Plant Circular RNA Database

Detail information of Os12g0288600_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os12g0288600_circ_g.9
					
						ID in PlantcircBase
						osa_circ_011157
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 11070534-11073017  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os12g0288600						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os12t0288600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0288600_circ_g.1 Os12g0288600_circ_g.2 Os12g0288600_circ_g.3 Os12g0288600_circ_g.4 Os12g0288600_circ_g.5 Os12g0288600_circ_g.6 Os12g0288600_circ_g.7 Os12g0288600_circ_g.8 						
					
						Support reads
						19
					
						Tissues
						root, seed
					
						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
						Os12t0288600-01:2

General Information
CircRNA Name	Os12g0288600_circ_g.9
ID in PlantcircBase	osa_circ_011157
Alias	NA
Organism	Oryza sativa
Position	chr12: 11070534-11073017 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os12g0288600
Parent gene annotation	Conserved hypothetical protein. (Os12t0288600-01)
Parent gene strand	-
Alternative splicing	Os12g0288600_circ_g.1 Os12g0288600_circ_g.2 Os12g0288600_circ_g.3 Os12g0288600_circ_g.4 Os12g0288600_circ_g.5 Os12g0288600_circ_g.6 Os12g0288600_circ_g.7 Os12g0288600_circ_g.8
Support reads	19
Tissues	root, seed
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	Os12t0288600-01:2

			
						 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  
						
							CAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGCTTTATCCTCGTTGCTGCAACCGGTG
TGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTTctttttaatatcgctttgagtgttacaa
tcatcctcctttgtttcgctattcaacttggtttggttgtccctaagaaatttcacacataaaa
tctgttac

									
								

					

						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: 253
Transcript exons: 11070534-11070603,11072835-11073017
CTTTTTAATATCGCTTTGAGTGTTACAATCATCCTCCTTTGTTTCGCTATTCAACTTGGTTTGG
TTGTCCCTCTTTGATATCTGCTCTTTCTCCAAGGTAACATCGGCTTCAGCTAGCATCACCTTCT
TGGCATCATCGATACATGGTGACTTCAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGC
TTTATCCTCGTTGCTGCAACCGGTGTGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTT
						
					

						Genomic sequence
						
							CTTTTTAATATCGCTTTGAGTGTTACAATCATCCTCCTTTGTTTCGCTATTCAACTTGGTTTGG
TTGTCCCTAAGAAATTTCACACATAAAATCTGTTACATATTAGAATAAAGAAATCAATACTTTA
ACCTGAATCATTGCACAAGATGTGAATACTTTCATGCAATGCTGCATGTAGAGGCAAGAAGTGA
GTAATACAATAATACATCACATACAAAATTTTGAATATACTCAATTATTGTCAGCATTATGTTG
AATTTATATATAGAATAAACAACATAGCTTCAAATGAGTTCGAAGGATGGCATAGAAGACATAA
TATGAATGCCTAATCGTATTCAAGAAAAAAAATCTGAATGCCTAATTATTGACTTAAATATATA
TGGGACGTTGTTATGGTCTACACCGATGTCCTCAGCCTCTCACCATATATGAAATATCATAACA
TAAGTAATCACTTATCGTGACGTGGACGCGGAGTTAGCTAAACAAATCCACACATCTTAAATGC
ACAGAAAAAAAAAAGGAGAAATGTTATAGTTTATACTTCTAGACCTTTACTAGCATTCATTAAC
TTCATAAGACATGTGCTACTACATGAAAGGATTAGAACATTAAAACAAGAGTAGTGCAACTTCA
CATATGTAAACATGGATTGATTTTGCTTACAAATTAATAGTGTCATTTTTCAGTGATAATCACC
CAGTAATTATATGTAAACTGGCATGGGATTATGCAGCCAACCTTTTGCAGTCTTAGCCATTATT
ATAGGCAATAACAAACGATATCACTTGACAACAAGTATATTAGTTGTCTTGAAAAATACGTTCC
AAAAGTATATTTCAGGTTGTTTTACAAATAGATTATTACGAAAATCAAAGTTTTGCAATCAAGA
CAAGAAGTAATATATTTAGTGATCAAGTGGTACAATCAGAAAATTGCCATTTTTTTACTACTAG
CATAGCGCTCATCTTAAGTATCCTCAACTCTAAAAATTATATACATACTACGAGATAGGAACCA
GATTCACATGTGCATTGCATGCAACTTTATTTAAAAAAAAACTTATAGACGACATACACATTAC
TACAAATGCCCCAAAAGATTACGAGTGAAAGATAGGGGTAGAGCTAGGGATGGTAAAGGGCCCA
ACATTTTAGCCTAGAAAATTTGAGGGTTGGGTCTAAAATGGGGTGGGTTGAACTTTTATACATT
TTCACCTAGAAATATAAGGGCTAGGTAGGATTGTGAAAGAACCCATGGGAATTGACCCATTACC
ACCCCTAAGTAGAGCACAAAATCACACCCAATTACTCCAATTAAAAGGACTAAATATATTTTAT
GCAACCTTTCTATTTTAGTTGATTACTATAATTTGCAACAGTGCAGTGTTTAGAAGTTTTTGTA
GACACTTGTAATTGCTTATATTAAATATTAGCATTTAGCAGTATGCTAACAACACACTTCACAT
CGAGGAAATCCATAGTAAGTTGAAAGTAACTTAACTGCAGAAACACTAAATGTCTAATTTGAAC
TATGAATGTGACAAAACTATTGCAGTTAATTGTTTCCTTTCTAAAAGTAACATAGTTGATAACC
GAAAAAACATCATGTATAAGAAAAAAAGTGAATTGCAATCTGGGTCATCTTTTATTGCCAAAAT
TTCACTTTGGACCATCCTTTCCCCAATCTTTTTGCTTTGCATTAGCAAATTTTATGTTTGTTGC
ACTTTGGACCACCCCAACTATCTTCCTGGCATTCCTCTGGCATCTTGTATGGCCTGGTGGAGGG
AAGACGCCAGGTCACCAGCATGCCAGAGCCGATGTGCTCGAGGTCATTGATGTGATAAATAAGT
GGTTTGGGGTGGTCCAAATTGCAAAAAGGTAAAATTACCTAGCCCAAAGTGGAAAGATTAGGCA
AAGGTGGTCCAAAGCAAAACTTTGGCTATGAAAGGTGGATCAAACTCACTCGTAAGAAAATTAT
CATGCTAAAGGTAAGAATCATATGGCATCATATATAAGATATAAAGATAGTAGTTAAAGTGTGG
TTTTCATTTGTTATAAATCATGGTCACATTAAATCAATCTGAATTGAAGGAAGAAAATAAAGGG
TGCTCAACAACTACAGTTTGCAGACTACAAGTATCAGATCCTGGTATGCCAGATGCATTAGAAT
ATGAAATATTTGCAGCCAATTACAGAAAGTAGTTTTATTAGCTTGTATAGATACTTTGCTGGCC
AGTATTCATGTTCGTCACAGATAAAACAGTTTACCTGATTGAAGTGGCATAGTTAACATACCTC
TTTGATATCTGCTCTTTCTCCAAGGTAACATCGGCTTCAGCTAGCATCACCTTCTTGGCATCAT
CGATACATGGTGACTTCAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGCTTTATCCTC
GTTGCTGCAACCGGTGTGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTT
						
