Plant Circular RNA Database

Detail information of Os12g0297500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os12g0297500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_011256
					
						Alias
						Os12circ05108
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 11732868-11735048  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os12g0297500						
					
						Parent gene annotation
						
							Pyruvate phosphate dikinase, PEP/pyruvate-binding domain contain
ing protein. (Os12t0297500-01);Similar to Phosphoglucan, water d
ikinase, chloroplastic. (Os12t0297500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0297500_circ_g.4 Os12g0297500_circ_g.6 Os12g0297500_circ_g.7 Os12g0297500_circ_g.8 Os12g0297500_circ_g.9 Os12g0297500_circ_g.10 						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						Os12t0297500-01:4
Os12t0297500-02:2

General Information
CircRNA Name	Os12g0297500_circ_g.5
ID in PlantcircBase	osa_circ_011256
Alias	Os12circ05108
Organism	Oryza sativa
Position	chr12: 11732868-11735048 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os12g0297500
Parent gene annotation	Pyruvate phosphate dikinase, PEP/pyruvate-binding domain contain ing protein. (Os12t0297500-01);Similar to Phosphoglucan, water d ikinase, chloroplastic. (Os12t0297500-02)
Parent gene strand	-
Alternative splicing	Os12g0297500_circ_g.4 Os12g0297500_circ_g.6 Os12g0297500_circ_g.7 Os12g0297500_circ_g.8 Os12g0297500_circ_g.9 Os12g0297500_circ_g.10
Support reads	2
Tissues	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	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	Os12t0297500-01:4 Os12t0297500-02:2

			
						 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  
						
							GACAAGGGCATCAAGAGTAGTATCCCATAGAGTAGTATTTCTAGCTACATCCTTTGCAAGTGAA
GCTGATCCACCTAAGGCTTCAAGAGTATTGATGAATccgcatcagagttccatgggccactcca
ggaacaagaacatcccagccagttgatccaagtacttctcgaattgctttctgaagtactgtgc
atagttta

									
								

					

						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: 514
Transcript exons: 11732868-11732985,11733079-11733149,11734617-11734735,11
734843-11735048
CCGCATCAGAGTTCCATGGGCCACTCCAGGAACAAGAACATCCCAGCCAGTTGATCCAAGTACT
TCTCGAATTGCTTTCTGAAGTACTGTGCATAGTTTAGATACCTGAAAAACAATGCCAGCACGAA
TTTCTGCCTCTGTGTAAGTTCTCACACTGTTATCTGGTATTCCAAGGGCTTTCCCAATAACCAT
TACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTACTCTTCCGTTAATCTCCGTGCTCTG
TCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCCCATCTTCACAACCTTCACTTTCAG
ATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTTCCA
ACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGAGTA
GTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGATGA
AT
						
					

