Plant Circular RNA Database

Detail information of Os03g0387900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0387900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_020111
					
						Alias
						Os_ciR3821
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 15468928-15471076  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0387900						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0387900-01);Conserved hypo
thetical protein. (Os03t0387900-02);Conserved hypothetical prote
in. (Os03t0387900-03);Hypothetical conserved gene. (Os03t0387900
-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0387900_circ_g.2 Os03g0387900_circ_g.3 Os03g0387900_circ_g.4 Os03g0387900_circ_g.5 Os03g0387900_circ_g.6 Os03g0387900_circ_g.7 Os03g0387900_circ_g.8 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot
					
						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
						Os03t0387900-03:4
Os03t0387900-04:2
Os03t0387900-01:4
Os03t0387900-02:4

General Information
CircRNA Name	Os03g0387900_circ_g.1
ID in PlantcircBase	osa_circ_020111
Alias	Os_ciR3821
Organism	Oryza sativa
Position	chr3: 15468928-15471076 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0387900
Parent gene annotation	Conserved hypothetical protein. (Os03t0387900-01);Conserved hypo thetical protein. (Os03t0387900-02);Conserved hypothetical prote in. (Os03t0387900-03);Hypothetical conserved gene. (Os03t0387900 -04)
Parent gene strand	+
Alternative splicing	Os03g0387900_circ_g.2 Os03g0387900_circ_g.3 Os03g0387900_circ_g.4 Os03g0387900_circ_g.5 Os03g0387900_circ_g.6 Os03g0387900_circ_g.7 Os03g0387900_circ_g.8
Support reads	2/1
Tissues	root/shoot
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	Os03t0387900-03:4 Os03t0387900-04:2 Os03t0387900-01:4 Os03t0387900-02:4

			
						 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  
						
							CCTTTTTCTTCTTTTTTTTTTACCATAGGCTTACCAAAGGGATGCGATGGAATTGTTGTCCAGC
GACCAGATATGCACTGGGCAGGAAAACCTAGATATGgattgatcaagaactggggatcctgagt
tgaatatgatatcaaatccggtgaattggtacagtttcggtcccggatagaatttgtagtgatg
ccagattg

									
								

					

						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
						
							GATTGATCAAGAACTGGGGATCCTGAGTTGAATATGATATCAAATCCGGTGAATTGGTACAGTT
TCGGTCCCGGATAGAATTTGTAGTGATGCCAGATTGGAGGGTGGGCGAGGTAATCTCTTTTTTT
TTTCAATAAGAAAATTAATCATTTTCTTGCCTTCTTGATTGTATATGGGCATATGGCATGGTGA
TAATTCTTATATGATTGATCTAGCTCAGGAAGAAAATTCAAAACATTAAGGTAAATTACAGTGG
ATATTTCTGGCATGAAGTAAAACAAAAATGAAAAGAGAATACGTCTAGGGAATTATACTCGGTT
CTCTTTTGAGGAATATGGACTTCCAAGTGGTACATGTCGAGAAATTAGTCTGCTCAGTTTCTTT
ATTCCCCTTTTAGTCTGCCAAATTGGTTTTACTAATCCTGGTAGAAATAGAATACTGTATATAT
GCTGACATCTGTTGTACATCGAATATACCAGTATATTCTGAGTTAAAGCTAATTTTGGATTCAA
CAGTAACTAATGGTTTTACTTGAAGTCTTTTCCCTGTTATTGGTTAACTTAAATTGTTTACTGT
TAGGTGTCAATTAGCTTTTCTTTTGTTGATAAGCTGGTGATCCAAAGAAAAGAGGACATGTGGA
TCTCGTGTAACAATTCTCTTTGTTAAGTGTTAATTTTCATTTGCATCCAAGTGTGCTAGCCACC
CAAGTAGAGCTGAAATTCTTTTTGTCATGGATAGATGAGTGCTGTTAGTGGGATAGATAGCCCC
TCGTCAAAGGTACCAAGTGTCAATCAGGGGATAGTTCTATTTGGTTGAAGCAGAGTTGACAAGT
AATATAATACAATTGGTGTTTGATTAGCGTATACCCTTCACTCCTACAGAAATAGTGAGTTAAA
TTCGTAGGCAAAGATAGGGCAATCCTACTAGGCAATCCAACCAGATATTGAATTCTGTCATGGA
TCAAACCTAGTCTATATTGAATTCCGCCAGGAATCAAACCCAGTCAATCATTTTTGTTGCATTG
AACCTTGGATGCTCTCTTGTTTCTCTTATCATTGCACTGATTTTTCATGTATTAGCCCCATGAC
ATGTAGACTTTAGTCCTTTTTCCCCTTTCAAATACATAACATGTAGCTTCTTCAGTTTGAAGGT
AAGCTCAAGGATGGATTTGCTCGGAGCAATAATAGCGAACATGAAAATGGAGCCGGGACTGTGA
GTATATCCAGCAAGAAGTCGAAGCATCGGGTTGACAGTGAAAAAAAACCCCATGTTGACATCTC
TGGAGTGATTGATTCAGATTCGCAGAAATGTAATTCAGAGCAAATCCATTCAGCTAATGGGATA
GTATCCCGGGATGTCAACCATGATCACATAGAAAACTGCAAAGTTGAATCAAATGATTTTCCCT
TGAATACTATCTCTGAAACAAGATATCCAACAGACAATTGGAACAGTTCTCAGTTTGCTCTGAG
CAATGATGGTTCACCTGTTCTCAATAATCAGAGTACTCCACAAACTGGTCATGGCTATGGAGAT
AATGATCTAACCTACATTGATTGGCCTGCTATTGATAATTTTGAGGACGTCGACAACTTATTCA
GGTATTCAGAATGTTTCCCTTGCTAGCTTCTAAAGTCTTGAGACAGATTAACTTTAATTGGTAG
TAAAAACACAATGCTATCCTTCTAATATACATTGTTTTCCTGGAAGGAGGTGTGATTCCACGTA
CGGTCAGCAGCAACTTCCGAACACGGATGAACTGTCATGGATTCCTTCTTCAGATGCCATGTAC
TCTTCTGATGTTGCTATGCAACCAGGGTTTGAATCCTCGTATTCTGATTATGGTATCCTGGATG
ACCTCTCCGCATTCAATTGTACGGAAGATAAATCCCTGACAACAGCTGATCCTTCAAGTGCTGT
ATGTGACGAGCAATTCGATGACTCTTATCTGTTCAATGAGCAAAAACCTGAAGATGTTTATGGC
GAACAGGCAAGTAGAATGATTGCTAGGTTGAATTAACTGGCACAAAGCATTATGCTTTTTTCAT
TCCTTTTTCTTCTTTTTTTTTTACCATAGGCTTACCAAAGGGATGCGATGGAATTGTTGTCCAG
CGACCAGATATGCACTGGGCAGGAAAACCTAGATATG
						
