Plant Circular RNA Database

Detail information of Os01g0235200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0235200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000978
					
						Alias
						Os_ciR5144
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 7461869-7463288  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0235200						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os01t0235200-01);Conserved hypo
thetical protein. (Os01t0235200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/1
					
						Tissues
						root/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
						Os01t0235200-02:4
Os01t0235200-01:3

General Information
CircRNA Name	Os01g0235200_circ_g.1
ID in PlantcircBase	osa_circ_000978
Alias	Os_ciR5144
Organism	Oryza sativa
Position	chr1: 7461869-7463288 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0235200
Parent gene annotation	Conserved hypothetical protein. (Os01t0235200-01);Conserved hypo thetical protein. (Os01t0235200-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	3/1
Tissues	root/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	Os01t0235200-02:4 Os01t0235200-01:3

			
						 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  
						
							TGTTTGAGTATACTTTGAATAGTGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAA
TTGCCGCCATCGATGAATAATAATTGCCTATTTTAActgtaacattcctggttgagtgatataa
gccatgaactgttcctttttcttgctgaacaaatccttaacttggttcaacaaatcttcttgtc
tttttata

									
								

					

						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: 1231
Transcript exons: 7461869-7462672,7462750-7462941,7463054-7463288
CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC
TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT
TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT
TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTTCAAAAGTAAGGTCATGTATAATCATTA
ACAAAAAGAAGAGGTGGAATTAAGCTTAATATGCTTGTTACAGAACAGTGCAAATTAGTGTTAC
CAGACTTTATGTAGTAAGCAAACCAGGGTAATGTATCACGCATATACTCATAAAATGAAAGGAC
AATTAAATATCACCGAAGGACCCACAATATGCAGAACACTAATGATCAAATAAAAGTATATGAT
GTGATGTTAAAGGATAAATCCATATAATTGCATACCTATTACCTAGGCAGAATGAGCCATTAGG
TCTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAAT
TCAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGAC
CGTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAA
ACCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTC
TGAGGATCATCGATCATAAAATCACCAGAAAATGGCCTTATATTTTCAAGACAAAAGACAGTGA
ATCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCACTGGTTTTATCAAC
CATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTTGCAGACGACACCA
AGCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTGCTGAGGTTGTCATTATTTATTTTTC
CCAAGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATG
ACGAATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATA
GTGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAAT
AATTGCCTATTTTAA
Transcript length: 974
Transcript exons: 7461869-7462094,7462352-7462672,7462750-7462941,7463054-
7463288
CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC
TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT
TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT
TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTATTACCTAGGCAGAATGAGCCATTAGGT
CTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAATT
CAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGACC
GTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAAA
CCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTCT
GAGGATCATCGATCATAAAATCACCAGAAAATGGCCTTATATTTTCAAGACAAAAGACAGTGAA
TCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCACTGGTTTTATCAACC
ATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTTGCAGACGACACCAA
GCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTGCTGAGGTTGTCATTATTTATTTTTCC
CAAGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATGA
CGAATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATAG
TGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAATA
ATTGCCTATTTTAA
						
					

						Genomic sequence
						
							CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC
TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT
TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT
TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTTCAAAAGTAAGGTCATGTATAATCATTA
ACAAAAAGAAGAGGTGGAATTAAGCTTAATATGCTTGTTACAGAACAGTGCAAATTAGTGTTAC
CAGACTTTATGTAGTAAGCAAACCAGGGTAATGTATCACGCATATACTCATAAAATGAAAGGAC
AATTAAATATCACCGAAGGACCCACAATATGCAGAACACTAATGATCAAATAAAAGTATATGAT
GTGATGTTAAAGGATAAATCCATATAATTGCATACCTATTACCTAGGCAGAATGAGCCATTAGG
TCTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAAT
TCAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGAC
CGTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAA
ACCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTC
TGAGGATCATCGATCATAAAATCACCAGAAAATGGCCTGCAAAGTGTAATAGTTATAATGTTAA
GGTGTCCATCCAGTAGAGTCCAAAATATAACGGCACAATGAAAACACACCTTATATTTTCAAGA
CAAAAGACAGTGAATCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCAC
TGGTTTTATCAACCATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTT
GCAGACGACACCAAGCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTATAACAAATTCAT
GGTACCTCAAAAGTAAACAAATAATTCTGCCCATTAACTTTGCACCAGTTGGTGCAATAAATCT
TATTATATGTCAAAACAAAGAGAGAATAATGACCTGCTGAGGTTGTCATTATTTATTTTTCCCA
AGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATGACG
AATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATAGTG
CGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAATAAT
TGCCTATTTTAA
						