						Genomic sequence
						
							CCGCATCAGAGTTCCATGGGCCACTCCAGGAACAAGAACATCCCAGCCAGTTGATCCAAGTACT
TCTCGAATTGCTTTCTGAAGTACTGTGCATAGTTTAGATACCTGAAAAACAATGCTAGACATAT
ATAAAAAGTTAGGTTCAGAATAATTAGATTGATTACAGCTCCAGAAAACCACAATTTCCAGACT
CTGTACAGAAAAGGATTACCCAGCACGAATTTCTGCCTCTGTGTAAGTTCTCACACTGTTATCT
GGTATTCCAAGGGCTTTCCCAATAACCTATTAACAAGACAGCCACACAGAATCTAAGTTTGAAA
CATAACCAAACAAGACAAAAAGTCTGAGTGCAAAACTTGTATGGTCAAATATCACAAAAAAAAT
GTAAATCTTTAGGAACGACCATCTGAGTAAAGTTGTCCATGAACCAATTTTCCATGCTTACATG
CCACTGAAAATGTCTGATCCCAGATATGCCCCTGAAATTTTGGTTCTTCCAGTTTTACCACTGC
TTTTTAATTCATGCCTGAAATTGCAATCATTGTCAATGTTGCGGGATCAGCTCAGCTGACGTGC
CAACAATTGTTCCGACATGGCAGTCCTACCCTTGCTTTACTCAACATGTGAAAATGGATTGACA
ATAACCCTAGGCATCCATTCACCATGTTATTCCATCTTAGCTTCTATCCTTCTCAGGTGATGGA
CAACACAACCAGTAGAAAGGAGAAGGGCAGAGGTGGTGGGCAGTATCCAGGATTTAGCTCACAC
AACACAGGTGTTTGAGCTGAGTGGGTTTGGGGTGGCGGATGTGTGTTGCCATAATGGCAGTCAA
CCACACCAACAGGTTGTACTCAGCAGCTTATTATACTATGCGTTTAAGTTTGTTGGATAATAAT
ATTGACAACATTGTATCTTCATATTTGTTTCATTTAACTGCATGCATACAGTTGTGCATGCTGA
TCAGGATATATGCATACTTGCAGCAGAACATGAAGAAGTAAGATGTGATTTTCATGAGTGCAAA
CAGAGCACAAACTTGTCTTAAACTCTTATTTTCTATGTGATATTTTTAACAAATTTCTGCAACA
TGTGTTAGTTTTAATACAATGGCGTAAATGCGAGTAATAAACCTAACATGGTGACAGAACAGGA
ATACGAGACTTCCCTCACTTGCAAAGCAAGGGTAAATTTGGCATTTCCCACCTCTCACACCAAG
ATTTAACACCAGTTGGTCAACAGTCACATTTTCAGGCAAGGATTAAAACCTCTTGTAGGCTACC
GATTTTATCTTGTTAGACTAAAGCAGTGACAAATAAATAATCGAAATTTCAGTGGCATATCTAG
GACAGGAAAATTTATATGGCATTAAGGAATTTTCCATACGAAGGTTTGGTTTGAGTCTGAAGCA
GGTTGTGATAATCTCGTTCAGTTTAGCAGTTAAAATGCTATTAATTTCCCGTGTCCATCTAGCT
ACTCTTTTTCTTAATCAAGTTGCGAATGGGTTTATTTTTTTCAGACCATTTAAGATGAAATGTG
ACAAGAAATGGGGAAAAAAATGATTTATCTAACTATAACCTGACTTACCAAGCAGTAATATTAC
ACAATGGTTTCTGTTTTGAAAAGAGCAAACCATACCATGATAACAGCAAACTAAGCCTACGTCA
AACAATATGAACATAGTTGTATACCATTGAACATTTTTTTTCATTAATGGAGTTAAGGTCCTCT
AGCTTCGTTTAATACACTCACCATTACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTAC
TCTTCCGTTAATCTCCGTGCTCTGTCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCC
CATCTTCACAACCTTCACACATGACAAGAAACAGTCAGGGTATTTCTGAGTCTTGACTACAATA
AAGGTATTTAGGCATGGGCATATAAAATAGATAGATATTAAAGAAGAAACAGCACCTTCACTTT
CAGATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTT
CCAACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGA
GTAGTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGA
TGAAT
						
					

			
		

