Plant Circular RNA Database

Detail information of Os08g0543600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0543600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037916
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27213678-27215423  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0543600						
					
						Parent gene annotation
						
							Alpha-isopropylmalate/homocitrate synthase, conserved site domai
n containing protein. (Os08t0543600-01);Hypothetical conserved g
ene. (Os08t0543600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0543600_circ_g.4 						
					
						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
						Os08t0543600-02:1
Os08t0543600-01:5

General Information
CircRNA Name	Os08g0543600_circ_g.3
ID in PlantcircBase	osa_circ_037916
Alias	NA
Organism	Oryza sativa
Position	chr8: 27213678-27215423 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0543600
Parent gene annotation	Alpha-isopropylmalate/homocitrate synthase, conserved site domai n containing protein. (Os08t0543600-01);Hypothetical conserved g ene. (Os08t0543600-02)
Parent gene strand	-
Alternative splicing	Os08g0543600_circ_g.4
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	Os08t0543600-02:1 Os08t0543600-01:5

			
						 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  
						
							CCGTTTGATGGTCAATCTTCAAAGCATCCAGTTCCCTGTCCTTGTCATCCAATTTCATTTCGAG
CTCAAGGATGTACTTTTCCCGTTCATGCAGTTGTTCctttgtggaacaatctggaactccatta
cttttcactgactgactactatctgttgttccactaccatttgcagccatgttgttccctttgt
tctgacca

									
								

					

						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
						
							CTTTGTGGAACAATCTGGAACTCCATTACTTTTCACTGACTGACTACTATCTGTTGTTCCACTA
CCATTTGCAGCCATGTTGTTCCCTTTGTTCTGACCAAGTGTTGACTCGGCCGAACTCTCCTGTG
CAGTTTGTGAACCATCTTTTGGTGCTCCAGTTCGGTCTCTTAATTCATTTAGTTCTAGCTGAAG
TTGTTGTATGGTATGCAGAAAACCCCTTTGCATCTCAACATACTGGGGAAAAGCAAGAGGACAG
GGTGAAGAGAATGTTAATATAACGCAGTCAAGACATACGCAAACAGTAGAATGAAGGCATCTAA
TGAACCACACATCGTACCTGTTGTTGGAAACTAATCCAATATTGATTGAATTGCTCAGTACGAT
CACGTAACTCAGCTTGCATTGTCTGAGACTGTAAAGTATCCATTTCTTGAACTCGTGCCATCCA
AGCATGAGCTTCCCTCAATTGTTCATCTTTGTAAATAATGTTATCTTGAGCAGCCCTATGCTGT
AAATAAAATGCTCGTCAGGGAGTGGCTGGATGCTAATTTGAGGAAGGCAATCATGCAACAAAAT
TATTGACCATTGATTTAGAAATTCTCACAAAGAAATAAATGTTAGATTGTTCATGCATGGATAC
AAAGCACTAGCTCAATGCCTCAATGTTGATAATGCTTTAATATTCTCCCTGAAGGTAAGACTAT
ATTTGCAGCAACAGAAAAACAAGGAGAAGCCATGTCATTGGAAAGGAATTAAAACTATCATAAA
GTGTTTAAAACCCTAGTTCAACAATATACATTGCATAACATTAGAAATGAACTGCAGTAAACTC
ATCCTATGATACTAAGTTACACTTTCTGTAAGAGTCTATCATGTTAATCATTCAAAAGTGAATA
ACTAGGATACTGTTATAAGCACATTGTCAGTAAAGATGTTTATGTATCTTTTGTAGTATGACTA
TGCGCATAGAGACATACAGTCATACACAATCTAAAATAGAATGGAAACAAGAGGGTTGAAAAAA
GAATACCTGTTCCTCTAATGCAAGCATTTGGCTTTCCTTTTCTCGCAGATGTTCTTGGAGATCA
TGGATTTGTTTAAGATGCTGTGCCCTTTCAGCTTCAGAATTGTCACGTTCCCTTCTGCAGAAGA
TAAGAAAATACCAAACACATTTTATTTTCTACAACAAAGATTTTGCTCAAACCAAAAAAAAAAT
GTCCTGGTCAGGGATTGCAAATGACTACATGATTTTTTTTATTTGTTATGTTCTTTTGCACAAT
AAAACTATTTTATCATGCATAAATGGGCATCACATGATTCACAAAAAAGAAAAGAAAAGAAAAG
AAAAGAAAAGGGAATCAACATCACATGCGGGTTTTTCATTGAGTAAGAAAACAAGCAATTCAGC
AAGTCCATAAACAACTCTAATACTTTGATGAGGTGCAACTCAGCTGCTTTGTTGCTCTAACTAG
TAATAAATACGGTCATCCCACATGATACTGAAATGAATCAGTAGTACCTAAAAGTTGCAAGCTC
TTTTGTCTGTTCTCTAAGAAGATCTTGATTTGCCCACACCTGCCAAAAGGAAACAAAGATGGTG
AGAGATCACAACCTCTAAATCTCACTGGTGCAACACAGAGCACTAACCGTTTGATGGTCAATCT
TCAAAGCATCCAGTTCCCTGTCCTTGTCATCCAATTTCATTTCGAGCTCAAGGATGTACTTTTC
CCGTTCATGCAGTTGTTC
						
