Plant Circular RNA Database

Detail information of Os05g0413200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0413200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027892
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 20204652-20205436  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0413200						
					
						Parent gene annotation
						
							Beta-tubulin , Responseto gebberellin (GA) and brassinolide (BL)
 (Os05t0413200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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  
						
							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
						Os05t0413200-01:2

General Information
CircRNA Name	Os05g0413200_circ_g.2
ID in PlantcircBase	osa_circ_027892
Alias	NA
Organism	Oryza sativa
Position	chr5: 20204652-20205436 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0413200
Parent gene annotation	Beta-tubulin , Responseto gebberellin (GA) and brassinolide (BL) (Os05t0413200-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
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	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	Os05t0413200-01:2

			
						 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  
						
							GTCCACCAGCTCGTGGAGAACGCCGACGAGTGCATGGTGCTCGACAACGAGGCGCTCTATGACA
TCTGCTTCCGCACCCTCAAGCTGACGACTCCCAGCTgtaaaaaaggggaggagaagatgaggga
gatcttgcacatccagggcgggcagtgcgggaaccagatcgggtccaagttctgggaggtggtg
tgcgacga

						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
						
							GTAAAAAAGGGGAGGAGAAGATGAGGGAGATCTTGCACATCCAGGGCGGGCAGTGCGGGAACCA
GATCGGGTCCAAGTTCTGGGAGGTGGTGTGCGACGAGCATGGCATCGACCCGACGGGGAGGTAC
GCCGGCACGTCGGACCTGCAGCTGGAGCGCGTGAACGTCTACTACAACGAGGCGTCGTGCGGCC
GGTTCGTGCCGCGCGCCGTGCTCATGGACCTGGAGCCGGGCACCATGGACTCCGTCCGCACGGG
GCCCTACGGCCAGATCTTCCGTCCCGACAACTTCGTCTTCGGCCAGTCCGGCGCCGGCAACAAC
TGGGCCAAGGGCCACTACACCGAGGGCGCCGAGCTCATCGACTCCGTCCTCGACGTCGTCCGCA
AGGAGGCCGAGAATTGCGACTGCCTCCAAGGTATCATCATCATCATACCATCACCCCCACTATC
TGTTTCGTTTCTTGAATTCTTTTCCATGGAATCCGGTGGTCGATCGAGCTCTGCTTCCGGTGGT
CAGGTTTCCAGGTGTGCCACTCGCTGGGCGGCGGCACGGGCTCCGGCATGGGCACCCTGCTGAT
CTCCAAGATCAGGGAGGAGTACCCGGACAGGATGATGCTCACCTTCTCCGTGTTCCCGTCGCCC
AAGGTGTCGGACACCGTGGTGGAGCCCTACAACGCCACGCTCTCGGTCCACCAGCTCGTGGAGA
ACGCCGACGAGTGCATGGTGCTCGACAACGAGGCGCTCTATGACATCTGCTTCCGCACCCTCAA
GCTGACGACTCCCAGCT

Sequences
Splice junction sequence	GTCCACCAGCTCGTGGAGAACGCCGACGAGTGCATGGTGCTCGACAACGAGGCGCTCTATGACA TCTGCTTCCGCACCCTCAAGCTGACGACTCCCAGCTgtaaaaaaggggaggagaagatgaggga gatcttgcacatccagggcgggcagtgcgggaaccagatcgggtccaagttctgggaggtggtg tgcgacga
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	GTAAAAAAGGGGAGGAGAAGATGAGGGAGATCTTGCACATCCAGGGCGGGCAGTGCGGGAACCA GATCGGGTCCAAGTTCTGGGAGGTGGTGTGCGACGAGCATGGCATCGACCCGACGGGGAGGTAC GCCGGCACGTCGGACCTGCAGCTGGAGCGCGTGAACGTCTACTACAACGAGGCGTCGTGCGGCC GGTTCGTGCCGCGCGCCGTGCTCATGGACCTGGAGCCGGGCACCATGGACTCCGTCCGCACGGG GCCCTACGGCCAGATCTTCCGTCCCGACAACTTCGTCTTCGGCCAGTCCGGCGCCGGCAACAAC TGGGCCAAGGGCCACTACACCGAGGGCGCCGAGCTCATCGACTCCGTCCTCGACGTCGTCCGCA AGGAGGCCGAGAATTGCGACTGCCTCCAAGGTATCATCATCATCATACCATCACCCCCACTATC TGTTTCGTTTCTTGAATTCTTTTCCATGGAATCCGGTGGTCGATCGAGCTCTGCTTCCGGTGGT CAGGTTTCCAGGTGTGCCACTCGCTGGGCGGCGGCACGGGCTCCGGCATGGGCACCCTGCTGAT CTCCAAGATCAGGGAGGAGTACCCGGACAGGATGATGCTCACCTTCTCCGTGTTCCCGTCGCCC AAGGTGTCGGACACCGTGGTGGAGCCCTACAACGCCACGCTCTCGGTCCACCAGCTCGTGGAGA ACGCCGACGAGTGCATGGTGCTCGACAACGAGGCGCTCTATGACATCTGCTTCCGCACCCTCAA GCTGACGACTCCCAGCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.530412739

Conservation Information
Conserved circRNAs	NA
PMCS	0.530412739

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							20204673-20205433(+)
20204757-20204654(-)
20204762-20205395(-)
						
					

