Plant Circular RNA Database

Detail information of Os01g0319000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0319000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001536
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 12120831-12121924  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0319066						
					
						Parent gene annotation
						
							Hypothetical protein. (Os01t0319066-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot, 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
						Os01t0319000-02:5
Os01t0319000-01:5
Os01t0319066-00:5
Os01t0319000-02:5
Os01t0319000-01:5

General Information
CircRNA Name	Os01g0319000_circ_g.1
ID in PlantcircBase	osa_circ_001536
Alias	NA
Organism	Oryza sativa
Position	chr1: 12120831-12121924 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ie-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0319066
Parent gene annotation	Hypothetical protein. (Os01t0319066-00)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	shoot, 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	Os01t0319000-02:5 Os01t0319000-01:5 Os01t0319066-00:5 Os01t0319000-02:5 Os01t0319000-01:5

			
						 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  
						
							GACTGTGTGTGTGAATGTGCAGTGCTTCTTCCCTCAGAACATAATCGACGGCATAAAGACACCC
ATCTTCCTGCTGAATGCGGCGTACGACGTCTGGCAGtgtgcatggacgggacgccgccggcgta
ccacctggacccgggctccggcggcggcaaccggagctgggtggtcaacctggagggcggcggg
tggtgcaa

						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
						
							TGTGCATGGACGGGACGCCGCCGGCGTACCACCTGGACCCGGGCTCCGGCGGCGGCAACCGGAG
CTGGGTGGTCAACCTGGAGGGCGGCGGGTGGTGCAACAACGCCCGCACGTGCCGCTTCCGCACC
GCCAGCCGCCACGGCTCCTCCGACCACATGGAGCGCCGCATCGCCTTCACCGGCATCATGAGCT
CCGCCGCCGCCGACAACCCCGGTCCGTCCATCTCCTCTCCTCCGCCGCCGTCTCGAACTCTCGA
TCAATCAGTGTATGCATATGCTAACCAAACCAAATGGCAACGTACAGATTTCCACAGCTGGAAC
CGCGTCAAGATCCGCTACTGCGACAGCGGGTCCTTCGCCGGCGACGCCTTCAACGAGGTGATCA
ATCAAACCCATCCAGCTAGCAGCTGATCCGATCATTCCTGATTAGCTAAGAATCAATGGACTTG
TGTATAGGGATTGAAGCTGCAATTCCGGGGGCAGCGCATCTGGGGGGCGGTGATCCAGCACCTG
CTCGACGTCGGCATGGCCTCCGCCGAGCATGTGCTGCTCACCGGCTGCTCCGCCGGCGGCCTCG
CCGCGATCCTCCACTGCGACCAGCTCCGCGCCCTCCTCCCCGCCGCCGCCACCGTCAAGTGCCT
CTCCGACGGCGGCCTCTTCCTCGACGCGTACGTACTTGTGTTCTGTCCACTGACGCGATTATTT
TTCTCCAAGCTAGCTAAGCCCATTATTCAATTCTTATCGCTTCGCGCGTTGCAGCGTGGACGTC
GCCGGCGGCAGGAGCCTGAGGTCATACTACGGCGACGTCGTCGGCCTGCAGGCGGTGGCGCCCA
ACCTTCCCGAGACCTGCACCGACCATCTCGACGCCACCTCGGTGCGTATACTGCACACTGTATT
CATGCATATGCAATTAATTATGTGTTCATGCTGATCAATTCAGAGATGACTAATTAGATTTAGA
TCGATGCAAGAAGAGCATTACATAATTATGATGCGACTGTGTGTGTGAATGTGCAGTGCTTCTT
CCCTCAGAACATAATCGACGGCATAAAGACACCCATCTTCCTGCTGAATGCGGCGTACGACGTC
TGGCAG