					

			
		

Sequences
Splice junction sequence	CCGTTTGATGGTCAATCTTCAAAGCATCCAGTTCCCTGTCCTTGTCATCCAATTTCATTTCGAG CTCAAGGATGTACTTTTCCCGTTCATGCAGTTGTTCctttgtggaacaatctggaactccatta cttttcactgactgactactatctgttgttccactaccatttgcagccatgttgttccctttgt tctgacca
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	CTTTGTGGAACAATCTGGAACTCCATTACTTTTCACTGACTGACTACTATCTGTTGTTCCACTA CCATTTGCAGCCATGTTGTTCCCTTTGTTCTGACCAAGTGTTGACTCGGCCGAACTCTCCTGTG CAGTTTGTGAACCATCTTTTGGTGCTCCAGTTCGGTCTCTTAATTCATTTAGTTCTAGCTGAAG TTGTTGTATGGTATGCAGAAAACCCCTTTGCATCTCAACATACTGGGGAAAAGCAAGAGGACAG GGTGAAGAGAATGTTAATATAACGCAGTCAAGACATACGCAAACAGTAGAATGAAGGCATCTAA TGAACCACACATCGTACCTGTTGTTGGAAACTAATCCAATATTGATTGAATTGCTCAGTACGAT CACGTAACTCAGCTTGCATTGTCTGAGACTGTAAAGTATCCATTTCTTGAACTCGTGCCATCCA AGCATGAGCTTCCCTCAATTGTTCATCTTTGTAAATAATGTTATCTTGAGCAGCCCTATGCTGT AAATAAAATGCTCGTCAGGGAGTGGCTGGATGCTAATTTGAGGAAGGCAATCATGCAACAAAAT TATTGACCATTGATTTAGAAATTCTCACAAAGAAATAAATGTTAGATTGTTCATGCATGGATAC AAAGCACTAGCTCAATGCCTCAATGTTGATAATGCTTTAATATTCTCCCTGAAGGTAAGACTAT ATTTGCAGCAACAGAAAAACAAGGAGAAGCCATGTCATTGGAAAGGAATTAAAACTATCATAAA GTGTTTAAAACCCTAGTTCAACAATATACATTGCATAACATTAGAAATGAACTGCAGTAAACTC ATCCTATGATACTAAGTTACACTTTCTGTAAGAGTCTATCATGTTAATCATTCAAAAGTGAATA ACTAGGATACTGTTATAAGCACATTGTCAGTAAAGATGTTTATGTATCTTTTGTAGTATGACTA TGCGCATAGAGACATACAGTCATACACAATCTAAAATAGAATGGAAACAAGAGGGTTGAAAAAA GAATACCTGTTCCTCTAATGCAAGCATTTGGCTTTCCTTTTCTCGCAGATGTTCTTGGAGATCA TGGATTTGTTTAAGATGCTGTGCCCTTTCAGCTTCAGAATTGTCACGTTCCCTTCTGCAGAAGA TAAGAAAATACCAAACACATTTTATTTTCTACAACAAAGATTTTGCTCAAACCAAAAAAAAAAT GTCCTGGTCAGGGATTGCAAATGACTACATGATTTTTTTTATTTGTTATGTTCTTTTGCACAAT AAAACTATTTTATCATGCATAAATGGGCATCACATGATTCACAAAAAAGAAAAGAAAAGAAAAG AAAAGAAAAGGGAATCAACATCACATGCGGGTTTTTCATTGAGTAAGAAAACAAGCAATTCAGC AAGTCCATAAACAACTCTAATACTTTGATGAGGTGCAACTCAGCTGCTTTGTTGCTCTAACTAG TAATAAATACGGTCATCCCACATGATACTGAAATGAATCAGTAGTACCTAAAAGTTGCAAGCTC TTTTGTCTGTTCTCTAAGAAGATCTTGATTTGCCCACACCTGCCAAAAGGAAACAAAGATGGTG AGAGATCACAACCTCTAAATCTCACTGGTGCAACACAGAGCACTAACCGTTTGATGGTCAATCT TCAAAGCATCCAGTTCCCTGTCCTTGTCATCCAATTTCATTTCGAGCTCAAGGATGTACTTTTC CCGTTCATGCAGTTGTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135902606

Conservation Information
Conserved circRNAs	NA
PMCS	0.135902606

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27214751-27213713(+)
27215396-27213717(+)
27215383-27213680(-)
27213705-27215380(-)
						
