Plant Circular RNA Database

Detail information of Os02g0741500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0741500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_016506
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 31029438-31031346  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0741500						
					
						Parent gene annotation
						
							Ribbon-helix-helix domain containing protein. (Os02t0741500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0741500_circ_g.1 Os02g0741500_circ_g.2 Os02g0741500_circ_g.4 Os02g0741500_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os02t0741500-01:8

General Information
CircRNA Name	Os02g0741500_circ_g.3
ID in PlantcircBase	osa_circ_016506
Alias	NA
Organism	Oryza sativa
Position	chr2: 31029438-31031346 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0741500
Parent gene annotation	Ribbon-helix-helix domain containing protein. (Os02t0741500-01)
Parent gene strand	-
Alternative splicing	Os02g0741500_circ_g.1 Os02g0741500_circ_g.2 Os02g0741500_circ_g.4 Os02g0741500_circ_g.5
Support reads	1
Tissues	shoot
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	Os02t0741500-01:8

			
						 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  
						
							CCTCATCCATGTTTGATTTCCTTAGTTCAGCTAAGTTCTTCACTTTTTCTTTAAGTTCCTCGTC
AAGCCAGAGATTATGCTTTTCAAGCAGATCTTTCTCcctctccagaactgcttccgcgtgcctt
cgtccaaacctctcatggcgcaaagcatcagtagcttcttggtatttctcatagatcttagcga
gctgacac

									
								

					

						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
						
							CCTCTCCAGAACTGCTTCCGCGTGCCTTCGTCCAAACCTCTCATGGCGCAAAGCATCAGTAGCT
TCTTGGTATTTCTCATAGATCTTAGCGAGCTGACACAGTGAAGGTAATCAGGTAATATTTGAAA
CGTAAATGCACAGATTAAACAGTATAGAGGAGATTGGACATACACTCCAACCATCACGAAGAAG
AGAAGCAGCTAATGCAGTTCCAGAAACACCAGTAGGTACTTTTGGTACAATCATTAGATCATTC
TGATTTGCTGGATCAGAAAATGCCCTGCCAAATAGGAAACAAAAAGAATTTCAAAATAGATGAA
AATTAAGGTCTTGTTTAATAATTGGATCATACTCCTTCCTGTGTTTCTGTTATGATTTGTAAAA
CATTGCATATCATGGTTTTCCCTAGCACCAGCTAGATATGATCAGTGACTTATCAACACAATAA
GGAATGACTACAAAATGTTTGGGAACTATTGGTGTTGGGACAAAGATAATATCATGTTTACAAC
GGTACAGCACAAACAGAAGTTAACATCATTCAATAAGATAAGCTTTAATGAGCAAAACACAATT
AATATCAAAAAGCCTTGAACAATGCTCTCTAGAAAGTGTTACTTAGCTATGCTAATAGCGCCTG
CTTTAGATATCTCGCTAGACTAAAAGTATAAAGTTTCAGAAATAATACATTTCTTTCATCGGTG
AGCCTGCTAGATCACAAGGGTCTGCTGCAACCAATGGAGTGAAGCTCAATTCACTAGATTTCCT
TGTATTCTCCAGATCAGATTCACACTTTTCAAGCTTTTGCTTTAAGTAGGTAGCTTCCTGAATA
GCATGAAAGCCAAAAGATCAACTAAGAAACTCACAATATCAAACTGATTTTTCAATAAGAAAAC
CATCCAAAATAATAATCAATATACCATTTCAAGGTCCCTCTTGGCTGAAGTCTCCTTCTCAAGC
TTTTCCTTGTATTCATCTTCAACCTGGGTCAAATGTGTCTGGTTTACACCGAAAAAAATAATAA
GAATAATTAGATTTTCATGTTCATGAGCGGGGCAAAATTAAATACAAGTAAAGGCATTACCTCC
AATGCTTTAATAACACCTTCAAGTTCCCCCGCTTTTTTTGACCATTCCTCAGAACTTTCTTTGT
GAAGTTCAGCAAGTTTCATGACCTTTTAAGGGAAACAGAACAAAAGGCAATAATTAAAAGCGTC
ATCGACTTGGCTTATAGAGAGGAACATCAGTGCATTCCATTAAAAAAAAAGAAATATCCTAGAT
ACACTAGATGGGTTAAGTTGTGGTGTGCCGTGTGCATATACAATAACGATGGACTGATCTGCTG
GTCTAGTACAAATAGCTCAGCACACATTTTCTTCCATTTCCTTTCTAAAATTTAAACAAGCAGG
GAGTGGGAGCAGTAAGGGTGAAATAAACAAGGGGGGGTTAATGGGAATAAAGGTAAACCATACA
GTTGAAAGCTCTGCAGCCAGGCGTTGTTCATTAGCAGCTGCAGCATCCTTTGTTGAGCACAACT
CCTTTAGATCATAAAAGCAAAGCAAAGCAAAAATTAGATGATGGCAATAATACAAAAGCTAACA
AATCTGACAATTTACCTTTTCCATATATGATACCCTTTGCTCCAATTCAGAAACCCGTTCTTTG
CTTCGCCTCAAGGAACTGGATGATTCAGAAGTCTCTCTTTCAAGCTGAAACCAACATAATCAGG
TTTTGCTTTCTGCTTGCATTATGTCACATGTCAAGGTTGGAATAGGACTCACCTCGGCAACCTT
TGCTGACATCCTAGCCTCCTCATCCATGTTTGATTTCCTTAGTTCAGCTAAGTTCTTCACTTTT
TCTTTAAGTTCCTCGTCAAGCCAGAGATTATGCTTTTCAAGCAGATCTTTCTC
						
