Plant Circular RNA Database

Detail information of Os02g0471500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0471500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_014661
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 16010560-16012421  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0471500						
					
						Parent gene annotation
						
							Protein phosphatase 2C domain containing protein. (Os02t0471500-
01);Protein phosphatase 2C domain containing protein. (Os02t0471
500-02);Similar to protein phosphatase 2C containing protein. (O
s02t0471500-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os02t0471500-02:3
Os02t0471500-01:3
Os02t0471500-03:2

General Information
CircRNA Name	Os02g0471500_circ_g.1
ID in PlantcircBase	osa_circ_014661
Alias	NA
Organism	Oryza sativa
Position	chr2: 16010560-16012421 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0471500
Parent gene annotation	Protein phosphatase 2C domain containing protein. (Os02t0471500- 01);Protein phosphatase 2C domain containing protein. (Os02t0471 500-02);Similar to protein phosphatase 2C containing protein. (O s02t0471500-03)
Parent gene strand	-
Alternative splicing	NA
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	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	Os02t0471500-02:3 Os02t0471500-01:3 Os02t0471500-03:2

			
						 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  
						
							TGGGCAGAAGATCTCTCACCCTCTTAGCAACCAAATGGCCGTTTGGTCCATGGCCATCAAAAAC
ACCACAAAAAATGGTATCCTCTCTTGAACAGAAATTcccatcagtagccaatacaacaaactca
tccttttctgtgatacggtggtacgagacttcaggcatagagattagaccataatccttgagac
agaagtct

									
								

					

						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
						
							CCCATCAGTAGCCAATACAACAAACTCATCCTTTTCTGTGATACGGTGGTACGAGACTTCAGGC
ATAGAGATTAGACCATAATCCTTGAGACAGAAGTCTCCAAATGCCCTAGCCATGGCCAGTCCAG
GGGAGTTGTACTTCGGAAGCCAAACACGAGCAACCTCTGGCTCCTCAGGAAGTGCAAATATCCT
GCCCCTGCGTTGCCTGATTCGCTGTGCTTCACCTGAAAAAGAACCATAGTACAGCATGCATTTC
AACTCAGCAATCTTCATATAATAAAATGAGGAATTGGAGAAGACATGGCATGCATCTCACAAAT
TTTGCAGCTATCCATTACGGAATTAAATTGTTTATTGTATTACGTTGCTGGCCCGAAGCTCTGC
AACTTTGCTCAGTTAACTAGGAGCAAAAAATATTCAGCAGTATTTGCTACTACCATAGTAACAT
TAAATATTTGTCATCAAATATTCATATCTGTAAGCTGAAATAACATTTATATATTGTAAAAGGG
ATACCAGAGGAAACTTCCAACCAGCTACAGGATGATATCAATAACATCTGTAGACACTCATCCA
AAGTTAAATGTATTTTTACAATTTATAAACACTAGAAGGGTCAAATTCCACAGTTCTCAGTAGC
AAGTCGGAAAGTAACATTTGTGTCACTAACAGGTGGCCCTAGGACCCACTTGTCAACCTCACAA
AGGATAATACCTTCCAAATTGCATATATTTAGTGTTGCTAAGCACTTCTTTTTTGTCATAGAAA
TACATCTAGACCAAAATGCTTGGACTTGTTATTAACTTCTACGTTGTCTTCAGGGTGCAAATCT
GAACCTTATTTATTTTAACATGACATAAAAAAAATCCAAAAGCTTTCATAATTTAATTTTAGTA
CAGATCCATGTGAATGCTGGAACAAACATTTCATGAACAAACAATATATGTACCCATTATAGAA
CAATTAGATACTAATAACATGGTTCTTCAGACTTATGAAAAACAATAGGCAATCACATTGGAGA
ACAAATATGAAATGATGAAAGCTACTCCACAGCTTAATATCTAGGAATATTGCATAGTCCAAAG
ATACATAAGGGCCCACAAGAGGACTACAGTTCACAACAAAATCAACAAACCACAAACGAAGAAA
ATATGATGACACAACAAGGGTGACAAAAAAATATATATGTAAAAGATAATTAGGTTAAAGAGAA
ACAGCAGAGAGAAAAAAGTAGGAAGGAAAATGTATAACATACTTGGAATGTTAGGTTTGAGATC
AACTGTCAATTGGACAGCCATAAGCTGATTATCTTTATCTCTTGTGCCTAAGATGGCCCGCGAG
TCCCCGAGGTTACCAATTATAAGATTCCGTCCCTGCATTTAACAAGAATAAGAGAACAAAATCA
ATATTCCAGCATGCACTTTGAGCAGCTTTTCAACTGAATGGAACCAACAGTAGGGATTTCTGTA
AAACAAAATCAGATATGGGTTCCGTTCAATTACCTGCTTGAGCACTGCCACTGCTGTTGTTCCA
CTGAAAAAACAATCTATACTTTTATGTAACTTGAGATCTCTATCCATGACATTGAACGCCCTCA
AAAATGAAGTTCTCAATGCTGTGAAGATCTCTGGGTACTCTCCGTTCTGCTCAGCATCTCTGCC
CATGTTTCCAGGGGATCCTGTTTCATCTCCATTGCTTTTGATGCTGCTAGTGGATGTCTGTCGT
CCTTCATCCGTCCCCAAATCCGCACCAAGCTTAATGGGCAGAAGATCTCTCACCCTCTTAGCAA
CCAAATGGCCGTTTGGTCCATGGCCATCAAAAACACCACAAAAAATGGTATCCTCTCTTGAACA
GAAATT
						
