Plant Circular RNA Database

Detail information of Os11g0546000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os11g0546000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_009561
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 20129732-20132162  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0546000						
					
						Parent gene annotation
						
							Similar to RNase L inhibitor-like protein. (Os11t0546000-01);Sim
ilar to RNase L inhibitor-like protein. (Os11t0546000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0546000_circ_g.2 Os11g0546000_circ_g.3 Os11g0546000_circ_g.4 Os11g0546000_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os11t0546000-01:8
Os11t0546000-02:8

General Information
CircRNA Name	Os11g0546000_circ_g.1
ID in PlantcircBase	osa_circ_009561
Alias	NA
Organism	Oryza sativa
Position	chr11: 20129732-20132162 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0546000
Parent gene annotation	Similar to RNase L inhibitor-like protein. (Os11t0546000-01);Sim ilar to RNase L inhibitor-like protein. (Os11t0546000-02)
Parent gene strand	+
Alternative splicing	Os11g0546000_circ_g.2 Os11g0546000_circ_g.3 Os11g0546000_circ_g.4 Os11g0546000_circ_g.5
Support reads	1
Tissues	shoot
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	Os11t0546000-01:8 Os11t0546000-02:8

			
						 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  
						
							CATGAAGCCACTGCAAATAGAGCAACTCATGGACCAGGAAGTTATCAATTTATCAGGTGGTGAG
CTACAAAGGGTGGCAATATGCCTTTGCCTTGGAAAGggaagctttgcatcgaagtaactccggc
gtcgaagcttgcgttcatttctgaagagctgtgtattggttgtggtatttgcgttaaggtatgt
ttgctgct

									
								

					

