Plant Circular RNA Database

Detail information of Os03g0336300_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os03g0336300_circ_g.6
					
						ID in PlantcircBase
						osa_circ_019684
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 12465847-12467182  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os03g0336300						
					
						Parent gene annotation
						
							Peptidase M16, core domain containing protein. (Os03t0336300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0336300_circ_g.5 Os03g0336300_circ_g.7 						
					
						Support reads
						4
					
						Tissues
						root, seed
					
						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
						Os03t0336300-01:4

General Information
CircRNA Name	Os03g0336300_circ_g.6
ID in PlantcircBase	osa_circ_019684
Alias	NA
Organism	Oryza sativa
Position	chr3: 12465847-12467182 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os03g0336300
Parent gene annotation	Peptidase M16, core domain containing protein. (Os03t0336300-01)
Parent gene strand	+
Alternative splicing	Os03g0336300_circ_g.5 Os03g0336300_circ_g.7
Support reads	4
Tissues	root, seed
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	Os03t0336300-01:4

			
						 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  
						
							TGTGCTCGCATATTGTTTTCGAGTCATGTCCTCCAAGTATAGCCCTGTTTACCTACAAAGTCGG
ATTGATAGCTTCATTGATGGTGTATCTGCTTTGCTGgtcatcaaggaggatttggaaagagctt
acaaaaacacgaatatgaagcctatgagccattcaacctacctgaggttacaagtcctacgtga
aatattct

									
								

					

						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: 648
Transcript exons: 12465847-12466029,12466216-12466419,12466645-12466751,12
467029-12467182
GTCATCAAGGAGGATTTGGAAAGAGCTTACAAAAACACGAATATGAAGCCTATGAGCCATTCAA
CCTACCTGAGGTTACAAGTCCTACGTGAAATATTCTGGGATGTCGATGAAAAGTTGGAAGTTCT
TATGAAGTTAACCTTTTCTGATCTGGTGGCATATGTGCCAAAGCTTCTTTCGCAGTTGCACATC
GAGGGCCTCTGTCATGGTAACCTATCAGAAGATGAAGCAATGAATATATCAAAAATATTCCAAA
ACACATTGTCAGCTCAGACACTGCCTGATGAGGCAAGGCATGAAGAAAGAGTTCTTTGCATTCC
TGATGATACAAATTTTGTTAGAAGTGTCCGTGTGAAGAATGAACTTGAAGAGAATTCTGTGGTT
GAGGTTTATTTTCCAGTTGAACAAGACATTGGGAAGGATGCAACAAAACTCAGAGCTATTACAG
ATCTTTTTAGCAACATTATTGAAGAACCTTGCTTTGATCAGCTCAGGACAAAGGAGCAGCTTGG
CTATACTGTGGACTCTAGTCCGCGGATGACTTACCGTGTGCTCGCATATTGTTTTCGAGTCATG
TCCTCCAAGTATAGCCCTGTTTACCTACAAAGTCGGATTGATAGCTTCATTGATGGTGTATCTG
CTTTGCTG
						
					

