Plant Circular RNA Database

Detail information of Os10g0509200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0509200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_007625
					
						Alias
						Os_ciR6837
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 19562781-19565044  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os10g0509200						
					
						Parent gene annotation
						
							Similar to plastid-lipid associated protein PAP / fibrillin fami
ly protein. (Os10t0509200-01)
							
						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
						Os10t0509200-01:5

General Information
CircRNA Name	Os10g0509200_circ_g.1
ID in PlantcircBase	osa_circ_007625
Alias	Os_ciR6837
Organism	Oryza sativa
Position	chr10: 19562781-19565044 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os10g0509200
Parent gene annotation	Similar to plastid-lipid associated protein PAP / fibrillin fami ly protein. (Os10t0509200-01)
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	Os10t0509200-01:5

			
						 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  
						
							GAGGAGTTTTTATTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATTACCAGGAGTA
TACCATTTGAAGGCGGCAATTGAACCCATGCAAGAGgtggggcaaatataccagaaattcgaat
gcaaggataggtcagatggtggggttgtgcggaatgttgtgcgatggagcattgagaacttgct
ggaggtaa

									
								

					

						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: 494
Transcript exons: 19562781-19562876,19563747-19563827,19564339-19564425,19
564741-19564796,19564871-19565044
GTGGGGCAAATATACCAGAAATTCGAATGCAAGGATAGGTCAGATGGTGGGGTTGTGCGGAATG
TTGTGCGATGGAGCATTGAGAACTTGCTGGAGGAGCAAGAGGGTGCAACACTGATGGTCTCTGC
AAAATTTGCTGTCATGTCTAAGCGCAACATCTTCCTTCAATTTGAGGAGGTTGTTGTAGAAAAT
ATCAAGATTAGTGAGCAGCTACAAGCACTAATAGCTCCTGCTATACTCCCTCGGTCATTTTTTA
GTCTTCAGATATTGCAGTTCCTTAAAACTTTTCGAGCTCAAGTTCCTGTTAATGGCCCTGAAAG
GAGATCACCCGGAGGACTATATTATCTTTCTTACCTTGACCGCGATATGCTCCTGGGGCGATCG
GTTGGTGGTGGAGGAGTTTTTATTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATT
ACCAGGAGTATACCATTTGAAGGCGGCAATTGAACCCATGCAAGAG
						
					

						Genomic sequence
						
							GTGGGGCAAATATACCAGAAATTCGAATGCAAGGATAGGTCAGATGGTGGGGTTGTGCGGAATG
TTGTGCGATGGAGCATTGAGAACTTGCTGGAGGTAAAATTTTTAATGTGCGTCTATCTTTATTC
CTTTCTTCAGTTTCTTCTCAAGAGTGTTTCTCTTTGTGGCCATCTTGTTTGGTGCCATCGCAAA
GTTGGAATACACCATGTGTCCTTGACATGCGCCATGTAGTCCTGGGCTGCACATGTAATTTTCA
CATGCTGTGGTATCTTCTAGTTCACACATCTTTGCGGTGGTACTTTCCTAAATTTCTCTTTTGT
TTCATGATCCTAACTTCACCTTACAGTTGGTAGTAGTTTTTATCATCCATTCATCCTTACATCT
GATTTCATTCATTTGAGATGAGATGTAGCTGGAATTTCAACTGTTTACATTTTTATGTTGTACG
GATGCTATTAATTGTGATAAGACAATATGCAAAAGGATGATTTAATTGTTACCTTGAAGTTTCT
GGTAGGCTGACCAACATGCAATCTTGCTTTGCCTTTAGTATCTCAACAGCGTCAGGAAAATGAC
CTTCCTCTAGGCTGATTATGTTGTTCTATAGTCTAACTCTCAACATGGCAACTGTTCATCTCCA
TGAGTGTTGATATACATAAAAGTATGATAGTTACAGCTTTGCAGTGATTTAAAACGTCTATGAA
ATGTTTATGAATTTATTATTTCCACAAATAGTATTATTTTATCTTTATGGAATCATCTTCCTTT
TTTTTCTTTCATGTAGTGCAATCTAACTCGAATTTTCAGATAGGAAAAATGCTTGTTCTTTTTT
CATCTTTTGCATTATGTAAACAGTAGACTTCCAGATCATTGTGTATTATTGATAAACCACCATT
TAATTTCTAGTGTTTAATCTCAATGTTTTTTAGCTCTTTTATGCTTGATTGTTTTTTGTGCTCT
CTATAGGAGCAAGAGGGTGCAACACTGATGGTCTCTGCAAAATTTGCTGTCATGTCTAAGCGCA
ACATCTTCCTTCAATTTGAGGAGGTAATTTTCTGATTTGATAATATATAAACCTCTTATTTGAT
TCAAGTGTTACAAATGAAAAAAAAATGGCATCCATGTAGTTATATTATACTTACTTCAGCATGC
TATGGTTAGCAGGGATGTGATATCCTCTCACCAAGTAGCATATGAAGTATAGCAGTTGGCATTC
TCCATGATTGTATTCTCGTGCAAGATGGTGCTATGATGTATACATGATGAAACACATTATATCT
TCATAATTCTAACATTCTTTTAGCAACCAACCGAAGGATGAAGCAGCCTACCCAAATCATCTAT
TACATAATTCCAGTTTTCTTGTTCATGGATATGAGTCATTCTGTGCTTTATTCATTTTCTGCTA
TTGTCATCCACAATTTTATAGTTATGCCCTCTAGAGAGTTACTATTATGCTTTCATTTTGTTTC
TCTTTTTTAGTTTTTCATTATCAATCTTCTTCTTCTGTGGTTTTGATATTTAGTTTAGTTGCTA
CTTATGATCCATCGTTTAACAGGTTGTTGTAGAAAATATCAAGATTAGTGAGCAGCTACAAGCA
CTAATAGCTCCTGCTATACTCCCTCGGTCATTTTTTAGTCTTCAGGTAATTTCCTTTTTTTACT
TGCATGTTACCCTTATTCCTTCTTAACTTCTTTCGTCTGTTTTCCCCCCTTTTTTGTCATCGAC
AAACTTAGGCATCCATCTATAAGAGTTATTCCCAATTTTAGGAGCTACTAGTATCCACAATATA
CAAATATTAATGTTTTTCTGTTCTGCACTTCTGCTCTGAAAAGAGAATGATGAAATGGGGAGTT
ATTAACATTTAGGACCAGCATTTGTGCATTTGAGATGTGTATTGCAGTTAGGATTTACCTTACC
ATCAGACAAGAATTTCATTGCAGCATGTTTATTATTGTAGATATTGCAGTTCCTTAAAACTTTT
CGAGCTCAAGTTCCTGTTAATGGCCCTGAAAGGTATGTTTCCAGTGTATGTTCTTTCATTTCTT
GCTTCCTGTGTTCTGTAAGTTCCAGTTTAATTAAAATCTCAGGAGATCACCCGGAGGACTATAT
TATCTTTCTTACCTTGACCGCGATATGCTCCTGGGGCGATCGGTTGGTGGTGGAGGAGTTTTTA
TTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATTACCAGGAGTATACCATTTGAAG
GCGGCAATTGAACCCATGCAAGAG
						