					

			
		

Sequences
Splice junction sequence	TGGGCAGAAGATCTCTCACCCTCTTAGCAACCAAATGGCCGTTTGGTCCATGGCCATCAAAAAC ACCACAAAAAATGGTATCCTCTCTTGAACAGAAATTcccatcagtagccaatacaacaaactca tccttttctgtgatacggtggtacgagacttcaggcatagagattagaccataatccttgagac agaagtct
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	CCCATCAGTAGCCAATACAACAAACTCATCCTTTTCTGTGATACGGTGGTACGAGACTTCAGGC ATAGAGATTAGACCATAATCCTTGAGACAGAAGTCTCCAAATGCCCTAGCCATGGCCAGTCCAG GGGAGTTGTACTTCGGAAGCCAAACACGAGCAACCTCTGGCTCCTCAGGAAGTGCAAATATCCT GCCCCTGCGTTGCCTGATTCGCTGTGCTTCACCTGAAAAAGAACCATAGTACAGCATGCATTTC AACTCAGCAATCTTCATATAATAAAATGAGGAATTGGAGAAGACATGGCATGCATCTCACAAAT TTTGCAGCTATCCATTACGGAATTAAATTGTTTATTGTATTACGTTGCTGGCCCGAAGCTCTGC AACTTTGCTCAGTTAACTAGGAGCAAAAAATATTCAGCAGTATTTGCTACTACCATAGTAACAT TAAATATTTGTCATCAAATATTCATATCTGTAAGCTGAAATAACATTTATATATTGTAAAAGGG ATACCAGAGGAAACTTCCAACCAGCTACAGGATGATATCAATAACATCTGTAGACACTCATCCA AAGTTAAATGTATTTTTACAATTTATAAACACTAGAAGGGTCAAATTCCACAGTTCTCAGTAGC AAGTCGGAAAGTAACATTTGTGTCACTAACAGGTGGCCCTAGGACCCACTTGTCAACCTCACAA AGGATAATACCTTCCAAATTGCATATATTTAGTGTTGCTAAGCACTTCTTTTTTGTCATAGAAA TACATCTAGACCAAAATGCTTGGACTTGTTATTAACTTCTACGTTGTCTTCAGGGTGCAAATCT GAACCTTATTTATTTTAACATGACATAAAAAAAATCCAAAAGCTTTCATAATTTAATTTTAGTA CAGATCCATGTGAATGCTGGAACAAACATTTCATGAACAAACAATATATGTACCCATTATAGAA CAATTAGATACTAATAACATGGTTCTTCAGACTTATGAAAAACAATAGGCAATCACATTGGAGA ACAAATATGAAATGATGAAAGCTACTCCACAGCTTAATATCTAGGAATATTGCATAGTCCAAAG ATACATAAGGGCCCACAAGAGGACTACAGTTCACAACAAAATCAACAAACCACAAACGAAGAAA ATATGATGACACAACAAGGGTGACAAAAAAATATATATGTAAAAGATAATTAGGTTAAAGAGAA ACAGCAGAGAGAAAAAAGTAGGAAGGAAAATGTATAACATACTTGGAATGTTAGGTTTGAGATC AACTGTCAATTGGACAGCCATAAGCTGATTATCTTTATCTCTTGTGCCTAAGATGGCCCGCGAG TCCCCGAGGTTACCAATTATAAGATTCCGTCCCTGCATTTAACAAGAATAAGAGAACAAAATCA ATATTCCAGCATGCACTTTGAGCAGCTTTTCAACTGAATGGAACCAACAGTAGGGATTTCTGTA AAACAAAATCAGATATGGGTTCCGTTCAATTACCTGCTTGAGCACTGCCACTGCTGTTGTTCCA CTGAAAAAACAATCTATACTTTTATGTAACTTGAGATCTCTATCCATGACATTGAACGCCCTCA AAAATGAAGTTCTCAATGCTGTGAAGATCTCTGGGTACTCTCCGTTCTGCTCAGCATCTCTGCC CATGTTTCCAGGGGATCCTGTTTCATCTCCATTGCTTTTGATGCTGCTAGTGGATGTCTGTCGT CCTTCATCCGTCCCCAAATCCGCACCAAGCTTAATGGGCAGAAGATCTCTCACCCTCTTAGCAA CCAAATGGCCGTTTGGTCCATGGCCATCAAAAACACCACAAAAAATGGTATCCTCTCTTGAACA GAAATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131632559