Sequences
Splice junction sequence	GACTGTGTGTGTGAATGTGCAGTGCTTCTTCCCTCAGAACATAATCGACGGCATAAAGACACCC ATCTTCCTGCTGAATGCGGCGTACGACGTCTGGCAGtgtgcatggacgggacgccgccggcgta ccacctggacccgggctccggcggcggcaaccggagctgggtggtcaacctggagggcggcggg tggtgcaa
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	TGTGCATGGACGGGACGCCGCCGGCGTACCACCTGGACCCGGGCTCCGGCGGCGGCAACCGGAG CTGGGTGGTCAACCTGGAGGGCGGCGGGTGGTGCAACAACGCCCGCACGTGCCGCTTCCGCACC GCCAGCCGCCACGGCTCCTCCGACCACATGGAGCGCCGCATCGCCTTCACCGGCATCATGAGCT CCGCCGCCGCCGACAACCCCGGTCCGTCCATCTCCTCTCCTCCGCCGCCGTCTCGAACTCTCGA TCAATCAGTGTATGCATATGCTAACCAAACCAAATGGCAACGTACAGATTTCCACAGCTGGAAC CGCGTCAAGATCCGCTACTGCGACAGCGGGTCCTTCGCCGGCGACGCCTTCAACGAGGTGATCA ATCAAACCCATCCAGCTAGCAGCTGATCCGATCATTCCTGATTAGCTAAGAATCAATGGACTTG TGTATAGGGATTGAAGCTGCAATTCCGGGGGCAGCGCATCTGGGGGGCGGTGATCCAGCACCTG CTCGACGTCGGCATGGCCTCCGCCGAGCATGTGCTGCTCACCGGCTGCTCCGCCGGCGGCCTCG CCGCGATCCTCCACTGCGACCAGCTCCGCGCCCTCCTCCCCGCCGCCGCCACCGTCAAGTGCCT CTCCGACGGCGGCCTCTTCCTCGACGCGTACGTACTTGTGTTCTGTCCACTGACGCGATTATTT TTCTCCAAGCTAGCTAAGCCCATTATTCAATTCTTATCGCTTCGCGCGTTGCAGCGTGGACGTC GCCGGCGGCAGGAGCCTGAGGTCATACTACGGCGACGTCGTCGGCCTGCAGGCGGTGGCGCCCA ACCTTCCCGAGACCTGCACCGACCATCTCGACGCCACCTCGGTGCGTATACTGCACACTGTATT CATGCATATGCAATTAATTATGTGTTCATGCTGATCAATTCAGAGATGACTAATTAGATTTAGA TCGATGCAAGAAGAGCATTACATAATTATGATGCGACTGTGTGTGTGAATGTGCAGTGCTTCTT CCCTCAGAACATAATCGACGGCATAAAGACACCCATCTTCCTGCTGAATGCGGCGTACGACGTC TGGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.247756071

Conservation Information
Conserved circRNAs	NA
PMCS	0.247756071

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							12121903-12121016(+)
12120837-12121016(+)
12121374-12121860(-)
12121019-12121463(-)
						
					