					

			
		

Sequences
Splice junction sequence	GAGGAGTTTTTATTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATTACCAGGAGTA TACCATTTGAAGGCGGCAATTGAACCCATGCAAGAGgtggggcaaatataccagaaattcgaat gcaaggataggtcagatggtggggttgtgcggaatgttgtgcgatggagcattgagaacttgct ggaggtaa
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: 494 Transcript exons: 19562781-19562876,19563747-19563827,19564339-19564425,19 564741-19564796,19564871-19565044 GTGGGGCAAATATACCAGAAATTCGAATGCAAGGATAGGTCAGATGGTGGGGTTGTGCGGAATG TTGTGCGATGGAGCATTGAGAACTTGCTGGAGGAGCAAGAGGGTGCAACACTGATGGTCTCTGC AAAATTTGCTGTCATGTCTAAGCGCAACATCTTCCTTCAATTTGAGGAGGTTGTTGTAGAAAAT ATCAAGATTAGTGAGCAGCTACAAGCACTAATAGCTCCTGCTATACTCCCTCGGTCATTTTTTA GTCTTCAGATATTGCAGTTCCTTAAAACTTTTCGAGCTCAAGTTCCTGTTAATGGCCCTGAAAG GAGATCACCCGGAGGACTATATTATCTTTCTTACCTTGACCGCGATATGCTCCTGGGGCGATCG GTTGGTGGTGGAGGAGTTTTTATTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATT ACCAGGAGTATACCATTTGAAGGCGGCAATTGAACCCATGCAAGAG
Genomic sequence	GTGGGGCAAATATACCAGAAATTCGAATGCAAGGATAGGTCAGATGGTGGGGTTGTGCGGAATG TTGTGCGATGGAGCATTGAGAACTTGCTGGAGGTAAAATTTTTAATGTGCGTCTATCTTTATTC CTTTCTTCAGTTTCTTCTCAAGAGTGTTTCTCTTTGTGGCCATCTTGTTTGGTGCCATCGCAAA GTTGGAATACACCATGTGTCCTTGACATGCGCCATGTAGTCCTGGGCTGCACATGTAATTTTCA CATGCTGTGGTATCTTCTAGTTCACACATCTTTGCGGTGGTACTTTCCTAAATTTCTCTTTTGT TTCATGATCCTAACTTCACCTTACAGTTGGTAGTAGTTTTTATCATCCATTCATCCTTACATCT GATTTCATTCATTTGAGATGAGATGTAGCTGGAATTTCAACTGTTTACATTTTTATGTTGTACG GATGCTATTAATTGTGATAAGACAATATGCAAAAGGATGATTTAATTGTTACCTTGAAGTTTCT GGTAGGCTGACCAACATGCAATCTTGCTTTGCCTTTAGTATCTCAACAGCGTCAGGAAAATGAC CTTCCTCTAGGCTGATTATGTTGTTCTATAGTCTAACTCTCAACATGGCAACTGTTCATCTCCA TGAGTGTTGATATACATAAAAGTATGATAGTTACAGCTTTGCAGTGATTTAAAACGTCTATGAA ATGTTTATGAATTTATTATTTCCACAAATAGTATTATTTTATCTTTATGGAATCATCTTCCTTT TTTTTCTTTCATGTAGTGCAATCTAACTCGAATTTTCAGATAGGAAAAATGCTTGTTCTTTTTT CATCTTTTGCATTATGTAAACAGTAGACTTCCAGATCATTGTGTATTATTGATAAACCACCATT TAATTTCTAGTGTTTAATCTCAATGTTTTTTAGCTCTTTTATGCTTGATTGTTTTTTGTGCTCT CTATAGGAGCAAGAGGGTGCAACACTGATGGTCTCTGCAAAATTTGCTGTCATGTCTAAGCGCA ACATCTTCCTTCAATTTGAGGAGGTAATTTTCTGATTTGATAATATATAAACCTCTTATTTGAT TCAAGTGTTACAAATGAAAAAAAAATGGCATCCATGTAGTTATATTATACTTACTTCAGCATGC