						Genomic sequence
						
							GTCATCAAGGAGGATTTGGAAAGAGCTTACAAAAACACGAATATGAAGCCTATGAGCCATTCAA
CCTACCTGAGGTTACAAGTCCTACGTGAAATATTCTGGGATGTCGATGAAAAGTTGGAAGTTCT
TATGAAGTTAACCTTTTCTGATCTGGTGGCATATGTGCCAAAGCTTCTTTCGCAGGTATCCATT
ACCATGATGATCTTTTATGCGATTTTTTTCTCCACTTAACCACCTTTTCCTACATAATAGCAAA
TGATTTTCAAATATGGAAATGTTTAATGTTTCTGAGGAACAAAAAAATGGATGTTCAACGTACC
ACATGATTTTCTATATACTTCATATGATTATCTGTTTGCACACATGCAGTTGCACATCGAGGGC
CTCTGTCATGGTAACCTATCAGAAGATGAAGCAATGAATATATCAAAAATATTCCAAAACACAT
TGTCAGCTCAGACACTGCCTGATGAGGCAAGGCATGAAGAAAGAGTTCTTTGCATTCCTGATGA
TACAAATTTTGTTAGAAGTGTCCGTGTGAAGAATGAACTTGAAGAGAATTCTGTGGTTGAGGTG
GGGTTATATATTCTGGCACTCTATTGATGACTGTCTACTAAAGCATCATAAACATTATCTTCCA
TAGATGCATTTGAATTCTTCAATTATTGCATGCCAGCATTATGGTTTGGAGCCTCGGTTTGCCT
GTGAACAAGGGCCTCATGGGCCGCCTTTTATGTTTCCTTTGATAATTTGATTTGACATAATTAC
ACTACTTTCTGATATACAATTGCTTGTCAGGTTTATTTTCCAGTTGAACAAGACATTGGGAAGG
ATGCAACAAAACTCAGAGCTATTACAGATCTTTTTAGCAACATTATTGAAGAACCTTGCTTTGA
TCAGCTCAGGTATAAATATTGTGCTTGCTTGTTGCCTCGACAAGTATGTAGATAAATGTCATCT
TACTCCACACAAATATTTTGAATGCAATTTTTTGGGGACAGATTTACTCTTTTTTATTGTGTGT
AGTCTAAATATTTGCAAAGTTATTGGTCAAGTTAAAATAAATTTAACTAAACAAATTTCTAGGA
TCCTTTTGACCAGAGTGGTTTACAATTTAGTCAGTGTTAATTATATTTTTATAAGATGCCTTGC
TAATTGCTTCTCTTGGTGTTCCAATAATAGGACAAAGGAGCAGCTTGGCTATACTGTGGACTCT
AGTCCGCGGATGACTTACCGTGTGCTCGCATATTGTTTTCGAGTCATGTCCTCCAAGTATAGCC
CTGTTTACCTACAAAGTCGGATTGATAGCTTCATTGATGGTGTATCTGCTTTGCTG
						
					

			
		

Sequences
Splice junction sequence	TGTGCTCGCATATTGTTTTCGAGTCATGTCCTCCAAGTATAGCCCTGTTTACCTACAAAGTCGG ATTGATAGCTTCATTGATGGTGTATCTGCTTTGCTGgtcatcaaggaggatttggaaagagctt acaaaaacacgaatatgaagcctatgagccattcaacctacctgaggttacaagtcctacgtga aatattct
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: 648 Transcript exons: 12465847-12466029,12466216-12466419,12466645-12466751,12 467029-12467182 GTCATCAAGGAGGATTTGGAAAGAGCTTACAAAAACACGAATATGAAGCCTATGAGCCATTCAA CCTACCTGAGGTTACAAGTCCTACGTGAAATATTCTGGGATGTCGATGAAAAGTTGGAAGTTCT TATGAAGTTAACCTTTTCTGATCTGGTGGCATATGTGCCAAAGCTTCTTTCGCAGTTGCACATC GAGGGCCTCTGTCATGGTAACCTATCAGAAGATGAAGCAATGAATATATCAAAAATATTCCAAA ACACATTGTCAGCTCAGACACTGCCTGATGAGGCAAGGCATGAAGAAAGAGTTCTTTGCATTCC TGATGATACAAATTTTGTTAGAAGTGTCCGTGTGAAGAATGAACTTGAAGAGAATTCTGTGGTT GAGGTTTATTTTCCAGTTGAACAAGACATTGGGAAGGATGCAACAAAACTCAGAGCTATTACAG ATCTTTTTAGCAACATTATTGAAGAACCTTGCTTTGATCAGCTCAGGACAAAGGAGCAGCTTGG CTATACTGTGGACTCTAGTCCGCGGATGACTTACCGTGTGCTCGCATATTGTTTTCGAGTCATG TCCTCCAAGTATAGCCCTGTTTACCTACAAAGTCGGATTGATAGCTTCATTGATGGTGTATCTG CTTTGCTG
Genomic sequence	GTCATCAAGGAGGATTTGGAAAGAGCTTACAAAAACACGAATATGAAGCCTATGAGCCATTCAA CCTACCTGAGGTTACAAGTCCTACGTGAAATATTCTGGGATGTCGATGAAAAGTTGGAAGTTCT TATGAAGTTAACCTTTTCTGATCTGGTGGCATATGTGCCAAAGCTTCTTTCGCAGGTATCCATT ACCATGATGATCTTTTATGCGATTTTTTTCTCCACTTAACCACCTTTTCCTACATAATAGCAAA TGATTTTCAAATATGGAAATGTTTAATGTTTCTGAGGAACAAAAAAATGGATGTTCAACGTACC ACATGATTTTCTATATACTTCATATGATTATCTGTTTGCACACATGCAGTTGCACATCGAGGGC CTCTGTCATGGTAACCTATCAGAAGATGAAGCAATGAATATATCAAAAATATTCCAAAACACAT TGTCAGCTCAGACACTGCCTGATGAGGCAAGGCATGAAGAAAGAGTTCTTTGCATTCCTGATGA TACAAATTTTGTTAGAAGTGTCCGTGTGAAGAATGAACTTGAAGAGAATTCTGTGGTTGAGGTG GGGTTATATATTCTGGCACTCTATTGATGACTGTCTACTAAAGCATCATAAACATTATCTTCCA TAGATGCATTTGAATTCTTCAATTATTGCATGCCAGCATTATGGTTTGGAGCCTCGGTTTGCCT GTGAACAAGGGCCTCATGGGCCGCCTTTTATGTTTCCTTTGATAATTTGATTTGACATAATTAC ACTACTTTCTGATATACAATTGCTTGTCAGGTTTATTTTCCAGTTGAACAAGACATTGGGAAGG ATGCAACAAAACTCAGAGCTATTACAGATCTTTTTAGCAACATTATTGAAGAACCTTGCTTTGA TCAGCTCAGGTATAAATATTGTGCTTGCTTGTTGCCTCGACAAGTATGTAGATAAATGTCATCT TACTCCACACAAATATTTTGAATGCAATTTTTTGGGGACAGATTTACTCTTTTTTATTGTGTGT AGTCTAAATATTTGCAAAGTTATTGGTCAAGTTAAAATAAATTTAACTAAACAAATTTCTAGGA TCCTTTTGACCAGAGTGGTTTACAATTTAGTCAGTGTTAATTATATTTTTATAAGATGCCTTGC TAATTGCTTCTCTTGGTGTTCCAATAATAGGACAAAGGAGCAGCTTGGCTATACTGTGGACTCT AGTCCGCGGATGACTTACCGTGTGCTCGCATATTGTTTTCGAGTCATGTCCTCCAAGTATAGCC CTGTTTACCTACAAAGTCGGATTGATAGCTTCATTGATGGTGTATCTGCTTTGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_012977 						
					
