Plant Circular RNA Database

Detail information of Os01g0390300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0390300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001789
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 16475191-16478293  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0390300						
					
						Parent gene annotation
						
							Nucleic acid-binding, OB-fold domain containing protein. (Os01t0
390300-01);Nucleic acid-binding, OB-fold domain containing prote
in. (Os01t0390300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0391100_circ_igg.1 Os01g0388000_circ_g.1 EPlOSAG00000043644_circ_ig.1 EPlOSAG00000043644_circ_ig.2 Os01g0388500_circ_igg.1 Os01g0388500_circ_igg.2 Os01g0388500_circ_igg.3 Os01g0390300_circ_g.2 Os01g0390300_circ_g.3 Os01g0390400_circ_g.1 Os01g0390400_circ_g.2 Os01g0390400_circ_g.3 Os01g0390400_circ_g.4 Os01g0390400_circ_g.5 Os01g0390400_circ_g.6 Os01g0390400_circ_g.7 Os01g0390400_circ_g.8 Os01g0390900_circ_g.1 Os01g0390900_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os01t0390300-02:3
Os01t0390300-01:3

General Information
CircRNA Name	Os01g0390300_circ_g.1
ID in PlantcircBase	osa_circ_001789
Alias	NA
Organism	Oryza sativa
Position	chr1: 16475191-16478293 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0390300
Parent gene annotation	Nucleic acid-binding, OB-fold domain containing protein. (Os01t0 390300-01);Nucleic acid-binding, OB-fold domain containing prote in. (Os01t0390300-02)
Parent gene strand	-
Alternative splicing	Os01g0391100_circ_igg.1 Os01g0388000_circ_g.1 EPlOSAG00000043644_circ_ig.1 EPlOSAG00000043644_circ_ig.2 Os01g0388500_circ_igg.1 Os01g0388500_circ_igg.2 Os01g0388500_circ_igg.3 Os01g0390300_circ_g.2 Os01g0390300_circ_g.3 Os01g0390400_circ_g.1 Os01g0390400_circ_g.2 Os01g0390400_circ_g.3 Os01g0390400_circ_g.4 Os01g0390400_circ_g.5 Os01g0390400_circ_g.6 Os01g0390400_circ_g.7 Os01g0390400_circ_g.8 Os01g0390900_circ_g.1 Os01g0390900_circ_g.2
Support reads	1
Tissues	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	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	Os01t0390300-02:3 Os01t0390300-01:3

			
						 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  
						
							GAACCTAACCTGCTTGATTGAACCAGCAGCCCGAACATTCCTTGGCAAAATCAATCAAGAACCC
TTGAAGCACCGCTTCAGCCCGTGCAAATCCGGCCCTctgttgttgaggacctgaactgaagatg
aggagaataaaaccaagtctgcttgcaccaattcttccacctataaaaaaaagtaaatcaatca
tcaaagat

									
								

					