					

			
		

Sequences
Splice junction sequence	CAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGCTTTATCCTCGTTGCTGCAACCGGTG TGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTTctttttaatatcgctttgagtgttacaa tcatcctcctttgtttcgctattcaacttggtttggttgtccctaagaaatttcacacataaaa tctgttac
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: 253 Transcript exons: 11070534-11070603,11072835-11073017 CTTTTTAATATCGCTTTGAGTGTTACAATCATCCTCCTTTGTTTCGCTATTCAACTTGGTTTGG TTGTCCCTCTTTGATATCTGCTCTTTCTCCAAGGTAACATCGGCTTCAGCTAGCATCACCTTCT TGGCATCATCGATACATGGTGACTTCAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGC TTTATCCTCGTTGCTGCAACCGGTGTGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTT
Genomic sequence	CTTTTTAATATCGCTTTGAGTGTTACAATCATCCTCCTTTGTTTCGCTATTCAACTTGGTTTGG TTGTCCCTAAGAAATTTCACACATAAAATCTGTTACATATTAGAATAAAGAAATCAATACTTTA ACCTGAATCATTGCACAAGATGTGAATACTTTCATGCAATGCTGCATGTAGAGGCAAGAAGTGA GTAATACAATAATACATCACATACAAAATTTTGAATATACTCAATTATTGTCAGCATTATGTTG AATTTATATATAGAATAAACAACATAGCTTCAAATGAGTTCGAAGGATGGCATAGAAGACATAA TATGAATGCCTAATCGTATTCAAGAAAAAAAATCTGAATGCCTAATTATTGACTTAAATATATA TGGGACGTTGTTATGGTCTACACCGATGTCCTCAGCCTCTCACCATATATGAAATATCATAACA TAAGTAATCACTTATCGTGACGTGGACGCGGAGTTAGCTAAACAAATCCACACATCTTAAATGC ACAGAAAAAAAAAAGGAGAAATGTTATAGTTTATACTTCTAGACCTTTACTAGCATTCATTAAC TTCATAAGACATGTGCTACTACATGAAAGGATTAGAACATTAAAACAAGAGTAGTGCAACTTCA CATATGTAAACATGGATTGATTTTGCTTACAAATTAATAGTGTCATTTTTCAGTGATAATCACC CAGTAATTATATGTAAACTGGCATGGGATTATGCAGCCAACCTTTTGCAGTCTTAGCCATTATT ATAGGCAATAACAAACGATATCACTTGACAACAAGTATATTAGTTGTCTTGAAAAATACGTTCC AAAAGTATATTTCAGGTTGTTTTACAAATAGATTATTACGAAAATCAAAGTTTTGCAATCAAGA CAAGAAGTAATATATTTAGTGATCAAGTGGTACAATCAGAAAATTGCCATTTTTTTACTACTAG CATAGCGCTCATCTTAAGTATCCTCAACTCTAAAAATTATATACATACTACGAGATAGGAACCA GATTCACATGTGCATTGCATGCAACTTTATTTAAAAAAAAACTTATAGACGACATACACATTAC TACAAATGCCCCAAAAGATTACGAGTGAAAGATAGGGGTAGAGCTAGGGATGGTAAAGGGCCCA ACATTTTAGCCTAGAAAATTTGAGGGTTGGGTCTAAAATGGGGTGGGTTGAACTTTTATACATT TTCACCTAGAAATATAAGGGCTAGGTAGGATTGTGAAAGAACCCATGGGAATTGACCCATTACC ACCCCTAAGTAGAGCACAAAATCACACCCAATTACTCCAATTAAAAGGACTAAATATATTTTAT GCAACCTTTCTATTTTAGTTGATTACTATAATTTGCAACAGTGCAGTGTTTAGAAGTTTTTGTA GACACTTGTAATTGCTTATATTAAATATTAGCATTTAGCAGTATGCTAACAACACACTTCACAT