						PMCS
						0.3400801

Conservation Information
Conserved circRNAs	osi_circ_012977
PMCS	0.3400801

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12465890-12467179(+)
12467164-12465889(+)
12465908-12467137(-)
						
						Potential amino acid sequence
						
							MKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHGNLSEDEAM
NISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPVEQDIGKDA
TKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSPVYLQSRID
SFIDGVSALLVIKEDLERAYKNTNMKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAY
VPKLLSQLHIEGLCHGNLSEDEAMNISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRV
KNELEENSVVEVYFPVEQDIGKDATKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTY
RVLAYCFRVMSSKYSPVYLQSRIDSFIDGVSALLVIKEDLERAYKNTNMKPMSHSTYLRLQVLR
EIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHGNLSEDEAMNISKIFQNTLSAQTLP
DEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPVEQDIGKDATKLRAITDLFSNIIEE
PCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSPVYLQSRIDSFIDGVSALLVIKEDL
ERAYKNTNMKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHG
NLSEDEAMNISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPV
EQDIGKDATKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSP
VYLQSRIDSFIDGVSALL(+)
MVYLLCWSSRRIWKELTKTRI*(+)
MAHRLHIRVFVSSFQILLDDQQSRYTINEAINPTL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12465890-12467179(+) 12467164-12465889(+) 12465908-12467137(-)
Potential amino acid sequence	MKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHGNLSEDEAM NISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPVEQDIGKDA TKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSPVYLQSRID SFIDGVSALLVIKEDLERAYKNTNMKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAY VPKLLSQLHIEGLCHGNLSEDEAMNISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRV KNELEENSVVEVYFPVEQDIGKDATKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTY RVLAYCFRVMSSKYSPVYLQSRIDSFIDGVSALLVIKEDLERAYKNTNMKPMSHSTYLRLQVLR EIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHGNLSEDEAMNISKIFQNTLSAQTLP DEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPVEQDIGKDATKLRAITDLFSNIIEE PCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSPVYLQSRIDSFIDGVSALLVIKEDL ERAYKNTNMKPMSHSTYLRLQVLREIFWDVDEKLEVLMKLTFSDLVAYVPKLLSQLHIEGLCHG NLSEDEAMNISKIFQNTLSAQTLPDEARHEERVLCIPDDTNFVRSVRVKNELEENSVVEVYFPV EQDIGKDATKLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRVLAYCFRVMSSKYSP VYLQSRIDSFIDGVSALL(+) MVYLLCWSSRRIWKELTKTRI(+) MAHRLHIRVFVSSFQILLDDQQSRYTINEAINPTL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0336300_circ_g.6

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