					

			
		

Sequences
Splice junction sequence	CCTCATCCATGTTTGATTTCCTTAGTTCAGCTAAGTTCTTCACTTTTTCTTTAAGTTCCTCGTC AAGCCAGAGATTATGCTTTTCAAGCAGATCTTTCTCcctctccagaactgcttccgcgtgcctt cgtccaaacctctcatggcgcaaagcatcagtagcttcttggtatttctcatagatcttagcga gctgacac
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	CCTCTCCAGAACTGCTTCCGCGTGCCTTCGTCCAAACCTCTCATGGCGCAAAGCATCAGTAGCT TCTTGGTATTTCTCATAGATCTTAGCGAGCTGACACAGTGAAGGTAATCAGGTAATATTTGAAA CGTAAATGCACAGATTAAACAGTATAGAGGAGATTGGACATACACTCCAACCATCACGAAGAAG AGAAGCAGCTAATGCAGTTCCAGAAACACCAGTAGGTACTTTTGGTACAATCATTAGATCATTC TGATTTGCTGGATCAGAAAATGCCCTGCCAAATAGGAAACAAAAAGAATTTCAAAATAGATGAA AATTAAGGTCTTGTTTAATAATTGGATCATACTCCTTCCTGTGTTTCTGTTATGATTTGTAAAA CATTGCATATCATGGTTTTCCCTAGCACCAGCTAGATATGATCAGTGACTTATCAACACAATAA GGAATGACTACAAAATGTTTGGGAACTATTGGTGTTGGGACAAAGATAATATCATGTTTACAAC GGTACAGCACAAACAGAAGTTAACATCATTCAATAAGATAAGCTTTAATGAGCAAAACACAATT AATATCAAAAAGCCTTGAACAATGCTCTCTAGAAAGTGTTACTTAGCTATGCTAATAGCGCCTG CTTTAGATATCTCGCTAGACTAAAAGTATAAAGTTTCAGAAATAATACATTTCTTTCATCGGTG AGCCTGCTAGATCACAAGGGTCTGCTGCAACCAATGGAGTGAAGCTCAATTCACTAGATTTCCT TGTATTCTCCAGATCAGATTCACACTTTTCAAGCTTTTGCTTTAAGTAGGTAGCTTCCTGAATA GCATGAAAGCCAAAAGATCAACTAAGAAACTCACAATATCAAACTGATTTTTCAATAAGAAAAC CATCCAAAATAATAATCAATATACCATTTCAAGGTCCCTCTTGGCTGAAGTCTCCTTCTCAAGC TTTTCCTTGTATTCATCTTCAACCTGGGTCAAATGTGTCTGGTTTACACCGAAAAAAATAATAA GAATAATTAGATTTTCATGTTCATGAGCGGGGCAAAATTAAATACAAGTAAAGGCATTACCTCC AATGCTTTAATAACACCTTCAAGTTCCCCCGCTTTTTTTGACCATTCCTCAGAACTTTCTTTGT GAAGTTCAGCAAGTTTCATGACCTTTTAAGGGAAACAGAACAAAAGGCAATAATTAAAAGCGTC ATCGACTTGGCTTATAGAGAGGAACATCAGTGCATTCCATTAAAAAAAAAGAAATATCCTAGAT ACACTAGATGGGTTAAGTTGTGGTGTGCCGTGTGCATATACAATAACGATGGACTGATCTGCTG GTCTAGTACAAATAGCTCAGCACACATTTTCTTCCATTTCCTTTCTAAAATTTAAACAAGCAGG GAGTGGGAGCAGTAAGGGTGAAATAAACAAGGGGGGGTTAATGGGAATAAAGGTAAACCATACA GTTGAAAGCTCTGCAGCCAGGCGTTGTTCATTAGCAGCTGCAGCATCCTTTGTTGAGCACAACT CCTTTAGATCATAAAAGCAAAGCAAAGCAAAAATTAGATGATGGCAATAATACAAAAGCTAACA AATCTGACAATTTACCTTTTCCATATATGATACCCTTTGCTCCAATTCAGAAACCCGTTCTTTG CTTCGCCTCAAGGAACTGGATGATTCAGAAGTCTCTCTTTCAAGCTGAAACCAACATAATCAGG TTTTGCTTTCTGCTTGCATTATGTCACATGTCAAGGTTGGAATAGGACTCACCTCGGCAACCTT TGCTGACATCCTAGCCTCCTCATCCATGTTTGATTTCCTTAGTTCAGCTAAGTTCTTCACTTTT TCTTTAAGTTCCTCGTCAAGCCAGAGATTATGCTTTTCAAGCAGATCTTTCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.133841147

