Plant Circular RNA Database

Detail information of Os03g0805400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0805400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_022350
					
						Alias
						Os_ciR8937
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 33628322-33628858  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0805400						
					
						Parent gene annotation
						
							Phosphatidic acid phosphatase type 2/haloperoxidase domain conta
ining protein. (Os03t0805400-01);Phosphatidic acid phosphatase t
ype 2/haloperoxidase domain containing protein. (Os03t0805400-02
);Similar to phosphoric ester hydrolase. (Os03t0805400-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/2
					
						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
						Os03t0805400-03:2
Os03t0805400-01:3
Os03t0805400-02:3

General Information
CircRNA Name	Os03g0805400_circ_g.1
ID in PlantcircBase	osa_circ_022350
Alias	Os_ciR8937
Organism	Oryza sativa
Position	chr3: 33628322-33628858 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0805400
Parent gene annotation	Phosphatidic acid phosphatase type 2/haloperoxidase domain conta ining protein. (Os03t0805400-01);Phosphatidic acid phosphatase t ype 2/haloperoxidase domain containing protein. (Os03t0805400-02 );Similar to phosphoric ester hydrolase. (Os03t0805400-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	2/2
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	Os03t0805400-03:2 Os03t0805400-01:3 Os03t0805400-02:3

			
						 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  
						
							AATGCCAACTAACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCG
TGTGATCCATATGTTAGGACATAATGCAGCAGATATaattccaaaagccaccccattgaatgct
gtgtggtattcaaagctaggagttgggaattctggttttggatatgcgaagcacagcaacagag
aaaggctc

						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: 123
Transcript exons: 33628322-33628350,33628765-33628858
AATTCCAAAAGCCACCCCATTGAATGCTGAACTAACATAACAAGCAAGAAAGCTAGAGATAAGC
CCGTGACAACCATAACATTGTCGTGTGATCCATATGTTAGGACATAATGCAGCAGATAT
Transcript length: 346
Transcript exons: 33628322-33628437,33628521-33628649,33628758-33628858
AATTCCAAAAGCCACCCCATTGAATGCTGTGTGGTATTCAAAGCTAGGAGTTGGGAATTCTGGT
TTTGGATATGCGAAGCACAGCAACAGAGAAAGGCTCGCCCAGAAGGTTGTAACATTTTGACCGG
AGACAACAAAAGCATCGACATGATTATGGACAGCCAACCAGAATGCCAGGATTACAACGCCAAA
ACAGATGCCAGCAATAACATCAATCAAGCTGTGCATGCCCAAATATATCCGTCCAATGCCAACT
AACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCGTGTGATCCAT
ATGTTAGGACATAATGCAGCAGATAT
						
						Genomic sequence
						
							AATTCCAAAAGCCACCCCATTGAATGCTGTGTGGTATTCAAAGCTAGGAGTTGGGAATTCTGGT
TTTGGATATGCGAAGCACAGCAACAGAGAAAGGCTCGCCCAGAAGGTTGTAACTGCAAGGGAAA
AGATAACGAGAATAAGCCTTCCAAAATTACATTTCACCTATCAGACAAAACTCAGAGGCGTATA
GATATACCATTTTGACCGGAGACAACAAAAGCATCGACATGATTATGGACAGCCAACCAGAATG
CCAGGATTACAACGCCAAAACAGATGCCAGCAATAACATCAATCAAGCTGTGCATGCCCAAATA
TATCCGTCCTATCAATTTCAAATAAACCACATCATCAATATCTACTAGTAACTCTAAGAGTGTT
TTTTGAACGACGTAACTCTAAGAGTGTTGCATAGAGAAATTTGGAGACTCACCAATGCCAACTA
ACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCGTGTGATCCATA
TGTTAGGACATAATGCAGCAGATAT