					

			
		

Sequences
Splice junction sequence	CCTTTTTCTTCTTTTTTTTTTACCATAGGCTTACCAAAGGGATGCGATGGAATTGTTGTCCAGC GACCAGATATGCACTGGGCAGGAAAACCTAGATATGgattgatcaagaactggggatcctgagt tgaatatgatatcaaatccggtgaattggtacagtttcggtcccggatagaatttgtagtgatg ccagattg
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	GATTGATCAAGAACTGGGGATCCTGAGTTGAATATGATATCAAATCCGGTGAATTGGTACAGTT TCGGTCCCGGATAGAATTTGTAGTGATGCCAGATTGGAGGGTGGGCGAGGTAATCTCTTTTTTT TTTCAATAAGAAAATTAATCATTTTCTTGCCTTCTTGATTGTATATGGGCATATGGCATGGTGA TAATTCTTATATGATTGATCTAGCTCAGGAAGAAAATTCAAAACATTAAGGTAAATTACAGTGG ATATTTCTGGCATGAAGTAAAACAAAAATGAAAAGAGAATACGTCTAGGGAATTATACTCGGTT CTCTTTTGAGGAATATGGACTTCCAAGTGGTACATGTCGAGAAATTAGTCTGCTCAGTTTCTTT ATTCCCCTTTTAGTCTGCCAAATTGGTTTTACTAATCCTGGTAGAAATAGAATACTGTATATAT GCTGACATCTGTTGTACATCGAATATACCAGTATATTCTGAGTTAAAGCTAATTTTGGATTCAA CAGTAACTAATGGTTTTACTTGAAGTCTTTTCCCTGTTATTGGTTAACTTAAATTGTTTACTGT TAGGTGTCAATTAGCTTTTCTTTTGTTGATAAGCTGGTGATCCAAAGAAAAGAGGACATGTGGA TCTCGTGTAACAATTCTCTTTGTTAAGTGTTAATTTTCATTTGCATCCAAGTGTGCTAGCCACC CAAGTAGAGCTGAAATTCTTTTTGTCATGGATAGATGAGTGCTGTTAGTGGGATAGATAGCCCC TCGTCAAAGGTACCAAGTGTCAATCAGGGGATAGTTCTATTTGGTTGAAGCAGAGTTGACAAGT AATATAATACAATTGGTGTTTGATTAGCGTATACCCTTCACTCCTACAGAAATAGTGAGTTAAA TTCGTAGGCAAAGATAGGGCAATCCTACTAGGCAATCCAACCAGATATTGAATTCTGTCATGGA TCAAACCTAGTCTATATTGAATTCCGCCAGGAATCAAACCCAGTCAATCATTTTTGTTGCATTG AACCTTGGATGCTCTCTTGTTTCTCTTATCATTGCACTGATTTTTCATGTATTAGCCCCATGAC ATGTAGACTTTAGTCCTTTTTCCCCTTTCAAATACATAACATGTAGCTTCTTCAGTTTGAAGGT AAGCTCAAGGATGGATTTGCTCGGAGCAATAATAGCGAACATGAAAATGGAGCCGGGACTGTGA GTATATCCAGCAAGAAGTCGAAGCATCGGGTTGACAGTGAAAAAAAACCCCATGTTGACATCTC TGGAGTGATTGATTCAGATTCGCAGAAATGTAATTCAGAGCAAATCCATTCAGCTAATGGGATA GTATCCCGGGATGTCAACCATGATCACATAGAAAACTGCAAAGTTGAATCAAATGATTTTCCCT TGAATACTATCTCTGAAACAAGATATCCAACAGACAATTGGAACAGTTCTCAGTTTGCTCTGAG CAATGATGGTTCACCTGTTCTCAATAATCAGAGTACTCCACAAACTGGTCATGGCTATGGAGAT AATGATCTAACCTACATTGATTGGCCTGCTATTGATAATTTTGAGGACGTCGACAACTTATTCA GGTATTCAGAATGTTTCCCTTGCTAGCTTCTAAAGTCTTGAGACAGATTAACTTTAATTGGTAG TAAAAACACAATGCTATCCTTCTAATATACATTGTTTTCCTGGAAGGAGGTGTGATTCCACGTA CGGTCAGCAGCAACTTCCGAACACGGATGAACTGTCATGGATTCCTTCTTCAGATGCCATGTAC TCTTCTGATGTTGCTATGCAACCAGGGTTTGAATCCTCGTATTCTGATTATGGTATCCTGGATG ACCTCTCCGCATTCAATTGTACGGAAGATAAATCCCTGACAACAGCTGATCCTTCAAGTGCTGT ATGTGACGAGCAATTCGATGACTCTTATCTGTTCAATGAGCAAAAACCTGAAGATGTTTATGGC GAACAGGCAAGTAGAATGATTGCTAGGTTGAATTAACTGGCACAAAGCATTATGCTTTTTTCAT TCCTTTTTCTTCTTTTTTTTTTACCATAGGCTTACCAAAGGGATGCGATGGAATTGTTGTCCAG CGACCAGATATGCACTGGGCAGGAAAACCTAGATATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.109677563