Conservation Information
Conserved circRNAs	NA
PMCS	0.133841147

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							31031324-31029638(+)
31030608-31029516(+)
31031258-31029440(-)
31029621-31031288(-)
						
					

						Potential amino acid sequence
						
							MLFKQIFLPLQNCFRVPSSKPLMAQSISSFLVFLIDLSETPTITKKRSS*(+)
MTVESSAARRCSLAAAASFVEHNSFSIYDTLCSNSETRSLLRLKELDDSEVSLSSSATFADILA
SSSMFDFLSSAKFFTFSLSSSSSQRLCFSSRSFSLSRTASACLRPNLSWRKASVASWYFS*(+)
MDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKELCSTKDAAAANEQRLAAEL
STVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKLEKETSAKRDLEMEATYLK
QKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPANQNDLMIVPKVPTGVSGT
ALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKDLLEKHNLWLDEELKEKVK
NLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKELCSTKDAAAA
NEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKLEKETSAKRD
LEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPANQNDLMIVP
KVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKDLLEKHNLWL
DEELKEKVKNLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKEL
CSTKDAAAANEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKL
EKETSAKRDLEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPA
NQNDLMIVPKVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKD
LLEKHNLWLDEELKEKVKNLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQ
RVSYMEKELCSTKDAAAANEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQ
VEDEYKEKLEKETSAKRDLEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPM
KEMAFSDPANQNDLMIVPKVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHA
EAVLER(-)
MVGVSLRSMRNTKKLLMLCAMRGLDEGTRKQFWRGRKICLKSIISGLTRNLKKK*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	31031324-31029638(+) 31030608-31029516(+) 31031258-31029440(-) 31029621-31031288(-)
Potential amino acid sequence	MLFKQIFLPLQNCFRVPSSKPLMAQSISSFLVFLIDLSETPTITKKRSS(+) MTVESSAARRCSLAAAASFVEHNSFSIYDTLCSNSETRSLLRLKELDDSEVSLSSSATFADILA SSSMFDFLSSAKFFTFSLSSSSSQRLCFSSRSFSLSRTASACLRPNLSWRKASVASWYFS(+) MDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKELCSTKDAAAANEQRLAAEL STVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKLEKETSAKRDLEMEATYLK QKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPANQNDLMIVPKVPTGVSGT ALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKDLLEKHNLWLDEELKEKVK NLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKELCSTKDAAAA NEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKLEKETSAKRD LEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPANQNDLMIVP KVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKDLLEKHNLWL DEELKEKVKNLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQRVSYMEKEL CSTKDAAAANEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQVEDEYKEKL EKETSAKRDLEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPMKEMAFSDPA NQNDLMIVPKVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHAEAVLEREKD LLEKHNLWLDEELKEKVKNLAELRKSNMDEEARMSAKVAELERETSESSSSLRRSKERVSELEQ RVSYMEKELCSTKDAAAANEQRLAAELSTVMKLAELHKESSEEWSKKAGELEGVIKALETHLTQ VEDEYKEKLEKETSAKRDLEMEATYLKQKLEKCESDLENTRKSSELSFTPLVAADPCDLAGSPM KEMAFSDPANQNDLMIVPKVPTGVSGTALAASLLRDGWSLAKIYEKYQEATDALRHERFGRRHA EAVLER(-) MVGVSLRSMRNTKKLLMLCAMRGLDEGTRKQFWRGRKICLKSIISGLTRNLKKK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0741500_circ_g.3

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