						Potential amino acid sequence
						
							MRRTTSGSVHGRDAAGVPPGPGLRRRQPELGGQPGGRRVVQQRPHVPLPHRQPPRLLRPHGAPH
RLHRHHELRRRRQPRFPQLEPRQDPLLRQRVLRRRRLQRGIEAAIPGAAHLGGGDPAPARRRHG
LRRACAAHRLLRRRPRRDPPLRPAPRPPPRRRHRQVPLRRRPLPRRRGRRRRQEPEVILRRRRR
PAGGGAQPSRDLHRPSRRHLVLLPSEHNRRHKDTHLPAECGVRRLAVCMDGTPPAYHLDPGSGG
GNRSWVVNLEGGGWCNNARTCRFRTASRHGSSDHMERRIAFTGIMSSAAADNPDFHSWNRVKIR
YCDSGSFAGDAFNEGLKLQFRGQRIWGAVIQHLLDVGMASAEHVLLTGCSAGGLAAILHCDQLR
ALLPAAATVKCLSDGGLFLDAVDVAGGRSLRSYYGDVVGLQAVAPNLPETCTDHLDATSCFFPQ
NIIDGIKTPIFLLNAAYDVWQCAWTGRRRRTTWTRAPAAATGAGWSTWRAAGGATTPARAASAP
PAATAPPTTWSAASPSPAS*(+)
MDGTPPAYHLDPGSGGGNRSWVVNLEGGGWCNNARTCRFRTASRHGSSDHMERRIAFTGIMSSA
AADNPDFHSWNRVKIRYCDSGSFAGDAFNEGLKLQFRGQRIWGAVIQHLLDVGMASAEHVLLTG
CSAGGLAAILHCDQLRALLPAAATVKCLSDGGLFLDAVDVAGGRSLRSYYGDVVGLQAVAPNLP
ETCTDHLDATSCFFPQNIIDGIKTPIFLLNAAYDVWQCAWTGRRRRTTWTRAPAAATGAGWSTW
RAAGGATTPARAASAPPAATAPPTTWSAASPSPAS*(+)
MLGGGHADVEQVLDHRPPDALPPELQLQSLVEGVAGEGPAVAVADLDAVPAVEIGVVGGGGAHD
AGEGDAALHVVGGAVAAGGAEAARAGVVAPPAALQVDHPAPVAAAGARVQVVRRRRPVHAHCQT
SYAAFSRKMGVFMPSIMF*(-)
MMPVKAMRRSMWSEEPWRLAVRKRHVRALLHHPPPSRLTTQLRLPPPEPGSRWYAGGVPSMHTA
RRRTPHSAGRWVSLCRRLCSEGRSTRWRRDGRCRSREGWAPPPAGRRRRRSMTSGSCRRRRPRR
RGRGRRRRGT*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	12121903-12121016(+) 12120837-12121016(+) 12121374-12121860(-) 12121019-12121463(-)
Potential amino acid sequence	MRRTTSGSVHGRDAAGVPPGPGLRRRQPELGGQPGGRRVVQQRPHVPLPHRQPPRLLRPHGAPH RLHRHHELRRRRQPRFPQLEPRQDPLLRQRVLRRRRLQRGIEAAIPGAAHLGGGDPAPARRRHG LRRACAAHRLLRRRPRRDPPLRPAPRPPPRRRHRQVPLRRRPLPRRRGRRRRQEPEVILRRRRR PAGGGAQPSRDLHRPSRRHLVLLPSEHNRRHKDTHLPAECGVRRLAVCMDGTPPAYHLDPGSGG GNRSWVVNLEGGGWCNNARTCRFRTASRHGSSDHMERRIAFTGIMSSAAADNPDFHSWNRVKIR YCDSGSFAGDAFNEGLKLQFRGQRIWGAVIQHLLDVGMASAEHVLLTGCSAGGLAAILHCDQLR ALLPAAATVKCLSDGGLFLDAVDVAGGRSLRSYYGDVVGLQAVAPNLPETCTDHLDATSCFFPQ NIIDGIKTPIFLLNAAYDVWQCAWTGRRRRTTWTRAPAAATGAGWSTWRAAGGATTPARAASAP PAATAPPTTWSAASPSPAS(+) MDGTPPAYHLDPGSGGGNRSWVVNLEGGGWCNNARTCRFRTASRHGSSDHMERRIAFTGIMSSA AADNPDFHSWNRVKIRYCDSGSFAGDAFNEGLKLQFRGQRIWGAVIQHLLDVGMASAEHVLLTG CSAGGLAAILHCDQLRALLPAAATVKCLSDGGLFLDAVDVAGGRSLRSYYGDVVGLQAVAPNLP ETCTDHLDATSCFFPQNIIDGIKTPIFLLNAAYDVWQCAWTGRRRRTTWTRAPAAATGAGWSTW RAAGGATTPARAASAPPAATAPPTTWSAASPSPAS(+) MLGGGHADVEQVLDHRPPDALPPELQLQSLVEGVAGEGPAVAVADLDAVPAVEIGVVGGGGAHD AGEGDAALHVVGGAVAAGGAEAARAGVVAPPAALQVDHPAPVAAAGARVQVVRRRRPVHAHCQT SYAAFSRKMGVFMPSIMF(-) MMPVKAMRRSMWSEEPWRLAVRKRHVRALLHHPPPSRLTTQLRLPPPEPGSRWYAGGVPSMHTA RRRTPHSAGRWVSLCRRLCSEGRSTRWRRDGRCRSREGWAPPPAGRRRRRSMTSGSCRRRRPRR RGRGRRRRGT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0319000_circ_g.1

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