Conservation Information
Conserved circRNAs	NA
PMCS	0.131632559

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16011893-16010638(+)
16012228-16010562(-)
16010590-16012339(-)
						
						Potential amino acid sequence
						
							MARESPRLPIIRFRPCLSTATAVVPLKKQSILLCNLRSLSMTLNALKNEVLNAVKISGYSPFCS
ASLPMFPGDPVSSPLLLMLLVDVCRPSSVPKSAPSLMGRRSLTLLATKWPFGPWPSKTPQKMVS
SLEQKFPSVANTTNSSFSVIRWYETSGIEIRP*(+)
MGRDAEQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLG
DSRAILGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGL
AMARAFGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDGNFCSREDTIFCGVFDGHGPNGHLV
AKRVRDLLPIKLGADLGTDEGRQTSTSSIKSNGDETGSPGNMGRDAEQNGEYPEIFTALRTSFL
RAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLGDSRAILGTRDKDNQLMAVQLTVD
LKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGLAMARAFGDFCLKDYGLISMPEVS
YHRITEKDEFVVLATDGNFCSREDTIFCGVFDGHGPNGHLVAKRVRDLLPIKLGADLGTDEGRQ
TSTSSIKSNGDETGSPGNMGRDAEQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGT
TAVAVLKQGRNLIIGNLGDSRAILGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALP
EEPEVARVWLPKYNSPGLAMARAFGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDGNFCSRE
DTIFCGVFDGHGPNGHLVAKRVRDLLPIKLGADLGTDEGRQTSTSSIKSNGDETGSPGNMGRDA
EQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLGDSRAI
LGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGLAMARA
FGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDG(-)
MSLLYWLLMGISVQERIPFFVVFLMAMDQTAIWLLRG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16011893-16010638(+) 16012228-16010562(-) 16010590-16012339(-)
Potential amino acid sequence	MARESPRLPIIRFRPCLSTATAVVPLKKQSILLCNLRSLSMTLNALKNEVLNAVKISGYSPFCS ASLPMFPGDPVSSPLLLMLLVDVCRPSSVPKSAPSLMGRRSLTLLATKWPFGPWPSKTPQKMVS SLEQKFPSVANTTNSSFSVIRWYETSGIEIRP(+) MGRDAEQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLG DSRAILGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGL AMARAFGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDGNFCSREDTIFCGVFDGHGPNGHLV AKRVRDLLPIKLGADLGTDEGRQTSTSSIKSNGDETGSPGNMGRDAEQNGEYPEIFTALRTSFL RAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLGDSRAILGTRDKDNQLMAVQLTVD LKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGLAMARAFGDFCLKDYGLISMPEVS YHRITEKDEFVVLATDGNFCSREDTIFCGVFDGHGPNGHLVAKRVRDLLPIKLGADLGTDEGRQ TSTSSIKSNGDETGSPGNMGRDAEQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGT TAVAVLKQGRNLIIGNLGDSRAILGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALP EEPEVARVWLPKYNSPGLAMARAFGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDGNFCSRE DTIFCGVFDGHGPNGHLVAKRVRDLLPIKLGADLGTDEGRQTSTSSIKSNGDETGSPGNMGRDA EQNGEYPEIFTALRTSFLRAFNVMDRDLKLHKSIDCFFSGTTAVAVLKQGRNLIIGNLGDSRAI LGTRDKDNQLMAVQLTVDLKPNIPSEAQRIRQRRGRIFALPEEPEVARVWLPKYNSPGLAMARA FGDFCLKDYGLISMPEVSYHRITEKDEFVVLATDG(-) MSLLYWLLMGISVQERIPFFVVFLMAMDQTAIWLLRG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0471500_circ_g.1

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