Plant Circular RNA Database

Detail information of Os03g0831700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0831700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_022569
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 34933090-34935136  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0831700						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0831700-01);Hypothetical c
onserved gene. (Os03t0831700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0831700_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot, 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
						Os03t0831700-02:1
Os03t0831700-01:3

General Information
CircRNA Name	Os03g0831700_circ_g.1
ID in PlantcircBase	osa_circ_022569
Alias	NA
Organism	Oryza sativa
Position	chr3: 34933090-34935136 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0831700
Parent gene annotation	Conserved hypothetical protein. (Os03t0831700-01);Hypothetical c onserved gene. (Os03t0831700-02)
Parent gene strand	+
Alternative splicing	Os03g0831700_circ_g.2
Support reads	1
Tissues	shoot, 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	Os03t0831700-02:1 Os03t0831700-01:3

			
						 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  
						
							GAGCATTGCATCTACTGATTATGATAGGGAGTCCGTCCAATCCTATAAGGATGGAAAAGGCAGT
TTCACCCAGACAGATCTTGCATCAAAGAGTGGTCAGgtttaggggagtaaagggaaatggatgt
ggagaagcctacttcaaagggacatggcttctttagcctgtttgattggggcaagaagtccaag
aagcggct

									
								

					

						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
						
							GTTTAGGGGAGTAAAGGGAAATGGATGTGGAGAAGCCTACTTCAAAGGGACATGGCTTCTTTAG
CCTGTTTGATTGGGGCAAGAAGTCCAAGAAGCGGCTGGTCAGTGGAAATGGGAGCGATTCTCCG
GCTCCAAGTAAGTCAATGTGGCACAGGAGTCCAGTCATTGCTATAAACTCGATACATCCTTTTT
TTCTCAAATGGATGGAGGAATTAGGATTGCATACTGATACTTCCTTTGCAGGGGTTTCTGAAAA
TTTCAGGGAATCTGATGGTGGCACACCAAGCACTCGACCAAATTCGGTGCGTGTTCATGCGAGC
AATCTTATTAGTTTTTTAGTTTTTTTTGTGTTATTTATGTGTAATTGTGTATGCATAATTGTTG
GCAGTTCCTTGAAGATGCACCGAGTTTGAAGGAAAGCAGTGAGCACAGTTGCTCATCTTCAGTG
GTTGACGATGAAGCTCTTGTGAGGAGGGGCCCCACTGTTGTAGCAAGGCTTATGGGTCTGGATT
CCATGCCCGCAGCAAGCTCATCTGGATCCTATACGATGCCATTAACTGTGCAGCAGTCCCCCCA
GAACAGTACTATCCATGATGAGTTCATTGGCAGAAGCTATGTTGGCAGTCCTCATAAGATGCCC
GGTAGTCCTCATAAGATGCCTGGTAGTCCTATTGACCGGTTTAGGATGGAAGCATTGCCACCAA
GATTTGCCAAAAGGACACTGTCGGTTGCGCAAAACAAGTTGTCCCCCATGAAGAATCCTAATCA
TATATCTAGCAGAAATGCTGCTGATATAATGGAGGCGGCGTCTAGGATTATAGGGGCTGGAGTT
GAGGTTATTAGCCCTTACAGAGTTCGTGATGTTGGATATGCAAATACTGTTCGTGTATACAGCC
AAAGAGAGATTGCGATAGTCCAACAAAGGCCACCAAGAATGAATGAAGCACTGAAGAAGCATGA
TGGCTTGACATCTTATAGGCTACCAACTGGAAAGCCTTTGGATGGAAGTCTGAAAAGTTCAGGG
AACACCTCTGCTTCTGTGGTCTCACAGTCAAATGGAGGTGCTCCAGTTGGCCCAAAGGTCAAGG
CCAGCAGTCGATCATCACCAGATTCTAGAGCAACTAATGTTCAAGGAAGGGAAGATATAAGCAA
GATTAGCAGAAAACTTGCAACTCGGGATCCTGAGCGGAGAATGGTTGAGAGAAATGGGATTAAC
CAAGGGAAGAATAACAATCAAGTGGGCATGGCAAGTTCGTCCAATGTGCTTGTGCAAAATAACA
GAAAGCAAAATGCTATGGTTAAGCACAAGGTGAATTCCAAGCCACCAACACCCAACCGGCAAAG
AAGCAACACACATTCAATAAATGGCACTATGAGAAAGGTTGGGACTGCCGGCACACCGTCTGAA
AACAATACTCAAGGTAACAGAAACGTGGAATTGCGGTCAACTGGCCATGCAAATAGAAGGCAAA
ATTCTACAGCCAAATCAATCCCCAAGCCAGGAAGATTACCAGATGGGAGGATACATTCAGTGAA
AACCCGTCCAAGTGATAAAGATATTGCTGACAGAAGCCAAAGGCGTGTTCGGCACAATATTGTA
ATAGATGAGCAATCACCTTTTTCCATGAACAAGAAGAAAATTAGCACTGATATTGTTTCATTCA
CATTCACCGCACCAGTTGATAAACCATTATCTGGTTATCGCCTACCCAATCATTTAGTGGAAAA
ACAGTTTATGAAAAACGCGAGCTCAGTACCAAATTCAAGCGAGACATCGAGTGCTAAATTTGAT
TCAATTGATGGTGATTATTTGGGTCTCCTTTTAGAGCAGAAGTTGAGAGAACTTACTTCTGGGG
TTAGGTCACCCTACTGTAAGCCAGCCAAAGATGTTCGGATATATGCCCCATCATCAGTTCTGGA
AGATTCACAATCAGCATGTGAAACATCGAGCATTGCATCTACTGATTATGATAGGGAGTCCGTC
CAATCCTATAAGGATGGAAAAGGCAGTTTCACCCAGACAGATCTTGCATCAAAGAGTGGTCAG
						