						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
						
							GGAAGCTTTGCATCGAAGTAACTCCGGCGTCGAAGCTTGCGTTCATTTCTGAAGAGCTGTGTAT
TGGTTGTGGTATTTGCGTTAAGGTATGTTTGCTGCTATTATACATACGCATGGAACTAGGATAT
GTCTTTGTTCTGTAATGTATGTTTCTCACTTCCGCTATGATCTTTGTTGCAGAAATGCCCGTTT
GATGCCATTGAGATTATCAACCTTCCTAAGGATTTGGAAAAAGATACTACTCATCGCTATGGTC
CAAACACCTTCAAATTGCACAGGTATTGATGTTTGATTTGAGGAGCTGTGTTGATATGAACTTT
TGCATTTTTTTAATCCAAGTATTACTGTAATTTAGGTGAAACCATATCTTTGGATAGTTACTGA
TTTAGCACTTGCAGGTTGCCCGTTCCAAGACCTGGTCAAGTTTTAGGCCTTGTTGGGACAAATG
GAATTGGAAAGTCGACAGCACTCAAAGTGTTAGCTGGCAAGCTCAAGCCTAATTTGGGACGATT
TAAAGTATATATTTTTACCTCGTGCCCAATTTCTCTGTTGCTGACTGTTAAATTATGTGTTCTC
ATAGAAAGTTGACTTCCTTCCTTTCCTTTTATACTGATACAAGTAATGGGAATCCACCTATATT
TGTTGCAGAATCCACCAGACTGGCAGGAAATTCTGACATACTTCCGTGGGTCTGAACTCCAAAA
CTATTTTACACGCATATTGGAGGATAACCTTAAGGTATTGCATTGCCACTTCTTTTTATCCATT
GTGTTTGTCCTTCTTTTAGGCTTTTTTAGCATGTACTCTGCGACAGTAATAAATATCTTAATTT
GTCGTTTACCATCACTATGTGTGGGCTCTGAGTACAATAGCATCAGTGAGGTATTTGTTTCAGT
CTTATTTTTGGTTCTATAGCATCATACATTTTTCTGGTAAACTTTTGTATGCATGCAAACAGTA
ACAACACATAGCGTCAGCAAGATACTATTGATCTTCCACTTATGCAACCTGCATTAAATTATGC
ACTCAAATATTGTCCGAATCTCAGGTATTAAATATTGCTTTGATTTATTACATGTCAAAAAACC
CTTAGTAGCCAAAAAACAGATATTCTGGCATTGGAATAGACTGTCGCTATGTTTGATATTATCA
GTATTGATTGCTTCATACTTCTATTAACTTACATGCATGCTGACATGCTCTATTTCTCTTTCCT
AGGCAATCATCAAGCCTCAGTATGTGGATCACATTCCAAAAGCTGTCCAGGGAAATGTTGGGCA
AGTACTTGACCAGAAAGACGAGAGAGGCGTGAAAGCTGAGCTTTGTGTCGACCTTGAATTGAAC
CAAGTTATTGATCGAAATGTAGGAGATCTTTCTGGTGGTGAGCTCCAGAGATTTGCGATAGCAG
TTGTTGCTGTGCAGAATGCGGAAATTTTCATGTTTGATGAGCCATCAAGTTACCTTGATGTTAA
GCAGAGGCTTAAGGCTGCACAAGTCGTTCGGTCTTTGCTTAGACCCAACAGGTAACATATTCGT
TATGTTATTACTATGATTATGTAAATTTAAACTTTGACGAATGCAATATCAAGTTCTATCCTAT
GTATTTTCAGCTATGTGATTGTTGTGGAGCATGATTTGAGTGTCCTGGATTACTTGTCCGACTT
TATTTGCTGCTTGTATGGGAAGCCAGGTGCTTATGGTGTAGTTACTTTGCCGTTTTCGGTCCGA
GAAGGTATCAATATTTTCTTGGCCGGATTTGTTCCAACAGAAAATCTACGGTTTCGAGATGAAT
CTCTTACTTTTAAGGTAACCTGTGCCTTTTCAGATTTAGATTTTTGGCTATGTGATGAAACATT
GTTTTTATGTATGTTCTGTCCTTTCAGATTGCGGAGACTCAGGAAAGTGCTGAGGAGATTGAGA
CATACCAGCGATATAAGTACCCTACTATGAGTAAAACACAGGGCAATTTCAAGCTCACTGTTGT
TGAGGGTGAGTTCACTGATTCACAGATTGTTGTGATGCTTGGTGAGAATGGGACAGGGAAAACT
ACATTCATCAGAATGCTGGTACGCCACCCTTCCTCCGTAACTACCCTAATCTTCAGTTCAAAAT
CAATCAACTAAATCTGCAGTTATCTTTCTGATTTGTTATGAATGGATAGGCTGGGTTGTTGAAG
CCAGACACTGTGGAAGGAACTGAGATTGAAATTCCTGAATTTAATGTGTCCTACAAGCCTCAGA
AGATTAGCCCGAAATTCCAGCATTCTGTGAGGCACTTGCTTCATCAGAAAATACGGGATTCATA
TACTCATCCTCAGTTTGTGTCTGATGTCATGAAGCCACTGCAAATAGAGCAACTCATGGACCAG
GAAGTTATCAATTTATCAGGTGGTGAGCTACAAAGGGTGGCAATATGCCTTTGCCTTGGAAAG
						
					

			
		

