Plant Circular RNA Database

Detail information of Os04g0624600_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os04g0624600_circ_g.6
					
						ID in PlantcircBase
						osa_circ_025398
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 31757122-31758808  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0624600						
					
						Parent gene annotation
						
							Starch synthase, Starch biosynthesis (Os04t0624600-01);Similar t
o H0215F08.14 protein. (Os04t0624600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Os04t0624600-01:2

General Information
CircRNA Name	Os04g0624600_circ_g.6
ID in PlantcircBase	osa_circ_025398
Alias	NA
Organism	Oryza sativa
Position	chr4: 31757122-31758808 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0624600
Parent gene annotation	Starch synthase, Starch biosynthesis (Os04t0624600-01);Similar t o H0215F08.14 protein. (Os04t0624600-02)
Parent gene strand	-
Alternative splicing	NA
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	Os04t0624600-01:2

			
						 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  
						
							AGACAGTTGTGCTTTGAACAAAACCATTCCACCAACCTGCACTTGCCACCAAGCATCGGAGAAG
CCTTGTCCTTGTAAATCTCCTGCACCTTATGATCGGcatctgcataccaccaatcaccatcctt
ttcatatgatttgattaatttttcagcaatagagagcccatcactccaattattgtaaccgcca
tgcatcca

									
								

					

						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
						
							CATCTGCATACCACCAATCACCATCCTTTTCATATGATTTGATTAATTTTTCAGCAATAGAGAG
CCCATCACTCCAATTATTGTAACCGCCATGCATCCAAATCTCAGTGTTATGCATTAGCGGTCTT
GAGCTTCTGTTGTAGAACAATTTGACCCTATCCCCTGCTTTGTATGTGTGAGGCTCTATATACC
ATAGATTATCAGCATATCTGCTGGCTGAATTTAATAAATTTTGCAACTTATTCTTGTTCATCTC
GACTTCAGCCTTTGCTTGTGCCCTGTCAGCCTCCATTGCAGCCCTTTCTTCCTCCTTACGACGC
TCCTCCTCAGCCTGTCTTTTCCTTTCAGCTTCTTCTGCAGCAAGCCTTTCAAGCTCTCTTTGTT
TTTCTTCAACCAAGAAGTCCTCAAATGAGTGTTCATTGATTTCGCTTTCTATTTGTAGGACGAA
ATCATTATGATTGTTATTTTCGTAGATGGTGTCACCATTAAAGAATACAAAATCTAATCTGTAA
GCCTGCTTGGGTATATGGAGTTTGCAGCACCACCAATCCCCTGTTAACTCACTTTTATGCATTT
TTTGGGTAAATTTTTTCCATCTCCAACCATTGAATGCCCCTTTGATAAGAATATCAGGCTCACT
GGCTAAGGCTGACATGCTATGGTTCAAGTAAAGATCAATGACCGAATCCGCCTGTACTACTTCA
GGAAAAACAAAACACTTATTCCCAGCCAAATAATTTTTCTCAGCAAGCTCTTCAAGCCGCCTCC
TGAGCACTTGTGGATCCACATCATCCTGTACTGGTGCTATATCAGGTTCATACTGTTCATCCTT
GATTATCCTAGGGTCATCATCAGCAAACAGAACTTTCTCAGTTTCTCTACTTAATGGTTCCCTC
TCAATACTCTTGCCAGTTATCTCTTCTGGTGCTTCTTCGGTGACATCTTGTCCACTAATAATGG
TTTTCTCTTCTGTTGGATTTTGTCCACTGACACCACTACTTGGCTGGCTTTGTTCGGGAACAGA
GACAATTGATCTATCTTGCTCATGGAAACTAACTACAGATTTTTCTTGTTCATGAAAACCAACA
ATTGATCTGTCCTGTACATGAGTGCTAGAAACTGATGTAGGTTCAGGTTTCGAACTTATTAGTG
CACTTATTTTACCACGGTATTCATCAAGTTTTCTGTCAATTGCATCATCATCCATAGATTCAGA
AGACAGTTCTGGAGACTGATTTTGCTCGACCTCTTCTTCAGTCTCAGCTTCAAAAGCATCATCC
ATTCCCTCCAAGAATACACTGCTCGATACATTTCCAGAGAAGTCCACCTCCGATGATTCTTCTA
CATTACTAGTTTGCTCTGTTGCTTCACTACTGAGCTTCCCATTGCTTGTGCCAAGATCACCTTC
ATCTGTGCCGCTTTGTCCAATCTTCTTCATGCTGGATTCAACAGTAGGTCTCGGAGCATATGTT
CTAGAGGCAGCACCTTTAGGTTTCGGAGTGGAGGCTCTCCTTGGGTTTCTCTTAGAATAATCTG
AACAATGCAATGTCAGGAAAAAAAAAACATGATCAAAGAAGTACCACATAAAGACAGTTGTGCT
TTGAACAAAACCATTCCACCAACCTGCACTTGCCACCAAGCATCGGAGAAGCCTTGTCCTTGTA
AATCTCCTGCACCTTATGATCGG
						