TATGGTTAGCAGGGATGTGATATCCTCTCACCAAGTAGCATATGAAGTATAGCAGTTGGCATTC TCCATGATTGTATTCTCGTGCAAGATGGTGCTATGATGTATACATGATGAAACACATTATATCT TCATAATTCTAACATTCTTTTAGCAACCAACCGAAGGATGAAGCAGCCTACCCAAATCATCTAT TACATAATTCCAGTTTTCTTGTTCATGGATATGAGTCATTCTGTGCTTTATTCATTTTCTGCTA TTGTCATCCACAATTTTATAGTTATGCCCTCTAGAGAGTTACTATTATGCTTTCATTTTGTTTC TCTTTTTTAGTTTTTCATTATCAATCTTCTTCTTCTGTGGTTTTGATATTTAGTTTAGTTGCTA CTTATGATCCATCGTTTAACAGGTTGTTGTAGAAAATATCAAGATTAGTGAGCAGCTACAAGCA CTAATAGCTCCTGCTATACTCCCTCGGTCATTTTTTAGTCTTCAGGTAATTTCCTTTTTTTACT TGCATGTTACCCTTATTCCTTCTTAACTTCTTTCGTCTGTTTTCCCCCCTTTTTTGTCATCGAC AAACTTAGGCATCCATCTATAAGAGTTATTCCCAATTTTAGGAGCTACTAGTATCCACAATATA CAAATATTAATGTTTTTCTGTTCTGCACTTCTGCTCTGAAAAGAGAATGATGAAATGGGGAGTT ATTAACATTTAGGACCAGCATTTGTGCATTTGAGATGTGTATTGCAGTTAGGATTTACCTTACC ATCAGACAAGAATTTCATTGCAGCATGTTTATTATTGTAGATATTGCAGTTCCTTAAAACTTTT CGAGCTCAAGTTCCTGTTAATGGCCCTGAAAGGTATGTTTCCAGTGTATGTTCTTTCATTTCTT GCTTCCTGTGTTCTGTAAGTTCCAGTTTAATTAAAATCTCAGGAGATCACCCGGAGGACTATAT TATCTTTCTTACCTTGACCGCGATATGCTCCTGGGGCGATCGGTTGGTGGTGGAGGAGTTTTTA TTTTCACAAGAGCACAGCCTCTTTTGTGATGATTTCAGAATTACCAGGAGTATACCATTTGAAG GCGGCAATTGAACCCATGCAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.314020141

Conservation Information
Conserved circRNAs	NA
PMCS	0.314020141

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19564986-19564982(+)
19563810-19564962(-)
						
						Potential amino acid sequence
						
							MISELPGVYHLKAAIEPMQEVGQIYQKFECKDRSDGGVVRNVVRWSIENLLEEQEGATLMVSAK
FAVMSKRNIFLQFEEVVVENIKISEQLQALIAPAILPRSFFSLQILQFLKTFRAQVPVNGPERR
SPGGLYYLSYLDRDMLLGRSVGGGGVFIFTRAQPLL*(+)
MLRLDMTANFAETISVAPSCSSSKFSMLHRTTFRTTPPSDLSLHSNFWYICPTSCMGSIAAFKW
YTPGNSEIITKEAVLL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19564986-19564982(+) 19563810-19564962(-)
Potential amino acid sequence	MISELPGVYHLKAAIEPMQEVGQIYQKFECKDRSDGGVVRNVVRWSIENLLEEQEGATLMVSAK FAVMSKRNIFLQFEEVVVENIKISEQLQALIAPAILPRSFFSLQILQFLKTFRAQVPVNGPERR SPGGLYYLSYLDRDMLLGRSVGGGGVFIFTRAQPLL(+) MLRLDMTANFAETISVAPSCSSSKFSMLHRTTFRTTPPSDLSLHSNFWYICPTSCMGSIAAFKW YTPGNSEIITKEAVLL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os10g0509200_circ_g.1

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