Plant Circular RNA Database

Detail information of Os01g0532800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0532800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_002008
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 19253338-19255056  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0532800						
					
						Parent gene annotation
						
							Similar to Condensin complex subunit 2. (Os01t0532800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0532800_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						Os01t0532800-01:4

General Information
CircRNA Name	Os01g0532800_circ_g.2
ID in PlantcircBase	osa_circ_002008
Alias	NA
Organism	Oryza sativa
Position	chr1: 19253338-19255056 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0532800
Parent gene annotation	Similar to Condensin complex subunit 2. (Os01t0532800-01)
Parent gene strand	+
Alternative splicing	Os01g0532800_circ_g.3
Support reads	1
Tissues	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	Os01t0532800-01:4

			
						 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  
						
							ACCTTGGGATGGTGATGATTTTTGTAATGATCATGTCGATGAAGGAAATGGTGATACCGATGTA
GAGGATGCAGTAGATCTTATTACCAAACCAAGACAGgaaactgatgagtacacttttgagtctg
ctgaaggtcttgatgtaaatgaaagaattgacaaaattgcagatttcttgtcatttggcatggg
attctctg

									
								

					

						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: 582
Transcript exons: 19253338-19253491,19253573-19253829,19253905-19253935,19
254917-19255056
GAAACTGATGAGTACACTTTTGAGTCTGCTGAAGGTCTTGATGTAAATGAAAGAATTGACAAAA
TTGCAGATTTCTTGTCATTTGGCATGGGATTCTCTGCAAAAACAAATGCCTGGGCAGGACCTGA
GCATTGGAAATATCGAAAAGCTAAAGATTTGGACCCTGTCCCAACTAAACCTGATGATTCAGAC
GCCCCAAAAAAGACAAAGAAGAAAAGAGGCAAGGATGAACCTGACATTGATTTCAGCAAAGCAT
TGGAACATGATATGCCAAATATCTTTGCACCTCCTAAGAATTCAAAATCATTGCTGCTGCCGGC
AAATAGGGCTACCAGCAATAACAAACTTCCAGAGGATTGCCATTATAGACCTGAAAGCCTTGTT
AAATTATTCCTTCTTCCGGATGTTTTGTGTCTGGCTCGGAGAAGGAAAAAACCACTTGGTGGTT
CAAGGGAGAATACTGATGACTTCATCCCATCTGAACCTTGGGATGGTGATGATTTTTGTAATGA
TCATGTCGATGAAGGAAATGGTGATACCGATGTAGAGGATGCAGTAGATCTTATTACCAAACCA
AGACAG
						
					

						Genomic sequence
						
							GAAACTGATGAGTACACTTTTGAGTCTGCTGAAGGTCTTGATGTAAATGAAAGAATTGACAAAA
TTGCAGATTTCTTGTCATTTGGCATGGGATTCTCTGCAAAAACAAATGCCTGGGCAGGACCTGA
GCATTGGAAATATCGAAAAGCTAAAGGTACTATGGGTACATAGTCCTGTTTTAGTTTTGTTTCA
GGCAGGCTTGTTTAATCTAACCTTTGGGCTTACATTCAACTAGATTTGGACCCTGTCCCAACTA
AACCTGATGATTCAGACGCCCCAAAAAAGACAAAGAAGAAAAGAGGCAAGGATGAACCTGACAT
TGATTTCAGCAAAGCATTGGAACATGATATGCCAAATATCTTTGCACCTCCTAAGAATTCAAAA
TCATTGCTGCTGCCGGCAAATAGGGCTACCAGCAATAACAAACTTCCAGAGGATTGCCATTATA
GACCTGAAAGCCTTGTTAAATTATTCCTTCTTCCGGATGTTTTGGTAATGGCAATTTCTTATAA
TTTTTTTCTTGATATGGATCTGGGGTGGTTATAGTAACTATGGATCTTTTTGTAGTGTCTGGCT
CGGAGAAGGAAAAAACCACTTGGTAAGTTTTCTATGTTCTTGCATTGTGTATTTCACATGAAGT
TTTCTTGTTGCCTTGTTATTATATCTTGAAGTCCTGTTGTAAATTCTGAAGGTTCTTAAATTAT
TTATCACATCTTCCCTGTTCATATTACCTGTGTTACTTTCCTCCAGCTCCTTTTGGTATTTGAT
ATATGGGTTAATTGGATTCATGCCATTGCAAATTTACCGTATTAGAAAAATACCACTACTATTC
GTGATATCGGCTGAGTGCCATTATAATTTTGTAAAATTAGATCTATGCCATCACCGTTATATTT
TCTGTCAGACTCTCCTTCCTTTCTTCTCCTCTCCTTTTTCTTCCTCTTCTTCCTCTACCTGCTC
CTTCTTCTCCCTTCCACTGCTATTTCTGCCACTGCTCCTGCTCCTGCCCAGGACGTGGACAGCG
ACCACCACCAGCAGCAGCTCATCTTCCCCATCTCTCTCCACTGCTATTGCTACTGCTGCTGCTC
CTCCCCAAGAGGCCAAGGCATGAGCGGTGACCACCACCAGCCGATATGACGAATAATAGTGGCA
TTTTTCTAATACAACAAATTTGTAATGGCATGGATCCAATTAACCCTTGATATATTGGTAAGTT
CATATTGCTACTTAAATACTTAAACGAAACAATCTGTGAATCGTATGATGTTAGAGTATTATTA
TCTGAAACTGTGGAATGCAAATAAGTATAAAGTTCAGGACTGGGTTTATTTATAGAGAATGCTC
TGCACAACTCCAAGAAAGGTGGTAATGTGATACTTATGTTGGCTATTAGGTAGCAAATTGACTT
TCCCTTTTCAGAGAAGAACTTTACTATTCTCATACTAGATTATGTCTGTTTGCTAATGTGTGGC
AAGTTGATGTATGTATGGACAGCCTTTGTTCTTGTTAATGCCTTTCTATTTATATAGAATTGTT
TTCCTACATTTGTTAACCACAGAACACCTTTGTTCTCTAGTAGGTGGTTCAAGGGAGAATACTG
ATGACTTCATCCCATCTGAACCTTGGGATGGTGATGATTTTTGTAATGATCATGTCGATGAAGG
AAATGGTGATACCGATGTAGAGGATGCAGTAGATCTTATTACCAAACCAAGACAG
						
