Plant Circular RNA Database

Detail information of Os03g0657000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0657000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_020868
					
						Alias
						NA, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 25635862-25638247  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-long
					
						Parent gene
						
							Os03g0657000						
					
						Parent gene annotation
						
							TATA-binding protein TBP2. (Os03t0657000-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0657000_circ_g.1 Os03g0657000_circ_g.2 Os03g0657000_circ_g.4 Os03g0657000_circ_g.5 Os03g0657000_circ_g.6 Os03g0657000_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						shoot, root, leaf
					
						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
						Os03t0657000-01:7

General Information
CircRNA Name	Os03g0657000_circ_g.3
ID in PlantcircBase	osa_circ_020868
Alias	NA,
Organism	Oryza sativa
Position	chr3: 25635862-25638247 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI-long
Parent gene	Os03g0657000
Parent gene annotation	TATA-binding protein TBP2. (Os03t0657000-01)
Parent gene strand	+
Alternative splicing	Os03g0657000_circ_g.1 Os03g0657000_circ_g.2 Os03g0657000_circ_g.4 Os03g0657000_circ_g.5 Os03g0657000_circ_g.6 Os03g0657000_circ_g.7
Support reads	1
Tissues	shoot, root, leaf
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	Os03t0657000-01:7

			
						 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  
						
							TATGTCTGAATATACTGTCTTTATAGGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATA
CCCTGTGCTAACGGAGTTCAGAAAAGTCCAGCAGTGaaacatcgtatcgacggtcaatttggat
tgcaaattagacctcaaagctatagctttgcaagctcgcaatgcagaatataatccaaaggtat
tatgatgg

									
								

					

						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: 453
Transcript exons: 25635862-25635949,25637552-25637602,25637677-25637721,25
637820-25637912,25637998-25638099,25638174-25638247
AAACATCGTATCGACGGTCAATTTGGATTGCAAATTAGACCTCAAAGCTATAGCTTTGCAAGCT
CGCAATGCAGAATATAATCCAAAGGTCTGTACTGGGGCAAAGAGTGAACAACAATCCAAGCTTG
CAGCAAGAAAGTACGCTCGTATTATCCAGAAGCTTGGCTTTCCTGCTAAATTCAAGGATTTCAA
GATTCAGAACATTGTTGGCTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATAT
TCTCATGGTGCTTTCTCAAGTTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGAAGC
AACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAAAGGTGAG
GGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTTCAGAAAAGTCCAG
CAGTG
						
					

