Plant Circular RNA Database

Detail information of Os01g0231900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0231900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_000951
					
						Alias
						Os_ciR6583
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 7289236-7292703  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0231900						
					
						Parent gene annotation
						
							K Homology, type 1, subgroup domain containing protein. (Os01t02
31900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0231900_circ_g.1 Os01g0231900_circ_g.2 Os01g0231900_circ_g.4 Os01g0231900_circ_g.5 Os01g0231900_circ_g.6 						
					
						Support reads
						2/3
					
						Tissues
						root/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
						Os01t0231900-01:8

General Information
CircRNA Name	Os01g0231900_circ_g.3
ID in PlantcircBase	osa_circ_000951
Alias	Os_ciR6583
Organism	Oryza sativa
Position	chr1: 7289236-7292703 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0231900
Parent gene annotation	K Homology, type 1, subgroup domain containing protein. (Os01t02 31900-01)
Parent gene strand	+
Alternative splicing	Os01g0231900_circ_g.1 Os01g0231900_circ_g.2 Os01g0231900_circ_g.4 Os01g0231900_circ_g.5 Os01g0231900_circ_g.6
Support reads	2/3
Tissues	root/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	Os01t0231900-01:8

			
						 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  
						
							TCATTCCAGACATGCATGAAAGGCTCACCAGCTAGGGCCAGGGTAGTATATGCTCCTGTGCTGG
AAGTTGGTGAAGAGGGACGCCTACAACGTGCTTGCAgtcctgtaagcaaacaagtggaagagaa
ttcagcctcagatggaacaactaatgttgttattgaagtttccacctacaacgcatccttgcca
gaaaataa

									
								

					