					

			
		

Sequences
Splice junction sequence	ACCTTGGGATGGTGATGATTTTTGTAATGATCATGTCGATGAAGGAAATGGTGATACCGATGTA GAGGATGCAGTAGATCTTATTACCAAACCAAGACAGgaaactgatgagtacacttttgagtctg ctgaaggtcttgatgtaaatgaaagaattgacaaaattgcagatttcttgtcatttggcatggg attctctg
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: 582 Transcript exons: 19253338-19253491,19253573-19253829,19253905-19253935,19 254917-19255056 GAAACTGATGAGTACACTTTTGAGTCTGCTGAAGGTCTTGATGTAAATGAAAGAATTGACAAAA TTGCAGATTTCTTGTCATTTGGCATGGGATTCTCTGCAAAAACAAATGCCTGGGCAGGACCTGA GCATTGGAAATATCGAAAAGCTAAAGATTTGGACCCTGTCCCAACTAAACCTGATGATTCAGAC GCCCCAAAAAAGACAAAGAAGAAAAGAGGCAAGGATGAACCTGACATTGATTTCAGCAAAGCAT TGGAACATGATATGCCAAATATCTTTGCACCTCCTAAGAATTCAAAATCATTGCTGCTGCCGGC AAATAGGGCTACCAGCAATAACAAACTTCCAGAGGATTGCCATTATAGACCTGAAAGCCTTGTT AAATTATTCCTTCTTCCGGATGTTTTGTGTCTGGCTCGGAGAAGGAAAAAACCACTTGGTGGTT CAAGGGAGAATACTGATGACTTCATCCCATCTGAACCTTGGGATGGTGATGATTTTTGTAATGA TCATGTCGATGAAGGAAATGGTGATACCGATGTAGAGGATGCAGTAGATCTTATTACCAAACCA AGACAG
Genomic sequence	GAAACTGATGAGTACACTTTTGAGTCTGCTGAAGGTCTTGATGTAAATGAAAGAATTGACAAAA TTGCAGATTTCTTGTCATTTGGCATGGGATTCTCTGCAAAAACAAATGCCTGGGCAGGACCTGA GCATTGGAAATATCGAAAAGCTAAAGGTACTATGGGTACATAGTCCTGTTTTAGTTTTGTTTCA GGCAGGCTTGTTTAATCTAACCTTTGGGCTTACATTCAACTAGATTTGGACCCTGTCCCAACTA AACCTGATGATTCAGACGCCCCAAAAAAGACAAAGAAGAAAAGAGGCAAGGATGAACCTGACAT TGATTTCAGCAAAGCATTGGAACATGATATGCCAAATATCTTTGCACCTCCTAAGAATTCAAAA TCATTGCTGCTGCCGGCAAATAGGGCTACCAGCAATAACAAACTTCCAGAGGATTGCCATTATA GACCTGAAAGCCTTGTTAAATTATTCCTTCTTCCGGATGTTTTGGTAATGGCAATTTCTTATAA TTTTTTTCTTGATATGGATCTGGGGTGGTTATAGTAACTATGGATCTTTTTGTAGTGTCTGGCT CGGAGAAGGAAAAAACCACTTGGTAAGTTTTCTATGTTCTTGCATTGTGTATTTCACATGAAGT TTTCTTGTTGCCTTGTTATTATATCTTGAAGTCCTGTTGTAAATTCTGAAGGTTCTTAAATTAT TTATCACATCTTCCCTGTTCATATTACCTGTGTTACTTTCCTCCAGCTCCTTTTGGTATTTGAT ATATGGGTTAATTGGATTCATGCCATTGCAAATTTACCGTATTAGAAAAATACCACTACTATTC GTGATATCGGCTGAGTGCCATTATAATTTTGTAAAATTAGATCTATGCCATCACCGTTATATTT TCTGTCAGACTCTCCTTCCTTTCTTCTCCTCTCCTTTTTCTTCCTCTTCTTCCTCTACCTGCTC CTTCTTCTCCCTTCCACTGCTATTTCTGCCACTGCTCCTGCTCCTGCCCAGGACGTGGACAGCG ACCACCACCAGCAGCAGCTCATCTTCCCCATCTCTCTCCACTGCTATTGCTACTGCTGCTGCTC CTCCCCAAGAGGCCAAGGCATGAGCGGTGACCACCACCAGCCGATATGACGAATAATAGTGGCA TTTTTCTAATACAACAAATTTGTAATGGCATGGATCCAATTAACCCTTGATATATTGGTAAGTT CATATTGCTACTTAAATACTTAAACGAAACAATCTGTGAATCGTATGATGTTAGAGTATTATTA TCTGAAACTGTGGAATGCAAATAAGTATAAAGTTCAGGACTGGGTTTATTTATAGAGAATGCTC TGCACAACTCCAAGAAAGGTGGTAATGTGATACTTATGTTGGCTATTAGGTAGCAAATTGACTT TCCCTTTTCAGAGAAGAACTTTACTATTCTCATACTAGATTATGTCTGTTTGCTAATGTGTGGC AAGTTGATGTATGTATGGACAGCCTTTGTTCTTGTTAATGCCTTTCTATTTATATAGAATTGTT TTCCTACATTTGTTAACCACAGAACACCTTTGTTCTCTAGTAGGTGGTTCAAGGGAGAATACTG ATGACTTCATCCCATCTGAACCTTGGGATGGTGATGATTTTTGTAATGATCATGTCGATGAAGG AAATGGTGATACCGATGTAGAGGATGCAGTAGATCTTATTACCAAACCAAGACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.247179125

