Plant Circular RNA Database

Detail information of Os03g0711300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0711300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_021237
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 28710966-28714200  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0711300						
					
						Parent gene annotation
						
							Serine/threonine protein kinase domain containing protein. (Os03
t0711300-01);Similar to Protein kinase. (Os03t0711300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0711300_circ_g.1 Os03g0711300_circ_g.2 Os03g0711300_circ_g.4 						
					
						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
						Os03t0711300-01:6
Os03t0711300-02:6

General Information
CircRNA Name	Os03g0711300_circ_g.3
ID in PlantcircBase	osa_circ_021237
Alias	NA
Organism	Oryza sativa
Position	chr3: 28710966-28714200 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0711300
Parent gene annotation	Serine/threonine protein kinase domain containing protein. (Os03 t0711300-01);Similar to Protein kinase. (Os03t0711300-02)
Parent gene strand	-
Alternative splicing	Os03g0711300_circ_g.1 Os03g0711300_circ_g.2 Os03g0711300_circ_g.4
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	Os03t0711300-01:6 Os03t0711300-02:6

			
						 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  
						
							CATAACATAATGTGAGCTATCTTACCACTTTGCCATAGCTTCCAGAACCAATCTTCCCCAGGTG
GACATATTGGTTGACCATCTTGCTGCCATTTTCATCctcaaaaatctgactaacactgaaatcc
cctatcttcacactgccagtgcttgtgaccaacaaattgtctggtttgatatcaccatgaataa
tattctgc

									
								

					