Sequences
Splice junction sequence	CATGAAGCCACTGCAAATAGAGCAACTCATGGACCAGGAAGTTATCAATTTATCAGGTGGTGAG CTACAAAGGGTGGCAATATGCCTTTGCCTTGGAAAGggaagctttgcatcgaagtaactccggc gtcgaagcttgcgttcatttctgaagagctgtgtattggttgtggtatttgcgttaaggtatgt ttgctgct
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	GGAAGCTTTGCATCGAAGTAACTCCGGCGTCGAAGCTTGCGTTCATTTCTGAAGAGCTGTGTAT TGGTTGTGGTATTTGCGTTAAGGTATGTTTGCTGCTATTATACATACGCATGGAACTAGGATAT GTCTTTGTTCTGTAATGTATGTTTCTCACTTCCGCTATGATCTTTGTTGCAGAAATGCCCGTTT GATGCCATTGAGATTATCAACCTTCCTAAGGATTTGGAAAAAGATACTACTCATCGCTATGGTC CAAACACCTTCAAATTGCACAGGTATTGATGTTTGATTTGAGGAGCTGTGTTGATATGAACTTT TGCATTTTTTTAATCCAAGTATTACTGTAATTTAGGTGAAACCATATCTTTGGATAGTTACTGA TTTAGCACTTGCAGGTTGCCCGTTCCAAGACCTGGTCAAGTTTTAGGCCTTGTTGGGACAAATG GAATTGGAAAGTCGACAGCACTCAAAGTGTTAGCTGGCAAGCTCAAGCCTAATTTGGGACGATT TAAAGTATATATTTTTACCTCGTGCCCAATTTCTCTGTTGCTGACTGTTAAATTATGTGTTCTC ATAGAAAGTTGACTTCCTTCCTTTCCTTTTATACTGATACAAGTAATGGGAATCCACCTATATT TGTTGCAGAATCCACCAGACTGGCAGGAAATTCTGACATACTTCCGTGGGTCTGAACTCCAAAA CTATTTTACACGCATATTGGAGGATAACCTTAAGGTATTGCATTGCCACTTCTTTTTATCCATT GTGTTTGTCCTTCTTTTAGGCTTTTTTAGCATGTACTCTGCGACAGTAATAAATATCTTAATTT GTCGTTTACCATCACTATGTGTGGGCTCTGAGTACAATAGCATCAGTGAGGTATTTGTTTCAGT CTTATTTTTGGTTCTATAGCATCATACATTTTTCTGGTAAACTTTTGTATGCATGCAAACAGTA ACAACACATAGCGTCAGCAAGATACTATTGATCTTCCACTTATGCAACCTGCATTAAATTATGC ACTCAAATATTGTCCGAATCTCAGGTATTAAATATTGCTTTGATTTATTACATGTCAAAAAACC CTTAGTAGCCAAAAAACAGATATTCTGGCATTGGAATAGACTGTCGCTATGTTTGATATTATCA GTATTGATTGCTTCATACTTCTATTAACTTACATGCATGCTGACATGCTCTATTTCTCTTTCCT AGGCAATCATCAAGCCTCAGTATGTGGATCACATTCCAAAAGCTGTCCAGGGAAATGTTGGGCA AGTACTTGACCAGAAAGACGAGAGAGGCGTGAAAGCTGAGCTTTGTGTCGACCTTGAATTGAAC CAAGTTATTGATCGAAATGTAGGAGATCTTTCTGGTGGTGAGCTCCAGAGATTTGCGATAGCAG TTGTTGCTGTGCAGAATGCGGAAATTTTCATGTTTGATGAGCCATCAAGTTACCTTGATGTTAA GCAGAGGCTTAAGGCTGCACAAGTCGTTCGGTCTTTGCTTAGACCCAACAGGTAACATATTCGT TATGTTATTACTATGATTATGTAAATTTAAACTTTGACGAATGCAATATCAAGTTCTATCCTAT GTATTTTCAGCTATGTGATTGTTGTGGAGCATGATTTGAGTGTCCTGGATTACTTGTCCGACTT TATTTGCTGCTTGTATGGGAAGCCAGGTGCTTATGGTGTAGTTACTTTGCCGTTTTCGGTCCGA GAAGGTATCAATATTTTCTTGGCCGGATTTGTTCCAACAGAAAATCTACGGTTTCGAGATGAAT CTCTTACTTTTAAGGTAACCTGTGCCTTTTCAGATTTAGATTTTTGGCTATGTGATGAAACATT GTTTTTATGTATGTTCTGTCCTTTCAGATTGCGGAGACTCAGGAAAGTGCTGAGGAGATTGAGA CATACCAGCGATATAAGTACCCTACTATGAGTAAAACACAGGGCAATTTCAAGCTCACTGTTGT TGAGGGTGAGTTCACTGATTCACAGATTGTTGTGATGCTTGGTGAGAATGGGACAGGGAAAACT ACATTCATCAGAATGCTGGTACGCCACCCTTCCTCCGTAACTACCCTAATCTTCAGTTCAAAAT CAATCAACTAAATCTGCAGTTATCTTTCTGATTTGTTATGAATGGATAGGCTGGGTTGTTGAAG CCAGACACTGTGGAAGGAACTGAGATTGAAATTCCTGAATTTAATGTGTCCTACAAGCCTCAGA AGATTAGCCCGAAATTCCAGCATTCTGTGAGGCACTTGCTTCATCAGAAAATACGGGATTCATA TACTCATCCTCAGTTTGTGTCTGATGTCATGAAGCCACTGCAAATAGAGCAACTCATGGACCAG GAAGTTATCAATTTATCAGGTGGTGAGCTACAAAGGGTGGCAATATGCCTTTGCCTTGGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227594567

Conservation Information
Conserved circRNAs	NA
PMCS	0.227594567

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20132145-20129749(+)
20131170-20129749(+)
20129979-20132047(-)
20129933-20132109(-)
						