					

			
		

Sequences
Splice junction sequence	TGTTTGAGTATACTTTGAATAGTGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAA TTGCCGCCATCGATGAATAATAATTGCCTATTTTAActgtaacattcctggttgagtgatataa gccatgaactgttcctttttcttgctgaacaaatccttaacttggttcaacaaatcttcttgtc tttttata
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: 1231 Transcript exons: 7461869-7462672,7462750-7462941,7463054-7463288 CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTTCAAAAGTAAGGTCATGTATAATCATTA ACAAAAAGAAGAGGTGGAATTAAGCTTAATATGCTTGTTACAGAACAGTGCAAATTAGTGTTAC CAGACTTTATGTAGTAAGCAAACCAGGGTAATGTATCACGCATATACTCATAAAATGAAAGGAC AATTAAATATCACCGAAGGACCCACAATATGCAGAACACTAATGATCAAATAAAAGTATATGAT GTGATGTTAAAGGATAAATCCATATAATTGCATACCTATTACCTAGGCAGAATGAGCCATTAGG TCTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAAT TCAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGAC CGTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAA ACCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTC TGAGGATCATCGATCATAAAATCACCAGAAAATGGCCTTATATTTTCAAGACAAAAGACAGTGA ATCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCACTGGTTTTATCAAC CATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTTGCAGACGACACCA AGCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTGCTGAGGTTGTCATTATTTATTTTTC CCAAGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATG ACGAATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATA GTGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAAT AATTGCCTATTTTAA Transcript length: 974 Transcript exons: 7461869-7462094,7462352-7462672,7462750-7462941,7463054- 7463288 CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTATTACCTAGGCAGAATGAGCCATTAGGT CTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAATT CAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGACC GTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAAA CCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTCT GAGGATCATCGATCATAAAATCACCAGAAAATGGCCTTATATTTTCAAGACAAAAGACAGTGAA TCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCACTGGTTTTATCAACC ATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTTGCAGACGACACCAA GCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTGCTGAGGTTGTCATTATTTATTTTTCC CAAGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATGA CGAATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATAG TGCGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAATA ATTGCCTATTTTAA
Genomic sequence	CTGTAACATTCCTGGTTGAGTGATATAAGCCATGAACTGTTCCTTTTTCTTGCTGAACAAATCC TTAACTTGGTTCAACAAATCTTCTTGTCTTTTTATATCCTCGAGAAGCCTTTCCTTTTCCCAAT TCTTATGTTTAACTTGCTCCTCCAGTTCAGTGATAGTTACGGGTAAGTTTGAGACCCCAAGATT TGCAGTTACAGGAAATTGTATTCCTAAGCTTGCCCTTCAAAAGTAAGGTCATGTATAATCATTA ACAAAAAGAAGAGGTGGAATTAAGCTTAATATGCTTGTTACAGAACAGTGCAAATTAGTGTTAC CAGACTTTATGTAGTAAGCAAACCAGGGTAATGTATCACGCATATACTCATAAAATGAAAGGAC AATTAAATATCACCGAAGGACCCACAATATGCAGAACACTAATGATCAAATAAAAGTATATGAT GTGATGTTAAAGGATAAATCCATATAATTGCATACCTATTACCTAGGCAGAATGAGCCATTAGG TCTTAGTATAGACCCATCAAGAGAAACAGCACCATCATTTATCAAAGGAATAGCATTTCGCAAT TCAGCTCTAGTCTTATAGACTTGCAACTGAGAAAACAGGCTGTAAAATAAAGTTTCCCTAAGAC CGTGGCCCCCAGCTGTGAGACAACTCAAATTTGCCTGGTCCAAATGTATCATATTTACTGCAAA ACCAAGAAAACCAGGTGGGAACTCTCCACTAGGCAACCTTGGTTTATGCAAAAGAAGTTTCCTC TGAGGATCATCGATCATAAAATCACCAGAAAATGGCCTGCAAAGTGTAATAGTTATAATGTTAA GGTGTCCATCCAGTAGAGTCCAAAATATAACGGCACAATGAAAACACACCTTATATTTTCAAGA CAAAAGACAGTGAATCTTCCATCTAAAAATTTTCCAATTGTGCGACCTAGTCCATGAATGCCAC TGGTTTTATCAACCATACCTTCCTTGTCATATGTTTCAAGACCCTCGACACCATCATAAGTCTT GCAGACGACACCAAGCATATTGTCCAATCCCAAGTACTCTGAGAGTACCCTATAACAAATTCAT GGTACCTCAAAAGTAAACAAATAATTCTGCCCATTAACTTTGCACCAGTTGGTGCAATAAATCT TATTATATGTCAAAACAAAGAGAGAATAATGACCTGCTGAGGTTGTCATTATTTATTTTTCCCA AGGTAGCTACGACACCAAGGACATCTTTCATCAGTGGCAGCTTTGATGCATGCTGATAATGACG AATCTTCAGTTGGCATATAATCCCAGCTGCTGTCTCGTCCTGTTTGAGTATACTTTGAATAGTG CGTTGTTCAGCTTCTTCAACAGATGTGTCATTATTTGCAATTGCCGCCATCGATGAATAATAAT TGCCTATTTTAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.370179284