						Potential amino acid sequence
						
							MFLEIMDLFKMLCPFSFRIVTFPSKSCKLFCLFSKKILICPHRLMVNLQSIQFPVLVIQFHFEL
KDVLFPFMQLFLCGTIWNSITFH*(+)
MYFSRSCSCSFVEQSGTPLLFTD*(+)
MKLDDKDRELDALKIDHQTVWANQDLLREQTKELATFRRERDNSEAERAQHLKQIHDLQEHLRE
KESQMLALEEQHRAAQDNIIYKDEQLREAHAWMARVQEMDTLQSQTMQAELRDRTEQFNQYWIS
FQQQYVEMQRGFLHTIQQLQLELNELRDRTGAPKDGSQTAQESSAESTLGQNKGNNMAANGSGT
TDSSQSVKSNGVPDCSTKEQLHEREKYILELEMKLDDKDRELDALKIDHQTVWANQDLLREQTK
ELATFRRERDNSEAERAQHLKQIHDLQEHLREKESQMLALEEQHRAAQDNIIYKDEQLREAHAW
MARVQEMDTLQSQTMQAELRDRTEQFNQYWISFQQQYVEMQRGFLHTIQQLQLELNELRDRTGA
PKDGSQTAQESSAESTLGQNKGNNMAANGSGTTDSSQSVKSNGVPDCSTKEQLHEREKYILELE
MKLDDKDRELDALKIDHQTVWANQDLLREQTKELATFRRERDNSEAERAQHLKQIHDLQEHLRE
KESQMLALEEQHRAAQDNIIYKDEQLREAHAWMARVQEMDTLQSQTMQAELRDRTEQFNQYWIS
FQQQYVEMQRGFLHTIQQLQLELNELRDRTGAPKDGSQTAQESSAESTLGQNKGNNMAANGSGT
TDSSQSVKSNGVPDCSTKEQLHEREKYILELEMKLDDKDRELDALKIDHQTVWANQDLLREQTK
ELATFRRERDNSEAERAQHLKQIHDLQEHLREKESQMLALEEQHRAAQDNIIYKDEQLREAHAW
MARVQEMDTLQSQTMQAELRDRTEQFNQYWISFQQQYVEMQRGFLHTIQQLQLELNELRDRTGA
PKDGSQTAQESSAESTLGQNKGNNMAANGSGTTDSSQSVKSNGVPDCSTK(-)
MEFQIVPQRNNCMNGKSTSLSSK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27214751-27213713(+) 27215396-27213717(+) 27215383-27213680(-) 27213705-27215380(-)
Potential amino acid sequence	MFLEIMDLFKMLCPFSFRIVTFPSKSCKLFCLFSKKILICPHRLMVNLQSIQFPVLVIQFHFEL KDVLFPFMQLFLCGTIWNSITFH(+) MYFSRSCSCSFVEQSGTPLLFTD(+) MKLDDKDRELDALKIDHQTVWANQDLLREQTKELATFRRERDNSEAERAQHLKQIHDLQEHLRE KESQMLALEEQHRAAQDNIIYKDEQLREAHAWMARVQEMDTLQSQTMQAELRDRTEQFNQYWIS FQQQYVEMQRGFLHTIQQLQLELNELRDRTGAPKDGSQTAQESSAESTLGQNKGNNMAANGSGT TDSSQSVKSNGVPDCSTKEQLHEREKYILELEMKLDDKDRELDALKIDHQTVWANQDLLREQTK ELATFRRERDNSEAERAQHLKQIHDLQEHLREKESQMLALEEQHRAAQDNIIYKDEQLREAHAW MARVQEMDTLQSQTMQAELRDRTEQFNQYWISFQQQYVEMQRGFLHTIQQLQLELNELRDRTGA PKDGSQTAQESSAESTLGQNKGNNMAANGSGTTDSSQSVKSNGVPDCSTKEQLHEREKYILELE MKLDDKDRELDALKIDHQTVWANQDLLREQTKELATFRRERDNSEAERAQHLKQIHDLQEHLRE KESQMLALEEQHRAAQDNIIYKDEQLREAHAWMARVQEMDTLQSQTMQAELRDRTEQFNQYWIS FQQQYVEMQRGFLHTIQQLQLELNELRDRTGAPKDGSQTAQESSAESTLGQNKGNNMAANGSGT TDSSQSVKSNGVPDCSTKEQLHEREKYILELEMKLDDKDRELDALKIDHQTVWANQDLLREQTK ELATFRRERDNSEAERAQHLKQIHDLQEHLREKESQMLALEEQHRAAQDNIIYKDEQLREAHAW MARVQEMDTLQSQTMQAELRDRTEQFNQYWISFQQQYVEMQRGFLHTIQQLQLELNELRDRTGA PKDGSQTAQESSAESTLGQNKGNNMAANGSGTTDSSQSVKSNGVPDCSTK(-) MEFQIVPQRNNCMNGKSTSLSSK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0543600_circ_g.3

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