Plant Circular RNA Database

Detail information of Os02g0558600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0558600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_015057
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 21177059-21178783  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0558600						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os02t0558600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0558600_circ_g.2 Os02g0558600_circ_g.3 Os02g0558600_circ_g.5 Os02g0558600_circ_g.6 Os02g0558600_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os02t0558600-01:2

General Information
CircRNA Name	Os02g0558600_circ_g.4
ID in PlantcircBase	osa_circ_015057
Alias	NA
Organism	Oryza sativa
Position	chr2: 21177059-21178783 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0558600
Parent gene annotation	Conserved hypothetical protein. (Os02t0558600-01)
Parent gene strand	-
Alternative splicing	Os02g0558600_circ_g.2 Os02g0558600_circ_g.3 Os02g0558600_circ_g.5 Os02g0558600_circ_g.6 Os02g0558600_circ_g.7
Support reads	1
Tissues	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	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	Os02t0558600-01:2

			
						 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  
						
							GGTCGAATACCGACCTTTTCTCCCATGACAAGGACTCTGCAGCAAACCTACCGAATGATACCGA
GCCATGATCAAGTACCATTTGCTGAACTGAAGCATCctgagtagtatgtaaggtacttgccctt
tgagatgaattgggcatcaccgagtgtttagggtgactagtaacaaacttctgagtagtactat
tgctgaga

									
								

					

						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
						
							CTGAGTAGTATGTAAGGTACTTGCCCTTTGAGATGAATTGGGCATCACCGAGTGTTTAGGGTGA
CTAGTAACAAACTTCTGAGTAGTACTATTGCTGAGAGCAACATGAGAGACATGTGATCCTTTGT
TGACAGCTGCACGAGGAAGGGAAACTGCACCATGTGGTTCTCTAAGAGATCGACGAGAAGCTTG
TTGTGCTGATTTAGAAGACGCATGAACTCTATCAGCATTCTGACCCAATGCAGATCTGGAAGAT
GTCGCAACTCTATCACCATTTTGATATGTAGAAGATCTACATGATGTCATAGAAGATCTAGAAG
ATGTCACAGCTCTTTCAGCATGCTGATGAAAAACTGATCTAGAAGATGCTGTTGCTTTATCAGC
ATTCATCCTATCAGATAGAGCACGCAATTTCATCTCGACTCTTTTGTGGAATGGATCCTTCAAC
TCTAAAGAGTTCCTGTTCTCTGAATTTCTTATTGAATCAATCCTTGGGATGTGGATAACAGAAG
TTGATGGTTCCTGAGAAGATGCAAACAAGAACAGGTAAAGGTGAAATCAGATTCCAAAGTTAAG
TTTGAAGTAACATCATTAAATCAATCAACATACAGGTTAAATCTATGCTATAATAATTTTCTTC
TGTACTTCTTGAAGCGGTTTTGCTCATTCACACATTTGATTTGAGGTTGTACGGAACAAAGCAT
ATTAAGTTTGGAAGGCAATGTATTTGAAGTAAGAAGAGAAGACAAACTAAAATATCCATGAACA
CTATCAGTATCTTCGATGCACGAAAAATTCTAATCTACAGAAGTTTTTTTTTAACCTTGTGATG
AAGTTTGTTTACTTCTATTTTGATTCTTTAGATTTCAAAGCATCTATGACAGAAGCAACTAGAA
AAGCAGTACTGTTCTAATATATCTTGTCAGTAATTCTCCCATAATGGACATATAGCTCCATCAT
TGTGAAGTATTATTCAATTACCTTGGAACTCTTTGTTGGCATACTACTGATTAGAGCATTCTTC
CTTGGTTCCTGCCTCTCAAGATCAATTTTCAGATGTTCCCGTTGCAGACTTGCTATTGGCAAGG
CAATCCTTGACACGGCAACATTTTCTCCATTATCATTTGACACAATATGCTTTGGTGCAAGAAC
CTTTCTCTCCAAAGGTTCATGGTTGAGTACATCTCTGGTATTTGTGTGTGTGGCACATGGAAAA
TCTCCTTCAGCGTGATGCATTTGATCAGAGACAGGACCCTCCAGCTGAATATTTTGCGATCCTG
TTATCTGAGAAAACAAAGGATTAAATGTCAAGTACCCTAGCCCATGAGGGTCTTGGCATTTCTT
TTCTCCTGATGAGCTCACTCCAGTGGAAGGTTCAAAACTAGAGCTTGGAGCGCTAGCCACTGGA
TCTTCAGAACTAACTGCAGGTAATTTATGTTCATGGATGTTATGGCCATTAGCATCATAGTGAT
CAGTCCCCTCTTCCGATGTGGCTTCAGTCTGGTTGACCTCCTCCTGAGCCTTCAAAAGCCTGGC
CCTCTTGTAATATTCTTCAAAGAATGCCTTCTTTTGTGCAACCAAACCAGGCATTGTGAGATTG
CTTAGCTCCTCTTGACGTCTGTTATGGTCGAATACCGACCTTTTCTCCCATGACAAGGACTCTG
CAGCAAACCTACCGAATGATACCGAGCCATGATCAAGTACCATTTGCTGAACTGAAGCATC
						