						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
						
							GTCCTGTAAGCAAACAAGTGGAAGAGAATTCAGCCTCAGATGGAACAACTAATGTTGTTATTGA
AGTTTCCACCTACAACGCATCCTTGCCAGAAAATAAATTAGCCACAGAAGATACTATGGAGGAT
GCTAGCTTCAATAAGGACATAGATAGGTCCAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGG
TATGCTCGGTGGATATGTATGACAATTAATGTATCTTTTCCCTGTAAAAAGCTCAATGTATGAG
TGATATTTACTTGTATTCTTTTCAAATATTCATGAATTCTGTTCTTTTCTAGGTAGATGCTCCT
CTGATGCGCTTTGTGAAAGGAAAAGGGTATTGGTCTCTTGAACCTGTTTCAGATATGCATTATC
CTCAACTATCCTCAGTTGAGGATAATGCTGGCCTGTCTCTCTCTGTGACTGAGAATCAATCGTA
TTCTTTGGCATGCAGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATA
TTTCCATCTTCTAAGGAGGAAACATGTGTTGGTAAAGATATACTGTTTATTTTTCAAATATGCT
TGATGAAATAAGCTGTTGGTAACTTTGGAAGCTAATGTTTGTGCTATATTGATTATTTTCAGTT
CTTGAAGCTAAAACTACTGAAGATATTAGAAAGGCTTCAGAGAAAATTGCAAAGGTTCTTGAAG
AGGTACACGTGATGCACTTTTTTTAAGATAAAGGAAGCTTTATTGATCTTAAACAATTACATCA
AGACAATACAATTACTCTAAGACCAGTCCCAGCCTCTGCATGATTAAGATGCACACGACTTACG
ATTATTACAAAAGAAAAGCGGCACAACAACAAATATCATGCCGCAGCGAACTACAAACACAAGC
GATCTTCATACTTGCACGCATGTGGTGCACTGCTGCAATGGCTTATTATTTCCTGATACTCTGT
GCATGTATCTATATTAGGCGTGGGCAGTAAAATCCCGAAGACTGAAAGCCGAACCGACCCGAGC
CGAACCGAACCGAAGTGTCGGGTTTTTCAGGCTTCGGTTTATCCTTCGGTTTTTATTCTGCATT
TGTTCGGTGTATGGTTTTTTCTGCGGTTTCCAATCCTCACGAACCAAACAACCCGAGAAAACCG
AAACCACACGTTCACATCATATCCCAGCAACCCAGCCTGGTAACATGAAAGGCCCAACATCTCC
TAAACAAGGCACAGAGCCCATTAGTTTAACACTACTCGTATCTTCTCAAGCGGTCAAGCCTATT
CATCGACATCTCGACATCGATCTTTGCACGCGCATGGCTGGATTGGATGGCTACCTTAACGATG
CTGCCGCTGCCACTGCATGCGTGGACGATTGCCTCGGGCAGCTGCATAGCTGCCACATGCACAC
ATCACTCATAGCTGGCAGTTTGCTCAGATTGCAAGTTTTATGACTCCTACCATGTGCGAGGGCA
GAAAGCAACTTCTCCCCTCTCGATTTTTATGAACCATCTAGCGATTCATTTGATTATCGTGTGC
TTCGGAATTCATGGAAGATGTTCTCCCGGTTTGTTCGGTGAAACCGAACAACCAAACCAAACAA
ACTCGGTTTGTTCGGCTCGGTTTTTTACCTTTTCAATAGATACTTCGGTTAGCATATCTGCAAA
ACCGAACTTCTAACAAACCGAATAAACCGAGGAAACCAAACGCCCACCCCTAATCTATATTACT
ATAGCATAATAGTTTGTGGTGCTTATTACACTAACATTCTTATTCATTTCCTCCTGATCATTTA
ATGAAATATACAAGCTATGATAGTTATGAGTGTCAAAGTTTAAAGGCCTTACTATGTTAACAAT
AATATATCAAAGCACAAAAATTGATGCAGGATACCTCTTATATTTCTTGCAGTAGCACTAGACT
AGTCCAAGTTAAAGTTGTCAAAAGGTGTAAAGTTGTGTCTCCCATCACCAGTGAGCTACTCACA
AATATAATCTACTGCCACCTGATTTGATAAAGTCATGTTTGAAATCCTATTTATGTCAGCTAAT
CATGGTTATCACCCTGGACGGCTGAGCTCCTCCTTTTTATTTCAGGCCGTGAAAAGTCCAATAC
TAGATTACTCTCACTTCATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAA
CCACTTCCAGTGCTCAATCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTA
AGTGAAGGTTCTATGGATGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAA
TAAAGATGCAAGCCCATGAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAGG
TCTAAAAGCTTTGCTGATTTTCCTGCTATTTCGTTTTATCGGAGTTTTCCTATTGTCAACTCTA
TAAAGTCCGGTTTTTGGAACTTTCTATAGTACAAGTCAATTACACAACTAAGAGGGCTGGTGTG
TTTGTGAAGAGTTAGATGTGCAGCTCTAATTTTTAATCTGTCAAGTTGGGAAGTTTTGTATTTT
AAGTTTTATTTCTTATTTTTAACATTCCACACTGTTGATTTTGGTGGTGAGATTCAAACGATTG
TGAGTAATATTGCAGATGTAACATTTTCTAGTATCTCTATGTTTAACAATGTAATAAATAATAA
GGCAAGCTAATGAATATTTGAAGTTTGGAATTTAAGAAAAAAAAAAGTTCTCTTGTTTGCCAAG
CAAATCTCATATCTGTATTTTGTTTTGTAAATTTTGTTTGTACACCTGTGGCATATTGACGGTA
CTAGATGCATTGCTTGTTATGCAATTTCCAAATTACAAGTTCTATGCTCTTCAGGCATTGAACT
AAGCTTTCTTATCATTTGTAGACTTCGGCATTGACAAGTCAATATTTATTAAACCCAAAACCTT
TCACCTAACGGTTCTTATGTTGAAGCTATGGAATAAGGATCGCATTGCTAAGGCTTCTGATGTG
CTCCAGGTAATTTCCGTTTCCAGATTATTGTGGTTTATTGTCTGAGATGACAGTGAGCAACTTA
ATGTGTTACCTTGTGGATACAGTCAGTATCGTCCCAAGTAATGGAAGCCTTGGAAAACCGACCA
ATCTCCATACAACTTAGAGGTCTGGTGAGTTGCCATTCTCGAATAGTTCTGGCTGGAAGCTCAT
TCATGCATACATCTAGAATAGCAAATGTAGATAATTCGAGCCAGAGAACAAAATATTTGTTCCT
AAACACATTGTTGCTGCAAACCACATTTTAATACCTGTTTATAAAAGGTATCTGTACTGTTTCT
CCCACCTTTTCCAATAATTCAAAGTTCCAATGAGAATATTTCATTCCAGACATGCATGAAAGGC
TCACCAGCTAGGGCCAGGGTAGTATATGCTCCTGTGCTGGAAGTTGGTGAAGAGGGACGCCTAC
AACGTGCTTGCA
						