						Genomic sequence
						
							AAACATCGTATCGACGGTCAATTTGGATTGCAAATTAGACCTCAAAGCTATAGCTTTGCAAGCT
CGCAATGCAGAATATAATCCAAAGGTATTATGATGGCTTCGGTGTGTTCTAGTGTCTCTGTTTT
GGCTCAAAAGGATATCTTCATTGCATGTTAAAATGATACCAATGTTATTCTTAGTAGCATGTAA
TATGTAGACAAGGTCCATATATTCCTATGGTCTGTTCCTAGAGTGATATTTCCTTTGTGTATAA
CATAAGTGTTAGTGCAATTTTAGATGTCAGTATGGATAAATCCATAGTTGACAGTCGAGTTTTG
TAAGGCAAGTCTCAGTTAAGATAGTGAAGACAGCTTGTCCCACAGATAAACAAATTGCTCTACA
AATAAGATTATAAAAATTACTCTTTTTAGTGCTTTGGGCTTTTTATCTGTGCTGCATGTACCAG
ACGCAGCACGAGGTATTGGGAGATTTTGTAACTATATGTAATATCGTAAGCTAAATCTAGGTGT
ACCATGTTTGCTTTAATAATAAATACATTTTGGAAGGAACAGACATAGCGCACACTGGGGTTAT
AAACATCTCTATCTAGTATCTTAGATTGATTTACACTATGTCAGTGGCGCACTATATAATTTCA
TACTCATTTGCTGTAATTTATGTTTTAGTTTGCTAATTCCTCCTTTCATAAACAGCGTTTTGCT
GCGGTTATCATGAGAATAAGAGAACCAAAAACTACAGCTCTGATATTTGCATCGGGTAAAATGG
TATGGTTCAACTTCTTGTACCGTGACTGCAAATGTTCTGTTTTGTTCATCTGCTTATTGACTTG
TGAATTGTTTTGTTATCTGTCCAATGGCCAGCTGTTGATCTTGTAGCTATTATAATGCATATTG
ATTCATGAACTGTTTTTGCTGCTGTGTAACTGCTTTTGCTATTAGCATACTATCTTTTTAGTTT
TTATTTACTTGTTAACAGCTATCACATCCCTACCTTTATCCGTGCCGCATTGCAGCCTGTATTT
CAATGTTGAATCTGTGAATTTACTTTTGCTCTGATTTTTCTGACATGTTTGCTGTTGCATTGGT
GTGTCAATAGCTATCACATCCATATCTGATCCAAGCAGCCTGTAGTTCAATGTTGAATCTGTAA
ATTTAATTTTGCTCTGAGTTTATGAAATGTTTGCTGTTGCATTGCTGTGTCATATAGTAATAAC
TGCATGAGTATTGTTCTTTCTGTGAATGTATAGTTTGTCCTTGTTAACTTTTTTATGGCTTTAA
AGCATAATAGGAATTGTTTATTCACAATAAATTGAACCTAACATATTTATTTGTTGAAGGATAA
TCAGCAATAGCACATCACATGCTTCCTGTCTGGTCAATATCTTCATTTTTCTTGAAAATCACTT
GAATTTTCTTTTGGTTCAATATCTCCATCCAAATAACTTTACCTGTTGAAGCCTTAGGCTTACT
AGTATGTCGTATGGGGCCTGTCTGTTAGGCAGTGAACTTAAAGAAAGGGTTGCCATGGGTTTGA
CGCACCAATTTGTTGCATCTTTTCTTCTCTTTTTTCCTTTGTATAAAAAAAACAAATATGGCTG
TTAACCAAAATTTCTCAGTGTCCACCGTGATGTCTGGCATCTATGGTTAAATTAGAGGTCTGTT
TATAAATCTTTTGTGTCCTATACCAGGTCTGTACTGGGGCAAAGAGTGAACAACAATCCAAGCT
TGCAGCAAGAAAGGTATGAGCGGTAGTTTTTATTTTATTTTGCTATATCTGTCTCTCTGAAGTC
TTAACACTAGTTTTTATCACCAGTACGCTCGTATTATCCAGAAGCTTGGCTTTCCTGCTAAATT
CAAGGTAACTATTTCAAGCTTGCTTGATTTTCATCTGTGCATGTGCCTACCAAATACATTCTGT
AATTGTACCTAACTGTTTAACTCATTGCACTATACCAGGATTTCAAGATTCAGAACATTGTTGG
CTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCA
AGTGTAAGTTGAGTCCTTGCATGCCTTTTTAGGACGCCTTTCACATTTGTTATGTTGTTCTTAT
GTCCTGTGCCTTTTGTGTTAACAGTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGA
AGCAACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAAAGGT
TAGCAGCCTTTCCTTTTGTATATTCTTGATTGCCTATTCCTTTTTGTATGTCTGAATATACTGT
CTTTATAGGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTT
CAGAAAAGTCCAGCAGTG
						
					

			
		