					

			
		

Sequences
Splice junction sequence	GGTCGAATACCGACCTTTTCTCCCATGACAAGGACTCTGCAGCAAACCTACCGAATGATACCGA GCCATGATCAAGTACCATTTGCTGAACTGAAGCATCctgagtagtatgtaaggtacttgccctt tgagatgaattgggcatcaccgagtgtttagggtgactagtaacaaacttctgagtagtactat tgctgaga
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	CTGAGTAGTATGTAAGGTACTTGCCCTTTGAGATGAATTGGGCATCACCGAGTGTTTAGGGTGA CTAGTAACAAACTTCTGAGTAGTACTATTGCTGAGAGCAACATGAGAGACATGTGATCCTTTGT TGACAGCTGCACGAGGAAGGGAAACTGCACCATGTGGTTCTCTAAGAGATCGACGAGAAGCTTG TTGTGCTGATTTAGAAGACGCATGAACTCTATCAGCATTCTGACCCAATGCAGATCTGGAAGAT GTCGCAACTCTATCACCATTTTGATATGTAGAAGATCTACATGATGTCATAGAAGATCTAGAAG ATGTCACAGCTCTTTCAGCATGCTGATGAAAAACTGATCTAGAAGATGCTGTTGCTTTATCAGC ATTCATCCTATCAGATAGAGCACGCAATTTCATCTCGACTCTTTTGTGGAATGGATCCTTCAAC TCTAAAGAGTTCCTGTTCTCTGAATTTCTTATTGAATCAATCCTTGGGATGTGGATAACAGAAG TTGATGGTTCCTGAGAAGATGCAAACAAGAACAGGTAAAGGTGAAATCAGATTCCAAAGTTAAG TTTGAAGTAACATCATTAAATCAATCAACATACAGGTTAAATCTATGCTATAATAATTTTCTTC TGTACTTCTTGAAGCGGTTTTGCTCATTCACACATTTGATTTGAGGTTGTACGGAACAAAGCAT ATTAAGTTTGGAAGGCAATGTATTTGAAGTAAGAAGAGAAGACAAACTAAAATATCCATGAACA CTATCAGTATCTTCGATGCACGAAAAATTCTAATCTACAGAAGTTTTTTTTTAACCTTGTGATG AAGTTTGTTTACTTCTATTTTGATTCTTTAGATTTCAAAGCATCTATGACAGAAGCAACTAGAA AAGCAGTACTGTTCTAATATATCTTGTCAGTAATTCTCCCATAATGGACATATAGCTCCATCAT TGTGAAGTATTATTCAATTACCTTGGAACTCTTTGTTGGCATACTACTGATTAGAGCATTCTTC CTTGGTTCCTGCCTCTCAAGATCAATTTTCAGATGTTCCCGTTGCAGACTTGCTATTGGCAAGG CAATCCTTGACACGGCAACATTTTCTCCATTATCATTTGACACAATATGCTTTGGTGCAAGAAC CTTTCTCTCCAAAGGTTCATGGTTGAGTACATCTCTGGTATTTGTGTGTGTGGCACATGGAAAA TCTCCTTCAGCGTGATGCATTTGATCAGAGACAGGACCCTCCAGCTGAATATTTTGCGATCCTG TTATCTGAGAAAACAAAGGATTAAATGTCAAGTACCCTAGCCCATGAGGGTCTTGGCATTTCTT TTCTCCTGATGAGCTCACTCCAGTGGAAGGTTCAAAACTAGAGCTTGGAGCGCTAGCCACTGGA TCTTCAGAACTAACTGCAGGTAATTTATGTTCATGGATGTTATGGCCATTAGCATCATAGTGAT CAGTCCCCTCTTCCGATGTGGCTTCAGTCTGGTTGACCTCCTCCTGAGCCTTCAAAAGCCTGGC CCTCTTGTAATATTCTTCAAAGAATGCCTTCTTTTGTGCAACCAAACCAGGCATTGTGAGATTG CTTAGCTCCTCTTGACGTCTGTTATGGTCGAATACCGACCTTTTCTCCCATGACAAGGACTCTG CAGCAAACCTACCGAATGATACCGAGCCATGATCAAGTACCATTTGCTGAACTGAAGCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.125669903