					

			
		

Sequences
Splice junction sequence	TCATTCCAGACATGCATGAAAGGCTCACCAGCTAGGGCCAGGGTAGTATATGCTCCTGTGCTGG AAGTTGGTGAAGAGGGACGCCTACAACGTGCTTGCAgtcctgtaagcaaacaagtggaagagaa ttcagcctcagatggaacaactaatgttgttattgaagtttccacctacaacgcatccttgcca gaaaataa
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	GTCCTGTAAGCAAACAAGTGGAAGAGAATTCAGCCTCAGATGGAACAACTAATGTTGTTATTGA AGTTTCCACCTACAACGCATCCTTGCCAGAAAATAAATTAGCCACAGAAGATACTATGGAGGAT GCTAGCTTCAATAAGGACATAGATAGGTCCAATCTATCTGAAAAGTGTTCCTCTTCTGTTCAGG TATGCTCGGTGGATATGTATGACAATTAATGTATCTTTTCCCTGTAAAAAGCTCAATGTATGAG TGATATTTACTTGTATTCTTTTCAAATATTCATGAATTCTGTTCTTTTCTAGGTAGATGCTCCT CTGATGCGCTTTGTGAAAGGAAAAGGGTATTGGTCTCTTGAACCTGTTTCAGATATGCATTATC CTCAACTATCCTCAGTTGAGGATAATGCTGGCCTGTCTCTCTCTGTGACTGAGAATCAATCGTA TTCTTTGGCATGCAGTGGAACCATGCAGAAGCAGATTGAAGATGAAACTGGGGTCAAAATTATA TTTCCATCTTCTAAGGAGGAAACATGTGTTGGTAAAGATATACTGTTTATTTTTCAAATATGCT TGATGAAATAAGCTGTTGGTAACTTTGGAAGCTAATGTTTGTGCTATATTGATTATTTTCAGTT CTTGAAGCTAAAACTACTGAAGATATTAGAAAGGCTTCAGAGAAAATTGCAAAGGTTCTTGAAG AGGTACACGTGATGCACTTTTTTTAAGATAAAGGAAGCTTTATTGATCTTAAACAATTACATCA AGACAATACAATTACTCTAAGACCAGTCCCAGCCTCTGCATGATTAAGATGCACACGACTTACG ATTATTACAAAAGAAAAGCGGCACAACAACAAATATCATGCCGCAGCGAACTACAAACACAAGC GATCTTCATACTTGCACGCATGTGGTGCACTGCTGCAATGGCTTATTATTTCCTGATACTCTGT GCATGTATCTATATTAGGCGTGGGCAGTAAAATCCCGAAGACTGAAAGCCGAACCGACCCGAGC CGAACCGAACCGAAGTGTCGGGTTTTTCAGGCTTCGGTTTATCCTTCGGTTTTTATTCTGCATT TGTTCGGTGTATGGTTTTTTCTGCGGTTTCCAATCCTCACGAACCAAACAACCCGAGAAAACCG AAACCACACGTTCACATCATATCCCAGCAACCCAGCCTGGTAACATGAAAGGCCCAACATCTCC TAAACAAGGCACAGAGCCCATTAGTTTAACACTACTCGTATCTTCTCAAGCGGTCAAGCCTATT CATCGACATCTCGACATCGATCTTTGCACGCGCATGGCTGGATTGGATGGCTACCTTAACGATG CTGCCGCTGCCACTGCATGCGTGGACGATTGCCTCGGGCAGCTGCATAGCTGCCACATGCACAC ATCACTCATAGCTGGCAGTTTGCTCAGATTGCAAGTTTTATGACTCCTACCATGTGCGAGGGCA GAAAGCAACTTCTCCCCTCTCGATTTTTATGAACCATCTAGCGATTCATTTGATTATCGTGTGC TTCGGAATTCATGGAAGATGTTCTCCCGGTTTGTTCGGTGAAACCGAACAACCAAACCAAACAA ACTCGGTTTGTTCGGCTCGGTTTTTTACCTTTTCAATAGATACTTCGGTTAGCATATCTGCAAA ACCGAACTTCTAACAAACCGAATAAACCGAGGAAACCAAACGCCCACCCCTAATCTATATTACT