Conservation Information
Conserved circRNAs	NA
PMCS	0.370179284

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7463264-7463282(-)
						
						Potential amino acid sequence
						
							MAAIANNDTSVEEAEQRTIQSILKQDETAAGIICQLKIRHYQHASKLPLMKDVLGVVATLGKIN
NDNLSRVLSEYLGLDNMLGVVCKTYDGVEGLETYDKEGMVDKTSGIHGLGRTIGKFLDGRFTVF
CLENIRPFSGDFMIDDPQRKLLLHKPRLPSGEFPPGFLGFAVNMIHLDQANLSCLTAGGHGLRE
TLFYSLFSQLQVYKTRAELRNAIPLINDGAVSLDGSILRPNGSFCLGNRASLGIQFPVTANLGV
SNLPVTITELEEQVKHKNWEKERLLEDIKRQEDLLNQVKDLFSKKKEQFMAYITQPGMLQLK*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7463264-7463282(-)
Potential amino acid sequence	MAAIANNDTSVEEAEQRTIQSILKQDETAAGIICQLKIRHYQHASKLPLMKDVLGVVATLGKIN NDNLSRVLSEYLGLDNMLGVVCKTYDGVEGLETYDKEGMVDKTSGIHGLGRTIGKFLDGRFTVF CLENIRPFSGDFMIDDPQRKLLLHKPRLPSGEFPPGFLGFAVNMIHLDQANLSCLTAGGHGLRE TLFYSLFSQLQVYKTRAELRNAIPLINDGAVSLDGSILRPNGSFCLGNRASLGIQFPVTANLGV SNLPVTITELEEQVKHKNWEKERLLEDIKRQEDLLNQVKDLFSKKKEQFMAYITQPGMLQLK*( -)
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 Os01g0235200_circ_g.1

Address

Any questions?

Supported by