						Potential amino acid sequence
						
							MREILHIQGGQCGNQIGSKFWEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAV
LMDLEPGTMDSVRTGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCD
CLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQL
VENADECMVLDNEALYDICFRTLKLTTPSCKKGEEKMREILHIQGGQCGNQIGSKFWEVVCDEH
GIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAVLMDLEPGTMDSVRTGPYGQIFRPDNFVF
GQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIR
EEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICFRTLKLTTP
SCKKGEEKMREILHIQGGQCGNQIGSKFWEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASC
GRFVPRAVLMDLEPGTMDSVRTGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVV
RKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYN
ATLSVHQLVENADECMVLDNEALYDICFRTLKLTTPSCKKGEEKMREILHIQGGQCGNQIGSKF
WEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAVLMDLEPGTMDSVRTGPYGQI
FRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMG
TLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICF
RTLKLTTPS(+)
MLVAHHLPELGPDLVPALPALDVQDLPHLLLPFFTAGSRQLEGAEADVIERLVVEHHALVGVLH
ELVDRERGVVGLHHGVRHLGRREHGEGEHHPVRVLLPDLGDQQGAHAGARAAAQRVAHLETLEA
VAILGLLADDVEDGVDELGALGVVALGPVVAGAGLAEDEVVGTEDLAVGPRADGVHGARLQVHE
HGARHEPAARRLVVVDVHALQLQVRRAGVPPRRVDAMLVAHHLPELGPDLVPALPALDVQDLPH
LLLPFFTAGSRQLEGAEADVIERLVVEHHALVGVLHELVDRERGVVGLHHGVRHLGRREHGEGE
HHPVRVLLPDLGDQQGAHAGARAAAQRVAHLETLEAVAILGLLADDVEDGVDELGALGVVALGP
VVAGAGLAEDEVVGTEDLAVGPRADGVHGARLQVHEHGARHEPAARRLVVVDVHALQLQVRRAG
VPPRRVDAMLVAHHLPELGPDLVPALPALDVQDLPHLLLPFFTAGSRQLEGAEADVIERLVVEH
HALVGVLHELVDRERGVVGLHHGVRHLGRREHGEGEHHPVRVLLPDLGDQQGAHAGARAAAQRV
AHLETLEAVAILGLLADDVEDGVDELGALGVVALGPVVAGAGLAEDEVVGTEDLAVGPRADGVH
GARLQVHEHGARHEPAARRLVVVDVHALQLQVRRAGVPPRRVDAMLVAHHLPELGPDLVPALPA
LDVQDLPHLLLPFF(-)
MPCSSHTTSQNLDPIWFPHCPPWMCKISLIFSSPFLQLGVVSLRVRKQMS*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	20204673-20205433(+) 20204757-20204654(-) 20204762-20205395(-)
Potential amino acid sequence	MREILHIQGGQCGNQIGSKFWEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAV LMDLEPGTMDSVRTGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCD CLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQL VENADECMVLDNEALYDICFRTLKLTTPSCKKGEEKMREILHIQGGQCGNQIGSKFWEVVCDEH GIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAVLMDLEPGTMDSVRTGPYGQIFRPDNFVF GQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIR EEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICFRTLKLTTP SCKKGEEKMREILHIQGGQCGNQIGSKFWEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASC GRFVPRAVLMDLEPGTMDSVRTGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVV RKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYN ATLSVHQLVENADECMVLDNEALYDICFRTLKLTTPSCKKGEEKMREILHIQGGQCGNQIGSKF WEVVCDEHGIDPTGRYAGTSDLQLERVNVYYNEASCGRFVPRAVLMDLEPGTMDSVRTGPYGQI FRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMG TLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICF RTLKLTTPS(+) MLVAHHLPELGPDLVPALPALDVQDLPHLLLPFFTAGSRQLEGAEADVIERLVVEHHALVGVLH ELVDRERGVVGLHHGVRHLGRREHGEGEHHPVRVLLPDLGDQQGAHAGARAAAQRVAHLETLEA VAILGLLADDVEDGVDELGALGVVALGPVVAGAGLAEDEVVGTEDLAVGPRADGVHGARLQVHE HGARHEPAARRLVVVDVHALQLQVRRAGVPPRRVDAMLVAHHLPELGPDLVPALPALDVQDLPH LLLPFFTAGSRQLEGAEADVIERLVVEHHALVGVLHELVDRERGVVGLHHGVRHLGRREHGEGE HHPVRVLLPDLGDQQGAHAGARAAAQRVAHLETLEAVAILGLLADDVEDGVDELGALGVVALGP VVAGAGLAEDEVVGTEDLAVGPRADGVHGARLQVHEHGARHEPAARRLVVVDVHALQLQVRRAG VPPRRVDAMLVAHHLPELGPDLVPALPALDVQDLPHLLLPFFTAGSRQLEGAEADVIERLVVEH HALVGVLHELVDRERGVVGLHHGVRHLGRREHGEGEHHPVRVLLPDLGDQQGAHAGARAAAQRV AHLETLEAVAILGLLADDVEDGVDELGALGVVALGPVVAGAGLAEDEVVGTEDLAVGPRADGVH GARLQVHEHGARHEPAARRLVVVDVHALQLQVRRAGVPPRRVDAMLVAHHLPELGPDLVPALPA LDVQDLPHLLLPFF(-) MPCSSHTTSQNLDPIWFPHCPPWMCKISLIFSSPFLQLGVVSLRVRKQMS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0413200_circ_g.2

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