21415515 GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGGACGAACTGTGGGGGGACGAAGATGTTGAGG AGGAGCTGTCGCTGCGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGGCGG GGACCATATTCGCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG
Genomic sequence	GTAGGAGGTCGTGATCGTCGGTAACATCGAGGCACAGTTACAAGCTATTCATGTAAAATCCTAG TCTTGCAAATGGTGTGGTTCGCGTCAACGCATGTGGAAATGAGAGGAAGGAAGCTCCCGAAAAT ATCTCTTGCTCGATATAAACGGGCCGGGTCAGGCGCGAACCTAAAACTTTCGGAAGAGAATATC TGCAGCTTGATCAGTTCCAAAACTGAGATATATCTGCAGCTTGATCAGTTCCAAAACTTTAGCT GGGCACGCACTACCGGCAGGTATACTCGATCGCTTTGCTTTAATTTGCACTATTTAATTTGTCC ATGCCACTGACAGATTCCTCCTCTTGGCAGCAGTTCAAGGACAAACCAATTTGAAGGCGGCTAG CGCCAGCACAGGCATGCCGATCTCGCATGAGCTGGGCGAGCCTGACGAAAGCTTCTACAATCTA TGGAAGGAAGAGTGTGAAGAACTGTGGGAGGAAGAGGACGAACTGTGGGGGGACGAAGATGTTG AGGAGGAGCTGTCGCTGCGTCACCCTGGATTCAACAAGTGGACCGTCCAGCAGGGTGCTGCAGG CGGGGACCATATTCGCGCCAAGGACAAGAACTTTTACTGCTTTGAGGTCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.370254173

Conservation Information
Conserved circRNAs	NA
PMCS	0.370254173

			
						 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
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os01g0563000_circ_igg.1

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