						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
						
							CTCAAAAATCTGACTAACACTGAAATCCCCTATCTTCACACTGCCAGTGCTTGTGACCAACAAA
TTGTCTGGTTTGATATCACCATGAATAATATTCTGCGTATAATGACAGGAAGCATTCAGTGACA
TGATGAGTTAGGAAGCACATAACACAGTGCAGACTGCATAACGTAGATAAATGTGTGACTAGAG
CAACATGTATCTGATTATAATATAGAAGTATGTACAAATTGGGGAAATAGAAACATCAACAAGG
ACCAACTTAAGAAGTAATGAATTGCCAGATGTTAAGGAATCAAGTAACATGTTACCAAGATACA
TTATGCACATAAGAGCATGGATAAATTAAGATTTCTTATATGCATATCACTGTCCTAATCAGTG
TTCTAAAAGTCGTCTCTAGGCGCCGGGTAGCCGCCGCCATTAGGCATTCGATGGTGTATTAGGC
AGCTGAGCTAACTTGGCTAGTGTTTTTTTTTTTTTTGCTATTTTAGTGTTATATAGTCTAATTT
CTATGCAATATGCGTGCTATTTTTTTGGATTTGACTAGTTGACCTGACCTAGGCGCCGCCTTGG
CGCCAATTAGGCACTAGGCGCCCCCCAGCCACCCAACTAGCGCCTAGTGCTTTCTTGAACCATG
GTCCTAATGATTGAAGTTTAACTAGTATCATATTTCTAGCTAAATTTAACCATGGTCCTAATGA
ACTCAATTTCCAATACAATCAAACAATGGATAAGAGAAGAAATGTGTGTGTAGGCACAAATAAT
CCTAATCTAGAACTAAAATGGGATTTAATATTTTCTTTATGAAACCATAACCATTCAAATAGTA
CCACTTAGCTGGGCCCAAAAAAGTTGGCATATGCAAATGCAATAATTACCTCAAAGACAGAAAG
TTAAGTAGCTAAAGGAACAAGGAAAGTAACATGCAATTAGAACTTCAGCCTACAAGCATAGACT
AAGACTATAGTACAAATAACGATAACTTAACAGTGGATCTCAACCTCTGCTCAACCTGGTCACC
GATTTAACCAAGTTTAAGCAAGACTTTTTTAGAAAATGTGGAAGTTAAAATATGTTGCTTGCAT
TAATCTGCACAATACAAACTTGAAGCTGCTTAAATATATTTGTACAGAGAAACTATCATTATAT
GACCAGTTGATATGACTGCTAGTGGAACACACTGGCAAATTTGAATTTCCTTTGATATGACCAG
TTGATATGACTGCTAGTGGATCAAACTATTCATGGTACCATGAATAGTTTGATCCATATACAAT
TGGTGTTTATAGGCTGTAGATTCTGATATATGGCATGGCGTTCACCACAATTTAACAGATCTTT
TAGTGAAGGAAATTTGAATCTTACATGAGAATGAAGATACATAACACCAGAGATTATGTCGCGC
AAGTAATTTCTGGAGGTAGCTTCTCCTAAACCATTGTCACAGACCATTTTTCCTTCAACATACT
CAAGAACTGGCAATACCAATGGACAATGTTAGGTAGAATAATATGGAGAATTAAATAAAGATGC
TCAAAAGTTAGCAAGAAAAATCTCATGCTACAATTAAACAAAAGGAAACTATTTTTTTTAAAAA
AAATGAGAATGTCATTACATACCCATGTAGAATTTATCTGCATTTGGGTCATCAATCACTTCAA
TGAGATTTACTATATTAGGATGATCCAACATTTTCATGATGGATACCTGTCACCAATACAAAAG
GTGATGCTGTCAGATAATTGAGACGTTAAACAGTACATAGAGATTCTTTAAGCAAGCAAAGTTT
ATTCCAGTTATTTTATTGTGTTCATGTCCTGAACAGAGCAAAATCAGTGAGCACACTCAACTTG
TATCAACTCAACTTGGGTATTGGGCTCAGGGCCAAGGCCCTAGGCCAAGGAGGAGGAAGAGGTG
CACATGGACATGTCCAGTATCGCATGGTTATTGTTCACATGGGTGTATAGAATAGATTGATTTG
CTAGCTATTTATAAAATCTTAGAGATAAACTCCTTCAAGGTCAAGCCATCCTATTTAAATAAGG
ATGGGCTGTATGTCCATTCGTTAATAGTCTCTCCCTAATGTTCATCATCTAAGTCTAAGTTCTC
TCCTCATCTGCAGCAACCATCGCCGCCCCAGCTATCCTCTGGTGGTGTTTACCCACCATGATTT
CGGACCATGACAACTTGGTTACTATGTATGTGGTTGGCCCGATAGTGTCAGTGTTATGGTAGCG
ATGCATCCTCAAAGTGCACACAACCAAGGTTATCATACCAAGCCCAGCCCAATAGTTTGACCAA
AAAGGACCTGAAGTGAGCCTCCCGGTAGACTGTTTTTCCTTAGACAATTCTATAATCATCCATT
TCGATCAGGAGAAACCATGTTTGAACTGGCTAGTTTAAGAGTGAACAAGTCAACATGAGCCAGA
CGATAAACCCAGCTTAAGAAATAGCCAAAAATAATGCACAATGCATTGTGCATGAACTAAGTGG
GCTTGTTGGTTTGTTATTTATTGTACTGAGAAACTTATGTAAGTCCATATTGAGTGCAAGAGCT
ATGCTAATTATATCACCACATTTACATATTACCCATTTAAATAGAATGTGCAGACACTGACCCA
AATCCTAACTGGGTCAAGGGCTGAATGGGCAGCACTACTTTTCCAGAGCACTTAAGTCGTGTCA
TGACAAAAAAGAAAAAAAAACATGTATTACAATCACAAGTAAACTGAGAAAGTTACTCACTTCC
CGAAGAACATCTGTCATGGCAGTTTCTGATCGCACAACACGTACTTTCATCATGTAAGATTTAT
TCAAAACCTACAATAGAAGGGCAAAGGCTACAGTTCCATCAGTTAGATGCAGACACTGTGCACG
CAACATAAATTTAACCTTGTAACCATAAGAATAATGGTGCTGAACGAGTAAAACCAACTACTCA
GACTAGCAGCTAGTTATTAATGAGTTCAGATGCAAGAAATAAAAATTAGTAACTAACATAAAGA
AATCAGCACATAAGGACAGCGAAAAACCCTACCTTCACTGCGTAAAGCTTTCCATCTTTCATGC
TTCGGTATAAGACCTTTAAGCCAAAAAAAAAAAGATTTAGACATTTACCGTGGGAAGTCACTTC
ATAACATAATGTGAGCTATCTTACCACTTTGCCATAGCTTCCAGAACCAATCTTCCCCAGGTGG
ACATATTGGTTGACCATCTTGCTGCCATTTTCATC
						
					

			
		