Sequences
Splice junction sequence	AATGCCAACTAACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCG TGTGATCCATATGTTAGGACATAATGCAGCAGATATaattccaaaagccaccccattgaatgct gtgtggtattcaaagctaggagttgggaattctggttttggatatgcgaagcacagcaacagag aaaggctc
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: 123 Transcript exons: 33628322-33628350,33628765-33628858 AATTCCAAAAGCCACCCCATTGAATGCTGAACTAACATAACAAGCAAGAAAGCTAGAGATAAGC CCGTGACAACCATAACATTGTCGTGTGATCCATATGTTAGGACATAATGCAGCAGATAT Transcript length: 346 Transcript exons: 33628322-33628437,33628521-33628649,33628758-33628858 AATTCCAAAAGCCACCCCATTGAATGCTGTGTGGTATTCAAAGCTAGGAGTTGGGAATTCTGGT TTTGGATATGCGAAGCACAGCAACAGAGAAAGGCTCGCCCAGAAGGTTGTAACATTTTGACCGG AGACAACAAAAGCATCGACATGATTATGGACAGCCAACCAGAATGCCAGGATTACAACGCCAAA ACAGATGCCAGCAATAACATCAATCAAGCTGTGCATGCCCAAATATATCCGTCCAATGCCAACT AACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCGTGTGATCCAT ATGTTAGGACATAATGCAGCAGATAT
Genomic sequence	AATTCCAAAAGCCACCCCATTGAATGCTGTGTGGTATTCAAAGCTAGGAGTTGGGAATTCTGGT TTTGGATATGCGAAGCACAGCAACAGAGAAAGGCTCGCCCAGAAGGTTGTAACTGCAAGGGAAA AGATAACGAGAATAAGCCTTCCAAAATTACATTTCACCTATCAGACAAAACTCAGAGGCGTATA GATATACCATTTTGACCGGAGACAACAAAAGCATCGACATGATTATGGACAGCCAACCAGAATG CCAGGATTACAACGCCAAAACAGATGCCAGCAATAACATCAATCAAGCTGTGCATGCCCAAATA TATCCGTCCTATCAATTTCAAATAAACCACATCATCAATATCTACTAGTAACTCTAAGAGTGTT TTTTGAACGACGTAACTCTAAGAGTGTTGCATAGAGAAATTTGGAGACTCACCAATGCCAACTA ACATAACAAGCAAGAAAGCTAGAGATAAGCCCGTGACAACCATAACATTGTCGTGTGATCCATA TGTTAGGACATAATGCAGCAGATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.267292753

Conservation Information
Conserved circRNAs	NA
PMCS	0.267292753

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							33628834-33628525(+)
33628814-33628618(-)
33628555-33628618(-)
						
						Potential amino acid sequence
						
							MLGHNAADIIPKATPLNAVWYSKLGVGNSGFGYAKHSNRERLAQKVVTF*(+)
MVVTGLSLAFLLVMLVGIGRIYLGMHSLIDVIAGICFGVVILAFWLAVHNHVDAFVVSGQNVTT
FWASLSLLLCFAYPKPEFPTPSFEYHTAFNGVAFGIISAALCPNIWITRQCYGCHGLISSFLAC
YVSWHWTDIFGHAQLD*(-)
MSMLLLSPVKMLQPSGRAFLCCCASHIQNQNSQLLALNTTQHSMGWLLELYLLHYVLTYGSHDN
VMVVTGLSLAFLLVMLVGIGRIYLGMHSLIDVIAGICFGVVILAFWLAVHNHVDAFVVSGQNVT
TFWASLSLLLCFAYPKPEFPTPSFEYHTAFNGVAFGIISAALCPNIWITRQCYGCHGLISSFLA
CYVSWHWTDIFGHAQLD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	33628834-33628525(+) 33628814-33628618(-) 33628555-33628618(-)
Potential amino acid sequence	MLGHNAADIIPKATPLNAVWYSKLGVGNSGFGYAKHSNRERLAQKVVTF(+) MVVTGLSLAFLLVMLVGIGRIYLGMHSLIDVIAGICFGVVILAFWLAVHNHVDAFVVSGQNVTT FWASLSLLLCFAYPKPEFPTPSFEYHTAFNGVAFGIISAALCPNIWITRQCYGCHGLISSFLAC YVSWHWTDIFGHAQLD(-) MSMLLLSPVKMLQPSGRAFLCCCASHIQNQNSQLLALNTTQHSMGWLLELYLLHYVLTYGSHDN VMVVTGLSLAFLLVMLVGIGRIYLGMHSLIDVIAGICFGVVILAFWLAVHNHVDAFVVSGQNVT TFWASLSLLLCFAYPKPEFPTPSFEYHTAFNGVAFGIISAALCPNIWITRQCYGCHGLISSFLA CYVSWHWTDIFGHAQLD*(-)
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 Os03g0805400_circ_g.1

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