Sequences
Splice junction sequence	TATGTCTGAATATACTGTCTTTATAGGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATA CCCTGTGCTAACGGAGTTCAGAAAAGTCCAGCAGTGaaacatcgtatcgacggtcaatttggat tgcaaattagacctcaaagctatagctttgcaagctcgcaatgcagaatataatccaaaggtat tatgatgg
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: 453 Transcript exons: 25635862-25635949,25637552-25637602,25637677-25637721,25 637820-25637912,25637998-25638099,25638174-25638247 AAACATCGTATCGACGGTCAATTTGGATTGCAAATTAGACCTCAAAGCTATAGCTTTGCAAGCT CGCAATGCAGAATATAATCCAAAGGTCTGTACTGGGGCAAAGAGTGAACAACAATCCAAGCTTG CAGCAAGAAAGTACGCTCGTATTATCCAGAAGCTTGGCTTTCCTGCTAAATTCAAGGATTTCAA GATTCAGAACATTGTTGGCTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATAT TCTCATGGTGCTTTCTCAAGTTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGAAGC AACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAAAGGTGAG GGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTTCAGAAAAGTCCAG CAGTG
Genomic sequence	AAACATCGTATCGACGGTCAATTTGGATTGCAAATTAGACCTCAAAGCTATAGCTTTGCAAGCT CGCAATGCAGAATATAATCCAAAGGTATTATGATGGCTTCGGTGTGTTCTAGTGTCTCTGTTTT GGCTCAAAAGGATATCTTCATTGCATGTTAAAATGATACCAATGTTATTCTTAGTAGCATGTAA TATGTAGACAAGGTCCATATATTCCTATGGTCTGTTCCTAGAGTGATATTTCCTTTGTGTATAA CATAAGTGTTAGTGCAATTTTAGATGTCAGTATGGATAAATCCATAGTTGACAGTCGAGTTTTG TAAGGCAAGTCTCAGTTAAGATAGTGAAGACAGCTTGTCCCACAGATAAACAAATTGCTCTACA AATAAGATTATAAAAATTACTCTTTTTAGTGCTTTGGGCTTTTTATCTGTGCTGCATGTACCAG ACGCAGCACGAGGTATTGGGAGATTTTGTAACTATATGTAATATCGTAAGCTAAATCTAGGTGT ACCATGTTTGCTTTAATAATAAATACATTTTGGAAGGAACAGACATAGCGCACACTGGGGTTAT AAACATCTCTATCTAGTATCTTAGATTGATTTACACTATGTCAGTGGCGCACTATATAATTTCA TACTCATTTGCTGTAATTTATGTTTTAGTTTGCTAATTCCTCCTTTCATAAACAGCGTTTTGCT GCGGTTATCATGAGAATAAGAGAACCAAAAACTACAGCTCTGATATTTGCATCGGGTAAAATGG TATGGTTCAACTTCTTGTACCGTGACTGCAAATGTTCTGTTTTGTTCATCTGCTTATTGACTTG TGAATTGTTTTGTTATCTGTCCAATGGCCAGCTGTTGATCTTGTAGCTATTATAATGCATATTG ATTCATGAACTGTTTTTGCTGCTGTGTAACTGCTTTTGCTATTAGCATACTATCTTTTTAGTTT TTATTTACTTGTTAACAGCTATCACATCCCTACCTTTATCCGTGCCGCATTGCAGCCTGTATTT CAATGTTGAATCTGTGAATTTACTTTTGCTCTGATTTTTCTGACATGTTTGCTGTTGCATTGGT GTGTCAATAGCTATCACATCCATATCTGATCCAAGCAGCCTGTAGTTCAATGTTGAATCTGTAA ATTTAATTTTGCTCTGAGTTTATGAAATGTTTGCTGTTGCATTGCTGTGTCATATAGTAATAAC TGCATGAGTATTGTTCTTTCTGTGAATGTATAGTTTGTCCTTGTTAACTTTTTTATGGCTTTAA AGCATAATAGGAATTGTTTATTCACAATAAATTGAACCTAACATATTTATTTGTTGAAGGATAA TCAGCAATAGCACATCACATGCTTCCTGTCTGGTCAATATCTTCATTTTTCTTGAAAATCACTT GAATTTTCTTTTGGTTCAATATCTCCATCCAAATAACTTTACCTGTTGAAGCCTTAGGCTTACT AGTATGTCGTATGGGGCCTGTCTGTTAGGCAGTGAACTTAAAGAAAGGGTTGCCATGGGTTTGA CGCACCAATTTGTTGCATCTTTTCTTCTCTTTTTTCCTTTGTATAAAAAAAACAAATATGGCTG TTAACCAAAATTTCTCAGTGTCCACCGTGATGTCTGGCATCTATGGTTAAATTAGAGGTCTGTT TATAAATCTTTTGTGTCCTATACCAGGTCTGTACTGGGGCAAAGAGTGAACAACAATCCAAGCT TGCAGCAAGAAAGGTATGAGCGGTAGTTTTTATTTTATTTTGCTATATCTGTCTCTCTGAAGTC TTAACACTAGTTTTTATCACCAGTACGCTCGTATTATCCAGAAGCTTGGCTTTCCTGCTAAATT CAAGGTAACTATTTCAAGCTTGCTTGATTTTCATCTGTGCATGTGCCTACCAAATACATTCTGT AATTGTACCTAACTGTTTAACTCATTGCACTATACCAGGATTTCAAGATTCAGAACATTGTTGG CTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCA AGTGTAAGTTGAGTCCTTGCATGCCTTTTTAGGACGCCTTTCACATTTGTTATGTTGTTCTTAT GTCCTGTGCCTTTTGTGTTAACAGTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGA AGCAACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAAAGGT TAGCAGCCTTTCCTTTTGTATATTCTTGATTGCCTATTCCTTTTTGTATGTCTGAATATACTGT CTTTATAGGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTT CAGAAAAGTCCAGCAGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013384 						
					
						PMCS
						0.140152162

Conservation Information
Conserved circRNAs	osi_circ_013384
PMCS	0.140152162

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25636578-25637999(-)
						
						Potential amino acid sequence
						
							MITAAKRFGLYSALRACKAIALRSNLQSKLTVDTMFHCWTFLNSVSTGYMFSKAVYVSSLTFAP
VKTILPETKIRRTIFGCFIRYIRPGKSSGS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25636578-25637999(-)
Potential amino acid sequence	MITAAKRFGLYSALRACKAIALRSNLQSKLTVDTMFHCWTFLNSVSTGYMFSKAVYVSSLTFAP VKTILPETKIRRTIFGCFIRYIRPGKSSGS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017; this study

circRNA

Detail information of Os03g0657000_circ_g.3

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