					

			
		

Sequences
Splice junction sequence	AGACAGTTGTGCTTTGAACAAAACCATTCCACCAACCTGCACTTGCCACCAAGCATCGGAGAAG CCTTGTCCTTGTAAATCTCCTGCACCTTATGATCGGcatctgcataccaccaatcaccatcctt ttcatatgatttgattaatttttcagcaatagagagcccatcactccaattattgtaaccgcca tgcatcca
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	CATCTGCATACCACCAATCACCATCCTTTTCATATGATTTGATTAATTTTTCAGCAATAGAGAG CCCATCACTCCAATTATTGTAACCGCCATGCATCCAAATCTCAGTGTTATGCATTAGCGGTCTT GAGCTTCTGTTGTAGAACAATTTGACCCTATCCCCTGCTTTGTATGTGTGAGGCTCTATATACC ATAGATTATCAGCATATCTGCTGGCTGAATTTAATAAATTTTGCAACTTATTCTTGTTCATCTC GACTTCAGCCTTTGCTTGTGCCCTGTCAGCCTCCATTGCAGCCCTTTCTTCCTCCTTACGACGC TCCTCCTCAGCCTGTCTTTTCCTTTCAGCTTCTTCTGCAGCAAGCCTTTCAAGCTCTCTTTGTT TTTCTTCAACCAAGAAGTCCTCAAATGAGTGTTCATTGATTTCGCTTTCTATTTGTAGGACGAA ATCATTATGATTGTTATTTTCGTAGATGGTGTCACCATTAAAGAATACAAAATCTAATCTGTAA GCCTGCTTGGGTATATGGAGTTTGCAGCACCACCAATCCCCTGTTAACTCACTTTTATGCATTT TTTGGGTAAATTTTTTCCATCTCCAACCATTGAATGCCCCTTTGATAAGAATATCAGGCTCACT GGCTAAGGCTGACATGCTATGGTTCAAGTAAAGATCAATGACCGAATCCGCCTGTACTACTTCA GGAAAAACAAAACACTTATTCCCAGCCAAATAATTTTTCTCAGCAAGCTCTTCAAGCCGCCTCC TGAGCACTTGTGGATCCACATCATCCTGTACTGGTGCTATATCAGGTTCATACTGTTCATCCTT GATTATCCTAGGGTCATCATCAGCAAACAGAACTTTCTCAGTTTCTCTACTTAATGGTTCCCTC TCAATACTCTTGCCAGTTATCTCTTCTGGTGCTTCTTCGGTGACATCTTGTCCACTAATAATGG TTTTCTCTTCTGTTGGATTTTGTCCACTGACACCACTACTTGGCTGGCTTTGTTCGGGAACAGA GACAATTGATCTATCTTGCTCATGGAAACTAACTACAGATTTTTCTTGTTCATGAAAACCAACA ATTGATCTGTCCTGTACATGAGTGCTAGAAACTGATGTAGGTTCAGGTTTCGAACTTATTAGTG CACTTATTTTACCACGGTATTCATCAAGTTTTCTGTCAATTGCATCATCATCCATAGATTCAGA AGACAGTTCTGGAGACTGATTTTGCTCGACCTCTTCTTCAGTCTCAGCTTCAAAAGCATCATCC ATTCCCTCCAAGAATACACTGCTCGATACATTTCCAGAGAAGTCCACCTCCGATGATTCTTCTA CATTACTAGTTTGCTCTGTTGCTTCACTACTGAGCTTCCCATTGCTTGTGCCAAGATCACCTTC ATCTGTGCCGCTTTGTCCAATCTTCTTCATGCTGGATTCAACAGTAGGTCTCGGAGCATATGTT CTAGAGGCAGCACCTTTAGGTTTCGGAGTGGAGGCTCTCCTTGGGTTTCTCTTAGAATAATCTG AACAATGCAATGTCAGGAAAAAAAAAACATGATCAAAGAAGTACCACATAAAGACAGTTGTGCT TTGAACAAAACCATTCCACCAACCTGCACTTGCCACCAAGCATCGGAGAAGCCTTGTCCTTGTA AATCTCCTGCACCTTATGATCGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005761* 						
					
						PMCS
						0.192773088

Conservation Information
Conserved circRNAs	osi_circ_005761*
PMCS	0.192773088

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31758561-31758647(-)
31757156-31758647(-)
						