						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
						
							CTGTTGTTGAGGACCTGAACTGAAGATGAGGAGAATAAAACCAAGTCTGCTTGCACCAATTCTT
CCACCTATAAAAAAAAGTAAATCAATCATCAAAGATCACAACATTTAGTATGTGTCAAATTGAC
CAGCACACTATCGCACAGCCTAGTTAAGGAATTCAACCAACCATCAAGTCTGAAACACCTAGAG
TTTGTCTAGGATAAAATGCACAAGCCACAATATGCATGCATGCTTGGCTACTTTTGCTATGAGA
CGTTTGAGAAACACAAAAAACCAAAATTTTGGGACAGACAAAACCTCTTTTAATCACATTGTCT
CATGTTAAAATACTACTGCTGTCATTGAACAGAGAACAACTGTAATATATTAGTAGTTTGGCTC
AAATAAATTTGTAAAAAAAAAATCTACTTTACACAATGGAAAGCAAAGTCTTTGAAAACTAAGG
TTCCAACAATTTGCTAGGCCTTTACTTTTGAGGCAAAACTGAAACAGAGAAAACACTCTAAGCG
GGGACATACATTAAGCCTGATGCATGAGAAAATGTTTCTTTACAGGGCATTGAACCTCCCTCTG
GTCTGATGATTAAATTGCTATACAGCTGATTCTACTCTTTATACACTATAAGATGAAACTAAAC
AAAACCCTATGTATATACAGCAAATGAATGTCTCCAGAATTCATAATGGATTCAAAAGATAATC
GTATGTATATACAGACAAGCAGTAGTATCATGAATGAATAGCCATATATGATGAAATTGTGGGA
GCATGTTGTAGTAATAGCCTCACATTATACAGCAACCATAAATAAAATATCAAAAGCCAAACTC
CAATATCAATACGCAATGTTTTAGAAGCACTGAATACTAATTGCACAATACAAAAATTAATCAT
GCACGAGGCATGTTTAATGTGAAGTAATCAGTATGGCACTAAAGCAAAAAACTGCAGTGACGGA
TACTCCTAAATATAGATATAAGAGGTGCCTTAAAATTATTTTGTGCAATAGTAAGCATGGATCT
GACCTAACATCTTGCACAATTTCATAAAAAAATTGAACTAAGCTTGCAGAAAAGGCAAAAAAAA
AAACATAATAGTCTAAAGGCACACTACCCATGATGCAGAACTATCAAGTCGCTTTAATAGTTTG
ACAACTGCAGCGCTGAAAGCTCAATGAGAAATGTCACTCCGAAGCAGCAGCAGAAAAAGAATGC
TAAAGAGTTTATATATAAAAGCAAAGGCCTAATCAAAGTGCAAAGCTAGTCCATTTTTATCTGC
TCGCTGACCAAATATCCTGCACTATATAATATATATATTTTTTTGTTTCAAAAGGGAAAAGATG
TCTTGCAAGCAACTGTGCCACTCTCCTACTCTCCTAGCCATCATATGAACTCCATACATGTGTA
TGTTTTCCATCCTGCAAATCACTGGGTGTTTATTTAGATTTCAGTTTAATCTGTATAAAAGCGA
GGACAGGTGAGAAGCAAAACTTTTGCTTTGAGGTCGCTGTGCACAGATTGATTAGTTGTATTTT
TTTTACCAGAGAGAACCAATACTTAATAATAGAGGTTATACCTTTAAAACTTCATATGGCTAGC
TTACCTTAAAAATAATTACTAACTTTTCTGAAAAAAAAAATCAGAGATAATGTGCAGAGCTGAA
TGAGAAATGTCACTCCGAAGCAGCAGTACAAAAAGAATGCTAAAAAGAGTTTATATATAAAAGC
AAAGGCCTAATCAAAGTGCAGAGCTAGTCCATTTTTATTTGCTCGCTGACCAAATATCTTGCAC
TATATAAAATATTTTTTTTTTTGTTTCAAAAGGGAAAAGATGTCTTGCAAGCAACTGTGCCACT
CTCCCACTCTCCTAGCCGTCACATAAACTCCATACATGTGTATGTTTTCCATCCTGCAAATCAC
TGGGTGTTTATTTAGATTTCAATTTAATCTGTATAAAAGCGAGGACAGGTGAGAAGCAAAACTT
TTCCTTTGAGGTCGCAGTGCGCAGATTGATTAGTTGTATTTTTTTTTACCAGAGAGAACCAATG
CTTAATAATAGAGGTTATACCTTTAAAACTTCATATGGCTAGCTTACCTTAAAAATAATTACTA
ACTTCTCCGAAAAAAAATCAGAGATAATGTGCAGAAGTTGTGCAGCCATGTAGGATTAAAACGT
CAAATGCACATTTTACAAACTATCGAATGACAGTTTTAATCTTACTTTGGATAAAGGGAGGTAG
AGCTAGAAGCATGAAACGTTGTGAACAACATTTAGAAAGCAGGACAAGCGAGATGTGAATAGCA
AATATATTAGATGGAAAGAGGAAGTTTCACAATAATAGCTCTAAAGCAAGAAAAGATGAGTTCA
GGGACAACAAAGCAAAAACCTAGCCGACTTTGATAAGAACTAAAGATGAGGTGGAGGGAAGCAA
CATCGTTATGGGCAGCAAGGGACAAAATATCAGGAAAGAGAAAGAGAGTACTATGCGAGAAGTG
TGTGCACAAGAACCTATGCAACGGCTACAAAAGGCACTGCAGTGACCGTTATATGGCTGCAATA
ACATAGGAAACCGACAACACGCATGTACCAAGTGATAAGTGTCAGAAATAAGCTATTAATATAG
CGACAAACAAAGCACCATAAATGCACAATATTGAAAAGAAGCAGAAAATAGTGCAAAATAGTAA
TCAATAAACAGAAAAGGAAATACTGAAATAGGGTATGAGAGAGATGGAAATACCTTATACGAAA
CAGCACCCAATGTGTTGACAACGCAGCAGAAGCAATGTAACCAAGAAGATGCCACGCAAGAAAG
ATACCCACAGAAGACAAAGGCCTTGACCGAGAAATAGAAGAAAGGGTAGAAAGGGACGGTCACC
AATAAAGGTGACCAGAGCTGCGCAACAGAAAAAGATTGTTAGCAAACATAAACCTGAAACAGAA
GGCACCACAAATACAGGGGATATTTCCATATCGTTTAAAGCATATATATACAGTAGAAAGAACC
TAACCTGCTTGATTGAACCAGCAGCCCGAACATTCCTTGGCAAAATCAATCAAGAACCCTTGAA
GCACCGCTTCAGCCCGTGCAAATCCGGCCCT
						