CGAGGAAATCCATAGTAAGTTGAAAGTAACTTAACTGCAGAAACACTAAATGTCTAATTTGAAC TATGAATGTGACAAAACTATTGCAGTTAATTGTTTCCTTTCTAAAAGTAACATAGTTGATAACC GAAAAAACATCATGTATAAGAAAAAAAGTGAATTGCAATCTGGGTCATCTTTTATTGCCAAAAT TTCACTTTGGACCATCCTTTCCCCAATCTTTTTGCTTTGCATTAGCAAATTTTATGTTTGTTGC ACTTTGGACCACCCCAACTATCTTCCTGGCATTCCTCTGGCATCTTGTATGGCCTGGTGGAGGG AAGACGCCAGGTCACCAGCATGCCAGAGCCGATGTGCTCGAGGTCATTGATGTGATAAATAAGT GGTTTGGGGTGGTCCAAATTGCAAAAAGGTAAAATTACCTAGCCCAAAGTGGAAAGATTAGGCA AAGGTGGTCCAAAGCAAAACTTTGGCTATGAAAGGTGGATCAAACTCACTCGTAAGAAAATTAT CATGCTAAAGGTAAGAATCATATGGCATCATATATAAGATATAAAGATAGTAGTTAAAGTGTGG TTTTCATTTGTTATAAATCATGGTCACATTAAATCAATCTGAATTGAAGGAAGAAAATAAAGGG TGCTCAACAACTACAGTTTGCAGACTACAAGTATCAGATCCTGGTATGCCAGATGCATTAGAAT ATGAAATATTTGCAGCCAATTACAGAAAGTAGTTTTATTAGCTTGTATAGATACTTTGCTGGCC AGTATTCATGTTCGTCACAGATAAAACAGTTTACCTGATTGAAGTGGCATAGTTAACATACCTC TTTGATATCTGCTCTTTCTCCAAGGTAACATCGGCTTCAGCTAGCATCACCTTCTTGGCATCAT CGATACATGGTGACTTCAACTTTTTGGAACCACTATGATCCTGATCTTGGTGGGCTTTATCCTC GTTGCTGCAACCGGTGTGCTTTCCAGTGTTTGCCACCTTCAGTTTCTTTTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225805888

Conservation Information
Conserved circRNAs	NA
PMCS	0.225805888

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11072937-11070538(+)
11072909-11070549(+)
11072886-11072960(-)
11070567-11072960(-)
						
						Potential amino acid sequence
						
							MILILVGFILVAATGVLSSVCHLQFLFSF*(+)
MVTSTFWNHYDPDLGGLYPRCCNRCAFQCLPPSVSFFFLISL*(+)
MLAEADVTLEKEQISKRDNQTKLNSETKEDDCNTQSDIKKKKETEGGKHWKAHRLQQRG*(-)
MIVTLKAILKRKKKLKVANTGKHTGCSNEDKAHQDQDHSGSKKLKSPCIDDAKKVMLAEADVTL
EKEQISKRDNQTKLNSETKEDDCNTQSDIKKKKETEGGKHWKAHRLQQRG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11072937-11070538(+) 11072909-11070549(+) 11072886-11072960(-) 11070567-11072960(-)
Potential amino acid sequence	MILILVGFILVAATGVLSSVCHLQFLFSF(+) MVTSTFWNHYDPDLGGLYPRCCNRCAFQCLPPSVSFFFLISL(+) MLAEADVTLEKEQISKRDNQTKLNSETKEDDCNTQSDIKKKKETEGGKHWKAHRLQQRG(-) MIVTLKAILKRKKKLKVANTGKHTGCSNEDKAHQDQDHSGSKKLKSPCIDDAKKVMLAEADVTL EKEQISKRDNQTKLNSETKEDDCNTQSDIKKKKETEGGKHWKAHRLQQRG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0288600_circ_g.9

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