					

			
		

Sequences
Splice junction sequence	GAGCATTGCATCTACTGATTATGATAGGGAGTCCGTCCAATCCTATAAGGATGGAAAAGGCAGT TTCACCCAGACAGATCTTGCATCAAAGAGTGGTCAGgtttaggggagtaaagggaaatggatgt ggagaagcctacttcaaagggacatggcttctttagcctgtttgattggggcaagaagtccaag aagcggct
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	GTTTAGGGGAGTAAAGGGAAATGGATGTGGAGAAGCCTACTTCAAAGGGACATGGCTTCTTTAG CCTGTTTGATTGGGGCAAGAAGTCCAAGAAGCGGCTGGTCAGTGGAAATGGGAGCGATTCTCCG GCTCCAAGTAAGTCAATGTGGCACAGGAGTCCAGTCATTGCTATAAACTCGATACATCCTTTTT TTCTCAAATGGATGGAGGAATTAGGATTGCATACTGATACTTCCTTTGCAGGGGTTTCTGAAAA TTTCAGGGAATCTGATGGTGGCACACCAAGCACTCGACCAAATTCGGTGCGTGTTCATGCGAGC AATCTTATTAGTTTTTTAGTTTTTTTTGTGTTATTTATGTGTAATTGTGTATGCATAATTGTTG GCAGTTCCTTGAAGATGCACCGAGTTTGAAGGAAAGCAGTGAGCACAGTTGCTCATCTTCAGTG GTTGACGATGAAGCTCTTGTGAGGAGGGGCCCCACTGTTGTAGCAAGGCTTATGGGTCTGGATT CCATGCCCGCAGCAAGCTCATCTGGATCCTATACGATGCCATTAACTGTGCAGCAGTCCCCCCA GAACAGTACTATCCATGATGAGTTCATTGGCAGAAGCTATGTTGGCAGTCCTCATAAGATGCCC GGTAGTCCTCATAAGATGCCTGGTAGTCCTATTGACCGGTTTAGGATGGAAGCATTGCCACCAA GATTTGCCAAAAGGACACTGTCGGTTGCGCAAAACAAGTTGTCCCCCATGAAGAATCCTAATCA TATATCTAGCAGAAATGCTGCTGATATAATGGAGGCGGCGTCTAGGATTATAGGGGCTGGAGTT GAGGTTATTAGCCCTTACAGAGTTCGTGATGTTGGATATGCAAATACTGTTCGTGTATACAGCC AAAGAGAGATTGCGATAGTCCAACAAAGGCCACCAAGAATGAATGAAGCACTGAAGAAGCATGA TGGCTTGACATCTTATAGGCTACCAACTGGAAAGCCTTTGGATGGAAGTCTGAAAAGTTCAGGG AACACCTCTGCTTCTGTGGTCTCACAGTCAAATGGAGGTGCTCCAGTTGGCCCAAAGGTCAAGG CCAGCAGTCGATCATCACCAGATTCTAGAGCAACTAATGTTCAAGGAAGGGAAGATATAAGCAA GATTAGCAGAAAACTTGCAACTCGGGATCCTGAGCGGAGAATGGTTGAGAGAAATGGGATTAAC CAAGGGAAGAATAACAATCAAGTGGGCATGGCAAGTTCGTCCAATGTGCTTGTGCAAAATAACA GAAAGCAAAATGCTATGGTTAAGCACAAGGTGAATTCCAAGCCACCAACACCCAACCGGCAAAG AAGCAACACACATTCAATAAATGGCACTATGAGAAAGGTTGGGACTGCCGGCACACCGTCTGAA AACAATACTCAAGGTAACAGAAACGTGGAATTGCGGTCAACTGGCCATGCAAATAGAAGGCAAA ATTCTACAGCCAAATCAATCCCCAAGCCAGGAAGATTACCAGATGGGAGGATACATTCAGTGAA AACCCGTCCAAGTGATAAAGATATTGCTGACAGAAGCCAAAGGCGTGTTCGGCACAATATTGTA ATAGATGAGCAATCACCTTTTTCCATGAACAAGAAGAAAATTAGCACTGATATTGTTTCATTCA CATTCACCGCACCAGTTGATAAACCATTATCTGGTTATCGCCTACCCAATCATTTAGTGGAAAA ACAGTTTATGAAAAACGCGAGCTCAGTACCAAATTCAAGCGAGACATCGAGTGCTAAATTTGAT TCAATTGATGGTGATTATTTGGGTCTCCTTTTAGAGCAGAAGTTGAGAGAACTTACTTCTGGGG TTAGGTCACCCTACTGTAAGCCAGCCAAAGATGTTCGGATATATGCCCCATCATCAGTTCTGGA AGATTCACAATCAGCATGTGAAACATCGAGCATTGCATCTACTGATTATGATAGGGAGTCCGTC CAATCCTATAAGGATGGAAAAGGCAGTTTCACCCAGACAGATCTTGCATCAAAGAGTGGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013845 						
					