Conservation Information
Conserved circRNAs	NA
PMCS	0.125669903

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21178709-21177063(+)
21178767-21177061(-)
						
					

						Potential amino acid sequence
						
							MTRTLQQTYRMIPSHDQVPFAELKHPE*(+)
MVLDHGSVSFGRFAAESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQ
EEVNQTEATSEEGTDHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPH
GLGYLTFNPLFSQITGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHI
VSNDNGENVAVSRIALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDS
IRNSENRNSLELKDPFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRS
STYQNGDRVATSSRSALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVAL
SNSTTQKFVTSHPKHSVMPNSSQRASTLHTTQDASVQQMVLDHGSVSFGRFAAESLSWEKRSVF
DHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQEEVNQTEATSEEGTDHYDANGHNIHE
HKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPHGLGYLTFNPLFSQITGSQNIQLEGPV
SDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHIVSNDNGENVAVSRIALPIASLQREHL
KIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDSIRNSENRNSLELKDPFHKRVEMKLRA
LSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRSSTYQNGDRVATSSRSALGQNADRVHA
SSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVALSNSTTQKFVTSHPKHSVMPNSSQRAS
TLHTTQDASVQQMVLDHGSVSFGRFAAESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFE
EYYKRARLLKAQEEVNQTEATSEEGTDHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGV
SSSGEKKCQDPHGLGYLTFNPLFSQITGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHE
PLERKVLAPKHIVSNDNGENVAVSRIALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEP
STSVIHIPRIDSIRNSENRNSLELKDPFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAV
TSSRSSMTSCRSSTYQNGDRVATSSRSALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAA
VNKGSHVSHVALSNSTTQKFVTSHPKHSVMPNSSQRASTLHTTQDASVQQMVLDHGSVSFGRFA
AESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQEEVNQTEATSEEGT
DHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPHGLGYLTFNPLFSQI
TGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHIVSNDNGENVAVSRI
ALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDSIRNSENRNSLELKD
PFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRSSTYQNGDRVATSSR
SALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVALSNSTTQKFVTSHPK
HSVMPNSSQRASTLHTTQ(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21178709-21177063(+) 21178767-21177061(-)
Potential amino acid sequence	MTRTLQQTYRMIPSHDQVPFAELKHPE*(+) MVLDHGSVSFGRFAAESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQ EEVNQTEATSEEGTDHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPH GLGYLTFNPLFSQITGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHI VSNDNGENVAVSRIALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDS IRNSENRNSLELKDPFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRS STYQNGDRVATSSRSALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVAL SNSTTQKFVTSHPKHSVMPNSSQRASTLHTTQDASVQQMVLDHGSVSFGRFAAESLSWEKRSVF DHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQEEVNQTEATSEEGTDHYDANGHNIHE HKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPHGLGYLTFNPLFSQITGSQNIQLEGPV SDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHIVSNDNGENVAVSRIALPIASLQREHL KIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDSIRNSENRNSLELKDPFHKRVEMKLRA LSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRSSTYQNGDRVATSSRSALGQNADRVHA SSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVALSNSTTQKFVTSHPKHSVMPNSSQRAS TLHTTQDASVQQMVLDHGSVSFGRFAAESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFE EYYKRARLLKAQEEVNQTEATSEEGTDHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGV SSSGEKKCQDPHGLGYLTFNPLFSQITGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHE PLERKVLAPKHIVSNDNGENVAVSRIALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEP STSVIHIPRIDSIRNSENRNSLELKDPFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAV TSSRSSMTSCRSSTYQNGDRVATSSRSALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAA VNKGSHVSHVALSNSTTQKFVTSHPKHSVMPNSSQRASTLHTTQDASVQQMVLDHGSVSFGRFA AESLSWEKRSVFDHNRRQEELSNLTMPGLVAQKKAFFEEYYKRARLLKAQEEVNQTEATSEEGT DHYDANGHNIHEHKLPAVSSEDPVASAPSSSFEPSTGVSSSGEKKCQDPHGLGYLTFNPLFSQI TGSQNIQLEGPVSDQMHHAEGDFPCATHTNTRDVLNHEPLERKVLAPKHIVSNDNGENVAVSRI ALPIASLQREHLKIDLERQEPRKNALISSMPTKSSKEPSTSVIHIPRIDSIRNSENRNSLELKD PFHKRVEMKLRALSDRMNADKATASSRSVFHQHAERAVTSSRSSMTSCRSSTYQNGDRVATSSR SALGQNADRVHASSKSAQQASRRSLREPHGAVSLPRAAVNKGSHVSHVALSNSTTQKFVTSHPK HSVMPNSSQRASTLHTTQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0558600_circ_g.4

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