Sequences
Splice junction sequence	CATAACATAATGTGAGCTATCTTACCACTTTGCCATAGCTTCCAGAACCAATCTTCCCCAGGTG GACATATTGGTTGACCATCTTGCTGCCATTTTCATCctcaaaaatctgactaacactgaaatcc cctatcttcacactgccagtgcttgtgaccaacaaattgtctggtttgatatcaccatgaataa tattctgc
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	CTCAAAAATCTGACTAACACTGAAATCCCCTATCTTCACACTGCCAGTGCTTGTGACCAACAAA TTGTCTGGTTTGATATCACCATGAATAATATTCTGCGTATAATGACAGGAAGCATTCAGTGACA TGATGAGTTAGGAAGCACATAACACAGTGCAGACTGCATAACGTAGATAAATGTGTGACTAGAG CAACATGTATCTGATTATAATATAGAAGTATGTACAAATTGGGGAAATAGAAACATCAACAAGG ACCAACTTAAGAAGTAATGAATTGCCAGATGTTAAGGAATCAAGTAACATGTTACCAAGATACA TTATGCACATAAGAGCATGGATAAATTAAGATTTCTTATATGCATATCACTGTCCTAATCAGTG TTCTAAAAGTCGTCTCTAGGCGCCGGGTAGCCGCCGCCATTAGGCATTCGATGGTGTATTAGGC AGCTGAGCTAACTTGGCTAGTGTTTTTTTTTTTTTTGCTATTTTAGTGTTATATAGTCTAATTT CTATGCAATATGCGTGCTATTTTTTTGGATTTGACTAGTTGACCTGACCTAGGCGCCGCCTTGG CGCCAATTAGGCACTAGGCGCCCCCCAGCCACCCAACTAGCGCCTAGTGCTTTCTTGAACCATG GTCCTAATGATTGAAGTTTAACTAGTATCATATTTCTAGCTAAATTTAACCATGGTCCTAATGA ACTCAATTTCCAATACAATCAAACAATGGATAAGAGAAGAAATGTGTGTGTAGGCACAAATAAT CCTAATCTAGAACTAAAATGGGATTTAATATTTTCTTTATGAAACCATAACCATTCAAATAGTA CCACTTAGCTGGGCCCAAAAAAGTTGGCATATGCAAATGCAATAATTACCTCAAAGACAGAAAG TTAAGTAGCTAAAGGAACAAGGAAAGTAACATGCAATTAGAACTTCAGCCTACAAGCATAGACT AAGACTATAGTACAAATAACGATAACTTAACAGTGGATCTCAACCTCTGCTCAACCTGGTCACC GATTTAACCAAGTTTAAGCAAGACTTTTTTAGAAAATGTGGAAGTTAAAATATGTTGCTTGCAT TAATCTGCACAATACAAACTTGAAGCTGCTTAAATATATTTGTACAGAGAAACTATCATTATAT GACCAGTTGATATGACTGCTAGTGGAACACACTGGCAAATTTGAATTTCCTTTGATATGACCAG TTGATATGACTGCTAGTGGATCAAACTATTCATGGTACCATGAATAGTTTGATCCATATACAAT TGGTGTTTATAGGCTGTAGATTCTGATATATGGCATGGCGTTCACCACAATTTAACAGATCTTT TAGTGAAGGAAATTTGAATCTTACATGAGAATGAAGATACATAACACCAGAGATTATGTCGCGC AAGTAATTTCTGGAGGTAGCTTCTCCTAAACCATTGTCACAGACCATTTTTCCTTCAACATACT CAAGAACTGGCAATACCAATGGACAATGTTAGGTAGAATAATATGGAGAATTAAATAAAGATGC TCAAAAGTTAGCAAGAAAAATCTCATGCTACAATTAAACAAAAGGAAACTATTTTTTTTAAAAA AAATGAGAATGTCATTACATACCCATGTAGAATTTATCTGCATTTGGGTCATCAATCACTTCAA TGAGATTTACTATATTAGGATGATCCAACATTTTCATGATGGATACCTGTCACCAATACAAAAG GTGATGCTGTCAGATAATTGAGACGTTAAACAGTACATAGAGATTCTTTAAGCAAGCAAAGTTT ATTCCAGTTATTTTATTGTGTTCATGTCCTGAACAGAGCAAAATCAGTGAGCACACTCAACTTG TATCAACTCAACTTGGGTATTGGGCTCAGGGCCAAGGCCCTAGGCCAAGGAGGAGGAAGAGGTG CACATGGACATGTCCAGTATCGCATGGTTATTGTTCACATGGGTGTATAGAATAGATTGATTTG CTAGCTATTTATAAAATCTTAGAGATAAACTCCTTCAAGGTCAAGCCATCCTATTTAAATAAGG ATGGGCTGTATGTCCATTCGTTAATAGTCTCTCCCTAATGTTCATCATCTAAGTCTAAGTTCTC TCCTCATCTGCAGCAACCATCGCCGCCCCAGCTATCCTCTGGTGGTGTTTACCCACCATGATTT CGGACCATGACAACTTGGTTACTATGTATGTGGTTGGCCCGATAGTGTCAGTGTTATGGTAGCG ATGCATCCTCAAAGTGCACACAACCAAGGTTATCATACCAAGCCCAGCCCAATAGTTTGACCAA AAAGGACCTGAAGTGAGCCTCCCGGTAGACTGTTTTTCCTTAGACAATTCTATAATCATCCATT TCGATCAGGAGAAACCATGTTTGAACTGGCTAGTTTAAGAGTGAACAAGTCAACATGAGCCAGA CGATAAACCCAGCTTAAGAAATAGCCAAAAATAATGCACAATGCATTGTGCATGAACTAAGTGG GCTTGTTGGTTTGTTATTTATTGTACTGAGAAACTTATGTAAGTCCATATTGAGTGCAAGAGCT ATGCTAATTATATCACCACATTTACATATTACCCATTTAAATAGAATGTGCAGACACTGACCCA AATCCTAACTGGGTCAAGGGCTGAATGGGCAGCACTACTTTTCCAGAGCACTTAAGTCGTGTCA TGACAAAAAAGAAAAAAAAACATGTATTACAATCACAAGTAAACTGAGAAAGTTACTCACTTCC CGAAGAACATCTGTCATGGCAGTTTCTGATCGCACAACACGTACTTTCATCATGTAAGATTTAT TCAAAACCTACAATAGAAGGGCAAAGGCTACAGTTCCATCAGTTAGATGCAGACACTGTGCACG CAACATAAATTTAACCTTGTAACCATAAGAATAATGGTGCTGAACGAGTAAAACCAACTACTCA GACTAGCAGCTAGTTATTAATGAGTTCAGATGCAAGAAATAAAAATTAGTAACTAACATAAAGA AATCAGCACATAAGGACAGCGAAAAACCCTACCTTCACTGCGTAAAGCTTTCCATCTTTCATGC TTCGGTATAAGACCTTTAAGCCAAAAAAAAAAAGATTTAGACATTTACCGTGGGAAGTCACTTC ATAACATAATGTGAGCTATCTTACCACTTTGCCATAGCTTCCAGAACCAATCTTCCCCAGGTGG ACATATTGGTTGACCATCTTGCTGCCATTTTCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106554686