Conservation Information
Conserved circRNAs	NA
PMCS	0.247179125

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19253426-19255053(+)
19253659-19254989(-)
19253421-19255042(-)
						
						Potential amino acid sequence
						
							MGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHDMPNI
FAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSRENTDDF
IPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIADFLS
FGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHDMP
NIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSRENTD
DFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIADF
LSFGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHD
MPNIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSREN
TDDFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIA
DFLSFGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALE
HDMPNIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSR
ENTDDFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQ(+)
MSGSSLPLFFFVFFGASESSGLVGTGSKSLAFRYFQCSGPAQAFVFAENPMPNDKKSAILSILS
FTSRPSADSKVYSSVSCLGLVIRSTASSTSVSPFPSST*(-)
MTRNLQFCQFFHLHQDLQQTQKCTHQFPVLVW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19253426-19255053(+) 19253659-19254989(-) 19253421-19255042(-)
Potential amino acid sequence	MGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHDMPNI FAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSRENTDDF IPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIADFLS FGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHDMP NIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSRENTD DFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIADF LSFGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALEHD MPNIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSREN TDDFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQETDEYTFESAEGLDVNERIDKIA DFLSFGMGFSAKTNAWAGPEHWKYRKAKDLDPVPTKPDDSDAPKKTKKKRGKDEPDIDFSKALE HDMPNIFAPPKNSKSLLLPANRATSNNKLPEDCHYRPESLVKLFLLPDVLCLARRRKKPLGGSR ENTDDFIPSEPWDGDDFCNDHVDEGNGDTDVEDAVDLITKPRQ(+) MSGSSLPLFFFVFFGASESSGLVGTGSKSLAFRYFQCSGPAQAFVFAENPMPNDKKSAILSILS FTSRPSADSKVYSSVSCLGLVIRSTASSTSVSPFPSST(-) MTRNLQFCQFFHLHQDLQQTQKCTHQFPVLVW(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0532800_circ_g.2

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