					

			
		

Sequences
Splice junction sequence	GAACCTAACCTGCTTGATTGAACCAGCAGCCCGAACATTCCTTGGCAAAATCAATCAAGAACCC TTGAAGCACCGCTTCAGCCCGTGCAAATCCGGCCCTctgttgttgaggacctgaactgaagatg aggagaataaaaccaagtctgcttgcaccaattcttccacctataaaaaaaagtaaatcaatca tcaaagat
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	CTGTTGTTGAGGACCTGAACTGAAGATGAGGAGAATAAAACCAAGTCTGCTTGCACCAATTCTT CCACCTATAAAAAAAAGTAAATCAATCATCAAAGATCACAACATTTAGTATGTGTCAAATTGAC CAGCACACTATCGCACAGCCTAGTTAAGGAATTCAACCAACCATCAAGTCTGAAACACCTAGAG TTTGTCTAGGATAAAATGCACAAGCCACAATATGCATGCATGCTTGGCTACTTTTGCTATGAGA CGTTTGAGAAACACAAAAAACCAAAATTTTGGGACAGACAAAACCTCTTTTAATCACATTGTCT CATGTTAAAATACTACTGCTGTCATTGAACAGAGAACAACTGTAATATATTAGTAGTTTGGCTC AAATAAATTTGTAAAAAAAAAATCTACTTTACACAATGGAAAGCAAAGTCTTTGAAAACTAAGG TTCCAACAATTTGCTAGGCCTTTACTTTTGAGGCAAAACTGAAACAGAGAAAACACTCTAAGCG GGGACATACATTAAGCCTGATGCATGAGAAAATGTTTCTTTACAGGGCATTGAACCTCCCTCTG GTCTGATGATTAAATTGCTATACAGCTGATTCTACTCTTTATACACTATAAGATGAAACTAAAC AAAACCCTATGTATATACAGCAAATGAATGTCTCCAGAATTCATAATGGATTCAAAAGATAATC GTATGTATATACAGACAAGCAGTAGTATCATGAATGAATAGCCATATATGATGAAATTGTGGGA GCATGTTGTAGTAATAGCCTCACATTATACAGCAACCATAAATAAAATATCAAAAGCCAAACTC CAATATCAATACGCAATGTTTTAGAAGCACTGAATACTAATTGCACAATACAAAAATTAATCAT GCACGAGGCATGTTTAATGTGAAGTAATCAGTATGGCACTAAAGCAAAAAACTGCAGTGACGGA TACTCCTAAATATAGATATAAGAGGTGCCTTAAAATTATTTTGTGCAATAGTAAGCATGGATCT GACCTAACATCTTGCACAATTTCATAAAAAAATTGAACTAAGCTTGCAGAAAAGGCAAAAAAAA AAACATAATAGTCTAAAGGCACACTACCCATGATGCAGAACTATCAAGTCGCTTTAATAGTTTG ACAACTGCAGCGCTGAAAGCTCAATGAGAAATGTCACTCCGAAGCAGCAGCAGAAAAAGAATGC TAAAGAGTTTATATATAAAAGCAAAGGCCTAATCAAAGTGCAAAGCTAGTCCATTTTTATCTGC TCGCTGACCAAATATCCTGCACTATATAATATATATATTTTTTTGTTTCAAAAGGGAAAAGATG TCTTGCAAGCAACTGTGCCACTCTCCTACTCTCCTAGCCATCATATGAACTCCATACATGTGTA TGTTTTCCATCCTGCAAATCACTGGGTGTTTATTTAGATTTCAGTTTAATCTGTATAAAAGCGA GGACAGGTGAGAAGCAAAACTTTTGCTTTGAGGTCGCTGTGCACAGATTGATTAGTTGTATTTT