Conservation Information
Conserved circRNAs	NA
PMCS	0.106554686

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28714184-28710968(-)
						
						Potential amino acid sequence
						
							MVNQYVHLGKIGSGSYGKVVLYRSMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMK
MLDHPNIVNLIEVIDDPNADKFYMVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNII
HGDIKPDNLLVTSTGSVKIGDFSVSQIFEDENGSKMVNQYVHLGKIGSGSYGKVVLYRSMKDGK
LYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMKMLDHPNIVNLIEVIDDPNADKFYMVLEYV
EGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNIIHGDIKPDNLLVTSTGSVKIGDFSVSQIFE
DENGSKMVNQYVHLGKIGSGSYGKVVLYRSMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLR
EVSIMKMLDHPNIVNLIEVIDDPNADKFYMVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYL
HSHNIIHGDIKPDNLLVTSTGSVKIGDFSVSQIFEDENGSKMVNQYVHLGKIGSGSYGKVVLYR
SMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMKMLDHPNIVNLIEVIDDPNADKFY
MVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNIIHGDIKPDNLLVTSTGSVKIGDFS
VSQIFE(-)
						
						Sponge-miRNAs
						
							osa-miR5538 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28714184-28710968(-)
Potential amino acid sequence	MVNQYVHLGKIGSGSYGKVVLYRSMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMK MLDHPNIVNLIEVIDDPNADKFYMVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNII HGDIKPDNLLVTSTGSVKIGDFSVSQIFEDENGSKMVNQYVHLGKIGSGSYGKVVLYRSMKDGK LYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMKMLDHPNIVNLIEVIDDPNADKFYMVLEYV EGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNIIHGDIKPDNLLVTSTGSVKIGDFSVSQIFE DENGSKMVNQYVHLGKIGSGSYGKVVLYRSMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLR EVSIMKMLDHPNIVNLIEVIDDPNADKFYMVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYL HSHNIIHGDIKPDNLLVTSTGSVKIGDFSVSQIFEDENGSKMVNQYVHLGKIGSGSYGKVVLYR SMKDGKLYAVKVLNKSYMMKVRVVRSETAMTDVLREVSIMKMLDHPNIVNLIEVIDDPNADKFY MVLEYVEGKMVCDNGLGEATSRNYLRDIISGVMYLHSHNIIHGDIKPDNLLVTSTGSVKIGDFS VSQIFE(-)
Sponge-miRNAs	osa-miR5538
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0711300_circ_g.3

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