						Potential amino acid sequence
						
							MPLPWKGKLCIEVTPASKLAFISEELCIGCGICVKKCPFDAIEIINLPKDLEKDTTHRYGPNTF
KLHRLPVPRPGQVLGLVGTNGIGKSTALKVLAGKLKPNLGRFKNPPDWQEILTYFRGSELQNYF
TRILEDNLKAIIKPQYVDHIPKAVQGNVGQVLDQKDERGVKAELCVDLELNQVIDRNVGDLSGG
ELQRFAIAVVAVQNAEIFMFDEPSSYLDVKQRLKAAQVVRSLLRPNSYVIVVEHDLSVLDYLSD
FICCLYGKPGAYGVVTLPFSVREGINIFLAGFVPTENLRFRDESLTFKIAETQESAEEIETYQR
YKYPTMSKTQGNFKLTVVEGEFTDSQIVVMLGENGTGKTTFIRMLAGLLKPDTVEGTEIEIPEF
NVSYKPQKISPKFQHSVRHLLHQKIRDSYTHPQFVSDVMKPLQIEQLMDQEVINLSGGELQRVA
ICLCLGKGSFASK*(+)
MFDEPSSYLDVKQRLKAAQVVRSLLRPNSYVIVVEHDLSVLDYLSDFICCLYGKPGAYGVVTLP
FSVREGINIFLAGFVPTENLRFRDESLTFKIAETQESAEEIETYQRYKYPTMSKTQGNFKLTVV
EGEFTDSQIVVMLGENGTGKTTFIRMLAGLLKPDTVEGTEIEIPEFNVSYKPQKISPKFQHSVR
HLLHQKIRDSYTHPQFVSDVMKPLQIEQLMDQEVINLSGGELQRVAICLCLGKGSFASK*(+)
MSSIFFQILRKVDNLNGIKRAFLNANTTTNTQLFRNERKLRRRSYFDAKLPFPRQRHIATLCSS
PPDKLITSWSMSCSICSGFMTSDTN*(-)
MASNGHFLTQIPQPIHSSSEMNASFDAGVTSMQSFPFQGKGILPPFVAHHLIN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20132145-20129749(+) 20131170-20129749(+) 20129979-20132047(-) 20129933-20132109(-)
Potential amino acid sequence	MPLPWKGKLCIEVTPASKLAFISEELCIGCGICVKKCPFDAIEIINLPKDLEKDTTHRYGPNTF KLHRLPVPRPGQVLGLVGTNGIGKSTALKVLAGKLKPNLGRFKNPPDWQEILTYFRGSELQNYF TRILEDNLKAIIKPQYVDHIPKAVQGNVGQVLDQKDERGVKAELCVDLELNQVIDRNVGDLSGG ELQRFAIAVVAVQNAEIFMFDEPSSYLDVKQRLKAAQVVRSLLRPNSYVIVVEHDLSVLDYLSD FICCLYGKPGAYGVVTLPFSVREGINIFLAGFVPTENLRFRDESLTFKIAETQESAEEIETYQR YKYPTMSKTQGNFKLTVVEGEFTDSQIVVMLGENGTGKTTFIRMLAGLLKPDTVEGTEIEIPEF NVSYKPQKISPKFQHSVRHLLHQKIRDSYTHPQFVSDVMKPLQIEQLMDQEVINLSGGELQRVA ICLCLGKGSFASK(+) MFDEPSSYLDVKQRLKAAQVVRSLLRPNSYVIVVEHDLSVLDYLSDFICCLYGKPGAYGVVTLP FSVREGINIFLAGFVPTENLRFRDESLTFKIAETQESAEEIETYQRYKYPTMSKTQGNFKLTVV EGEFTDSQIVVMLGENGTGKTTFIRMLAGLLKPDTVEGTEIEIPEFNVSYKPQKISPKFQHSVR HLLHQKIRDSYTHPQFVSDVMKPLQIEQLMDQEVINLSGGELQRVAICLCLGKGSFASK(+) MSSIFFQILRKVDNLNGIKRAFLNANTTTNTQLFRNERKLRRRSYFDAKLPFPRQRHIATLCSS PPDKLITSWSMSCSICSGFMTSDTN(-) MASNGHFLTQIPQPIHSSSEMNASFDAGVTSMQSFPFQGKGILPPFVAHHLIN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0546000_circ_g.1

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