						PMCS
						0.14773234

Conservation Information
Conserved circRNAs	osi_circ_013845
PMCS	0.14773234

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34934977-34933150(+)
34933111-34933092(+)
34933607-34935104(-)
						
						Potential amino acid sequence
						
							MFGYMPHHQFWKIHNQHVKHRALHLLIMIGSPSNPIRMEKAVSPRQILHQRVVRFRGVKGNGCG
EAYFKGTWLL*(+)
MDVEKPTSKGHGFFSLFDWGKKSKKRLVSGNGSDSPAPRVSENFRESDGGTPSTRPNSFLEDAP
SLKESSEHSCSSSVVDDEALVRRGPTVVARLMGLDSMPAASSSGSYTMPLTVQQSPQNSTIHDE
FIGRSYVGSPHKMPGSPHKMPGSPIDRFRMEALPPRFAKRTLSVAQNKLSPMKNPNHISSRNAA
DIMEAASRIIGAGVEVISPYRVRDVGYANTVRVYSQREIAIVQQRPPRMNEALKKHDGLTSYRL
PTGKPLDGSLKSSGNTSASVVSQSNGGAPVGPKVKASSRSSPDSRATNVQGREDISKISRKLAT
RDPERRMVERNGINQGKNNNQVGMASSSNVLVQNNRKQNAMVKHKVNSKPPTPNRQRSNTHSIN
GTMRKVGTAGTPSENNTQGNRNVELRSTGHANRRQNSTAKSIPKPGRLPDGRIHSVKTRPSDKD
IADRSQRRVRHNIVIDEQSPFSMNKKKISTDIVSFTFTAPVDKPLSGYRLPNHLVEKQFMKNAS
SVPNSSETSSAKFDSIDGDYLGLLLEQKLRELTSGVRSPYCKPAKDVRIYAPSSVLEDSQSACE
TSSIASTDYDRESVQSYKDGKGSFTQTDLASKSGQV*(+)
MESRPISLATTVGPLLTRASSSTTEDEQLCSLLSFKLGASSRNEFGRVLGVPPSDSLKFSETLG
AGESLPFPLTSRFLDFLPQSNRLKKPCPFEVGFSTSISLYSPKPDHSLMQDLSG*(-)
						
						Sponge-miRNAs
						
							osa-miR1425-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34934977-34933150(+) 34933111-34933092(+) 34933607-34935104(-)
Potential amino acid sequence	MFGYMPHHQFWKIHNQHVKHRALHLLIMIGSPSNPIRMEKAVSPRQILHQRVVRFRGVKGNGCG EAYFKGTWLL(+) MDVEKPTSKGHGFFSLFDWGKKSKKRLVSGNGSDSPAPRVSENFRESDGGTPSTRPNSFLEDAP SLKESSEHSCSSSVVDDEALVRRGPTVVARLMGLDSMPAASSSGSYTMPLTVQQSPQNSTIHDE FIGRSYVGSPHKMPGSPHKMPGSPIDRFRMEALPPRFAKRTLSVAQNKLSPMKNPNHISSRNAA DIMEAASRIIGAGVEVISPYRVRDVGYANTVRVYSQREIAIVQQRPPRMNEALKKHDGLTSYRL PTGKPLDGSLKSSGNTSASVVSQSNGGAPVGPKVKASSRSSPDSRATNVQGREDISKISRKLAT RDPERRMVERNGINQGKNNNQVGMASSSNVLVQNNRKQNAMVKHKVNSKPPTPNRQRSNTHSIN GTMRKVGTAGTPSENNTQGNRNVELRSTGHANRRQNSTAKSIPKPGRLPDGRIHSVKTRPSDKD IADRSQRRVRHNIVIDEQSPFSMNKKKISTDIVSFTFTAPVDKPLSGYRLPNHLVEKQFMKNAS SVPNSSETSSAKFDSIDGDYLGLLLEQKLRELTSGVRSPYCKPAKDVRIYAPSSVLEDSQSACE TSSIASTDYDRESVQSYKDGKGSFTQTDLASKSGQV(+) MESRPISLATTVGPLLTRASSSTTEDEQLCSLLSFKLGASSRNEFGRVLGVPPSDSLKFSETLG AGESLPFPLTSRFLDFLPQSNRLKKPCPFEVGFSTSISLYSPKPDHSLMQDLSG*(-)
Sponge-miRNAs	osa-miR1425-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0831700_circ_g.1

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