TTTTACCAGAGAGAACCAATACTTAATAATAGAGGTTATACCTTTAAAACTTCATATGGCTAGC TTACCTTAAAAATAATTACTAACTTTTCTGAAAAAAAAAATCAGAGATAATGTGCAGAGCTGAA TGAGAAATGTCACTCCGAAGCAGCAGTACAAAAAGAATGCTAAAAAGAGTTTATATATAAAAGC AAAGGCCTAATCAAAGTGCAGAGCTAGTCCATTTTTATTTGCTCGCTGACCAAATATCTTGCAC TATATAAAATATTTTTTTTTTTGTTTCAAAAGGGAAAAGATGTCTTGCAAGCAACTGTGCCACT CTCCCACTCTCCTAGCCGTCACATAAACTCCATACATGTGTATGTTTTCCATCCTGCAAATCAC TGGGTGTTTATTTAGATTTCAATTTAATCTGTATAAAAGCGAGGACAGGTGAGAAGCAAAACTT TTCCTTTGAGGTCGCAGTGCGCAGATTGATTAGTTGTATTTTTTTTTACCAGAGAGAACCAATG CTTAATAATAGAGGTTATACCTTTAAAACTTCATATGGCTAGCTTACCTTAAAAATAATTACTA ACTTCTCCGAAAAAAAATCAGAGATAATGTGCAGAAGTTGTGCAGCCATGTAGGATTAAAACGT CAAATGCACATTTTACAAACTATCGAATGACAGTTTTAATCTTACTTTGGATAAAGGGAGGTAG AGCTAGAAGCATGAAACGTTGTGAACAACATTTAGAAAGCAGGACAAGCGAGATGTGAATAGCA AATATATTAGATGGAAAGAGGAAGTTTCACAATAATAGCTCTAAAGCAAGAAAAGATGAGTTCA GGGACAACAAAGCAAAAACCTAGCCGACTTTGATAAGAACTAAAGATGAGGTGGAGGGAAGCAA CATCGTTATGGGCAGCAAGGGACAAAATATCAGGAAAGAGAAAGAGAGTACTATGCGAGAAGTG TGTGCACAAGAACCTATGCAACGGCTACAAAAGGCACTGCAGTGACCGTTATATGGCTGCAATA ACATAGGAAACCGACAACACGCATGTACCAAGTGATAAGTGTCAGAAATAAGCTATTAATATAG CGACAAACAAAGCACCATAAATGCACAATATTGAAAAGAAGCAGAAAATAGTGCAAAATAGTAA TCAATAAACAGAAAAGGAAATACTGAAATAGGGTATGAGAGAGATGGAAATACCTTATACGAAA CAGCACCCAATGTGTTGACAACGCAGCAGAAGCAATGTAACCAAGAAGATGCCACGCAAGAAAG ATACCCACAGAAGACAAAGGCCTTGACCGAGAAATAGAAGAAAGGGTAGAAAGGGACGGTCACC AATAAAGGTGACCAGAGCTGCGCAACAGAAAAAGATTGTTAGCAAACATAAACCTGAAACAGAA GGCACCACAAATACAGGGGATATTTCCATATCGTTTAAAGCATATATATACAGTAGAAAGAACC TAACCTGCTTGATTGAACCAGCAGCCCGAACATTCCTTGGCAAAATCAATCAAGAACCCTTGAA GCACCGCTTCAGCCCGTGCAAATCCGGCCCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.196155908

Conservation Information
Conserved circRNAs	NA
PMCS	0.196155908

			
						 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
						Chu et al., 2017

circRNA

Detail information of Os01g0390300_circ_g.1

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