Conservation Information
Conserved circRNAs	NA
PMCS	0.109677563

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15469018-15468930(+)
15470198-15471009(-)
15470206-15470882(-)
						
						Potential amino acid sequence
						
							MPDWRVGEFEGKLKDGFARSNNSEHENGAGTVSISSKKSKHRVDSEKKPHVDISGVIDSDSQKC
NSEQIHSANGIVSRDVNHDHIENCKVESNDFPLNTISETRYPTDNWNSSQFALSNDGSPVLNNQ
STPQTGHGYGDNDLTYIDWPAIDNFEDVDNLFRRCDSTYGQQQLPNTDELSWIPSSDAMYSSDV
AMQPGFESSYSDYGILDDLSAFNCTEDKSLTTADPSSAVCDEQFDDSYLFNEQKPEDVYGEQAY
QRDAMELLSSDQICTGQENLDMD*(+)
MGFFFTVNPMLRLLAGYTHSPGSIFMFAIIAPSKSILELTFKLAHPPIWHHYKFYPGPKLYQFT
GFDIIFNSGSPVLDQSISRFSCPVHIWSLDNNSIASLW*(-)
MSTWGFFSLSTRCFDFLLDILTVPAPFSCSLLLLRANPSLSLPSNSPTLQSGITTNSIRDRNCT
NSPDLISYSTQDPQFLINPYLGFPAQCISGRWTTIPSHPFGKPVRHKHLQVFAH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15469018-15468930(+) 15470198-15471009(-) 15470206-15470882(-)
Potential amino acid sequence	MPDWRVGEFEGKLKDGFARSNNSEHENGAGTVSISSKKSKHRVDSEKKPHVDISGVIDSDSQKC NSEQIHSANGIVSRDVNHDHIENCKVESNDFPLNTISETRYPTDNWNSSQFALSNDGSPVLNNQ STPQTGHGYGDNDLTYIDWPAIDNFEDVDNLFRRCDSTYGQQQLPNTDELSWIPSSDAMYSSDV AMQPGFESSYSDYGILDDLSAFNCTEDKSLTTADPSSAVCDEQFDDSYLFNEQKPEDVYGEQAY QRDAMELLSSDQICTGQENLDMD(+) MGFFFTVNPMLRLLAGYTHSPGSIFMFAIIAPSKSILELTFKLAHPPIWHHYKFYPGPKLYQFT GFDIIFNSGSPVLDQSISRFSCPVHIWSLDNNSIASLW(-) MSTWGFFSLSTRCFDFLLDILTVPAPFSCSLLLLRANPSLSLPSNSPTLQSGITTNSIRDRNCT NSPDLISYSTQDPQFLINPYLGFPAQCISGRWTTIPSHPFGKPVRHKHLQVFAH*(-)
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 Os03g0387900_circ_g.1

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