Sequences
Splice junction sequence	GACAAGGGCATCAAGAGTAGTATCCCATAGAGTAGTATTTCTAGCTACATCCTTTGCAAGTGAA GCTGATCCACCTAAGGCTTCAAGAGTATTGATGAATccgcatcagagttccatgggccactcca ggaacaagaacatcccagccagttgatccaagtacttctcgaattgctttctgaagtactgtgc atagttta
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: 514 Transcript exons: 11732868-11732985,11733079-11733149,11734617-11734735,11 734843-11735048 CCGCATCAGAGTTCCATGGGCCACTCCAGGAACAAGAACATCCCAGCCAGTTGATCCAAGTACT TCTCGAATTGCTTTCTGAAGTACTGTGCATAGTTTAGATACCTGAAAAACAATGCCAGCACGAA TTTCTGCCTCTGTGTAAGTTCTCACACTGTTATCTGGTATTCCAAGGGCTTTCCCAATAACCAT TACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTACTCTTCCGTTAATCTCCGTGCTCTG TCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCCCATCTTCACAACCTTCACTTTCAG ATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTTCCA ACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGAGTA GTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGATGA AT
Genomic sequence	CCGCATCAGAGTTCCATGGGCCACTCCAGGAACAAGAACATCCCAGCCAGTTGATCCAAGTACT TCTCGAATTGCTTTCTGAAGTACTGTGCATAGTTTAGATACCTGAAAAACAATGCTAGACATAT ATAAAAAGTTAGGTTCAGAATAATTAGATTGATTACAGCTCCAGAAAACCACAATTTCCAGACT CTGTACAGAAAAGGATTACCCAGCACGAATTTCTGCCTCTGTGTAAGTTCTCACACTGTTATCT GGTATTCCAAGGGCTTTCCCAATAACCTATTAACAAGACAGCCACACAGAATCTAAGTTTGAAA CATAACCAAACAAGACAAAAAGTCTGAGTGCAAAACTTGTATGGTCAAATATCACAAAAAAAAT GTAAATCTTTAGGAACGACCATCTGAGTAAAGTTGTCCATGAACCAATTTTCCATGCTTACATG CCACTGAAAATGTCTGATCCCAGATATGCCCCTGAAATTTTGGTTCTTCCAGTTTTACCACTGC TTTTTAATTCATGCCTGAAATTGCAATCATTGTCAATGTTGCGGGATCAGCTCAGCTGACGTGC CAACAATTGTTCCGACATGGCAGTCCTACCCTTGCTTTACTCAACATGTGAAAATGGATTGACA ATAACCCTAGGCATCCATTCACCATGTTATTCCATCTTAGCTTCTATCCTTCTCAGGTGATGGA CAACACAACCAGTAGAAAGGAGAAGGGCAGAGGTGGTGGGCAGTATCCAGGATTTAGCTCACAC AACACAGGTGTTTGAGCTGAGTGGGTTTGGGGTGGCGGATGTGTGTTGCCATAATGGCAGTCAA CCACACCAACAGGTTGTACTCAGCAGCTTATTATACTATGCGTTTAAGTTTGTTGGATAATAAT ATTGACAACATTGTATCTTCATATTTGTTTCATTTAACTGCATGCATACAGTTGTGCATGCTGA TCAGGATATATGCATACTTGCAGCAGAACATGAAGAAGTAAGATGTGATTTTCATGAGTGCAAA CAGAGCACAAACTTGTCTTAAACTCTTATTTTCTATGTGATATTTTTAACAAATTTCTGCAACA TGTGTTAGTTTTAATACAATGGCGTAAATGCGAGTAATAAACCTAACATGGTGACAGAACAGGA ATACGAGACTTCCCTCACTTGCAAAGCAAGGGTAAATTTGGCATTTCCCACCTCTCACACCAAG ATTTAACACCAGTTGGTCAACAGTCACATTTTCAGGCAAGGATTAAAACCTCTTGTAGGCTACC GATTTTATCTTGTTAGACTAAAGCAGTGACAAATAAATAATCGAAATTTCAGTGGCATATCTAG GACAGGAAAATTTATATGGCATTAAGGAATTTTCCATACGAAGGTTTGGTTTGAGTCTGAAGCA GGTTGTGATAATCTCGTTCAGTTTAGCAGTTAAAATGCTATTAATTTCCCGTGTCCATCTAGCT ACTCTTTTTCTTAATCAAGTTGCGAATGGGTTTATTTTTTTCAGACCATTTAAGATGAAATGTG ACAAGAAATGGGGAAAAAAATGATTTATCTAACTATAACCTGACTTACCAAGCAGTAATATTAC ACAATGGTTTCTGTTTTGAAAAGAGCAAACCATACCATGATAACAGCAAACTAAGCCTACGTCA AACAATATGAACATAGTTGTATACCATTGAACATTTTTTTTCATTAATGGAGTTAAGGTCCTCT AGCTTCGTTTAATACACTCACCATTACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTAC TCTTCCGTTAATCTCCGTGCTCTGTCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCC CATCTTCACAACCTTCACACATGACAAGAAACAGTCAGGGTATTTCTGAGTCTTGACTACAATA AAGGTATTTAGGCATGGGCATATAAAATAGATAGATATTAAAGAAGAAACAGCACCTTCACTTT CAGATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTT CCAACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGA GTAGTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGA TGAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010443 						
					
						PMCS
						0.12474263

Conservation Information
Conserved circRNAs	osi_circ_010443
PMCS	0.12474263

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11734942-11732918(+)
11732963-11735025(-)
11734621-11735033(-)
						
						Potential amino acid sequence
						
							MPMTRASRVVSHRVVFLATSFASEADPPKASRVLMNPHQSSMGHSRNKNIPAS*(+)
MHSTSESNSRSTWINWLGCSCSWSGPWNSDADSSILLKP*(-)
MVIGKALGIPDNSVRTYTEAEIRAGIVFQVSKLCTVLQKAIREVLGSTGWDVLVPGVAHGTLMR
IHQYS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11734942-11732918(+) 11732963-11735025(-) 11734621-11735033(-)
Potential amino acid sequence	MPMTRASRVVSHRVVFLATSFASEADPPKASRVLMNPHQSSMGHSRNKNIPAS(+) MHSTSESNSRSTWINWLGCSCSWSGPWNSDADSSILLKP(-) MVIGKALGIPDNSVRTYTEAEIRAGIVFQVSKLCTVLQKAIREVLGSTGWDVLVPGVAHGTLMR IHQYS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os12g0297500_circ_g.5

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