ATAGCATAATAGTTTGTGGTGCTTATTACACTAACATTCTTATTCATTTCCTCCTGATCATTTA ATGAAATATACAAGCTATGATAGTTATGAGTGTCAAAGTTTAAAGGCCTTACTATGTTAACAAT AATATATCAAAGCACAAAAATTGATGCAGGATACCTCTTATATTTCTTGCAGTAGCACTAGACT AGTCCAAGTTAAAGTTGTCAAAAGGTGTAAAGTTGTGTCTCCCATCACCAGTGAGCTACTCACA AATATAATCTACTGCCACCTGATTTGATAAAGTCATGTTTGAAATCCTATTTATGTCAGCTAAT CATGGTTATCACCCTGGACGGCTGAGCTCCTCCTTTTTATTTCAGGCCGTGAAAAGTCCAATAC TAGATTACTCTCACTTCATTTCGCTTCCATTGGCTATCCACCCAAGCCTTGTTGAGAAGCTGAA CCACTTCCAGTGCTCAATCCTTGGGACTTCTTCTAATGTAGATAGTGATAAGGGTGAGGACCTA AGTGAAGGTTCTATGGATGAAATTGACCATGAACAGAAGCAAGAAAGGAGCCCTAGTGTTTCAA TAAAGATGCAAGCCCATGAGGAGTCTGTCAGAGTTAAAATGGATATTAAGGGCTCCCAACCAGG TCTAAAAGCTTTGCTGATTTTCCTGCTATTTCGTTTTATCGGAGTTTTCCTATTGTCAACTCTA TAAAGTCCGGTTTTTGGAACTTTCTATAGTACAAGTCAATTACACAACTAAGAGGGCTGGTGTG TTTGTGAAGAGTTAGATGTGCAGCTCTAATTTTTAATCTGTCAAGTTGGGAAGTTTTGTATTTT AAGTTTTATTTCTTATTTTTAACATTCCACACTGTTGATTTTGGTGGTGAGATTCAAACGATTG TGAGTAATATTGCAGATGTAACATTTTCTAGTATCTCTATGTTTAACAATGTAATAAATAATAA GGCAAGCTAATGAATATTTGAAGTTTGGAATTTAAGAAAAAAAAAAGTTCTCTTGTTTGCCAAG CAAATCTCATATCTGTATTTTGTTTTGTAAATTTTGTTTGTACACCTGTGGCATATTGACGGTA CTAGATGCATTGCTTGTTATGCAATTTCCAAATTACAAGTTCTATGCTCTTCAGGCATTGAACT AAGCTTTCTTATCATTTGTAGACTTCGGCATTGACAAGTCAATATTTATTAAACCCAAAACCTT TCACCTAACGGTTCTTATGTTGAAGCTATGGAATAAGGATCGCATTGCTAAGGCTTCTGATGTG CTCCAGGTAATTTCCGTTTCCAGATTATTGTGGTTTATTGTCTGAGATGACAGTGAGCAACTTA ATGTGTTACCTTGTGGATACAGTCAGTATCGTCCCAAGTAATGGAAGCCTTGGAAAACCGACCA ATCTCCATACAACTTAGAGGTCTGGTGAGTTGCCATTCTCGAATAGTTCTGGCTGGAAGCTCAT TCATGCATACATCTAGAATAGCAAATGTAGATAATTCGAGCCAGAGAACAAAATATTTGTTCCT AAACACATTGTTGCTGCAAACCACATTTTAATACCTGTTTATAAAAGGTATCTGTACTGTTTCT CCCACCTTTTCCAATAATTCAAAGTTCCAATGAGAATATTTCATTCCAGACATGCATGAAAGGC TCACCAGCTAGGGCCAGGGTAGTATATGCTCCTGTGCTGGAAGTTGGTGAAGAGGGACGCCTAC AACGTGCTTGCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.209313247

Conservation Information
Conserved circRNAs	NA
PMCS	0.209313247

			
						 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 Os01g0231900_circ_g.3

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