						Potential amino acid sequence
						
							MKKIGQSGTDEGDLGTSNGKLSSEATEQTSNVEESSEVDFSGNVSSSVFLEGMDDAFEAETEEE
VEQNQSPELSSESMDDDAIDRKLDEYRGKISALISSKPEPTSVSSTHVQDRSIVGFHEQEKSVV
SFHEQDRSIVSVPEQSQPSSGVSGQNPTEEKTIISGQDVTEEAPEEITGKSIEREPLSRETEKV
LFADDDPRIIKDEQYEPDIAPVQDDVDPQVLRRRLEELAEKNYLAGNKCFVFPEVVQADSVIDL
YLNHSMSALASEPDILIKGAFNGWRWKKFTQKMHKSELTGDWWCCKLHIPKQAYRLDFVFFNGD
TIYENNNHNDFVLQIESEINEHSFEDFLVEEKQRELERLAAEEAERKRQAEEERRKEEERAAME
ADRAQAKAEVEMNKNKLQNLLNSASRYADNLWYIEPHTYKAGDRVKLFYNRSSRPLMHNTEIWM
HGGYNNWSDGLSIAEKLIKSYEKDGDWWYADADHKVQEIYKDKASPMLGGKCRLF*(-)
MKRMVIGGMQMPIIRCRRFTRTRLLRCLVASADYSKRNPRRASTPKPKGAASRTYAPRPTVESS
MKKIGQSGTDEGDLGTSNGKLSSEATEQTSNVEESSEVDFSGNVSSSVFLEGMDDAFEAETEEE
VEQNQSPELSSESMDDDAIDRKLDEYRGKISALISSKPEPTSVSSTHVQDRSIVGFHEQEKSVV
SFHEQDRSIVSVPEQSQPSSGVSGQNPTEEKTIISGQDVTEEAPEEITGKSIEREPLSRETEKV
LFADDDPRIIKDEQYEPDIAPVQDDVDPQVLRRRLEELAEKNYLAGNKCFVFPEVVQADSVIDL
YLNHSMSALASEPDILIKGAFNGWRWKKFTQKMHKSELTGDWWCCKLHIPKQAYRLDFVFFNGD
TIYENNNHNDFVLQIESEINEHSFEDFLVEEKQRELERLAAEEAERKRQAEEERRKEEERAAME
ADRAQAKAEVEMNKNKLQNLLNSASRYADNLWYIEPHTYKAGDRVKLFYNRSSRPLMHNTEIWM
HGGYNNWSDGLSIAEKLIKSYEKDGDWWYADADHKVQEIYKDKASPMLGGKCRLF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31758561-31758647(-) 31757156-31758647(-)
Potential amino acid sequence	MKKIGQSGTDEGDLGTSNGKLSSEATEQTSNVEESSEVDFSGNVSSSVFLEGMDDAFEAETEEE VEQNQSPELSSESMDDDAIDRKLDEYRGKISALISSKPEPTSVSSTHVQDRSIVGFHEQEKSVV SFHEQDRSIVSVPEQSQPSSGVSGQNPTEEKTIISGQDVTEEAPEEITGKSIEREPLSRETEKV LFADDDPRIIKDEQYEPDIAPVQDDVDPQVLRRRLEELAEKNYLAGNKCFVFPEVVQADSVIDL YLNHSMSALASEPDILIKGAFNGWRWKKFTQKMHKSELTGDWWCCKLHIPKQAYRLDFVFFNGD TIYENNNHNDFVLQIESEINEHSFEDFLVEEKQRELERLAAEEAERKRQAEEERRKEEERAAME ADRAQAKAEVEMNKNKLQNLLNSASRYADNLWYIEPHTYKAGDRVKLFYNRSSRPLMHNTEIWM HGGYNNWSDGLSIAEKLIKSYEKDGDWWYADADHKVQEIYKDKASPMLGGKCRLF(-) MKRMVIGGMQMPIIRCRRFTRTRLLRCLVASADYSKRNPRRASTPKPKGAASRTYAPRPTVESS MKKIGQSGTDEGDLGTSNGKLSSEATEQTSNVEESSEVDFSGNVSSSVFLEGMDDAFEAETEEE VEQNQSPELSSESMDDDAIDRKLDEYRGKISALISSKPEPTSVSSTHVQDRSIVGFHEQEKSVV SFHEQDRSIVSVPEQSQPSSGVSGQNPTEEKTIISGQDVTEEAPEEITGKSIEREPLSRETEKV LFADDDPRIIKDEQYEPDIAPVQDDVDPQVLRRRLEELAEKNYLAGNKCFVFPEVVQADSVIDL YLNHSMSALASEPDILIKGAFNGWRWKKFTQKMHKSELTGDWWCCKLHIPKQAYRLDFVFFNGD TIYENNNHNDFVLQIESEINEHSFEDFLVEEKQRELERLAAEEAERKRQAEEERRKEEERAAME ADRAQAKAEVEMNKNKLQNLLNSASRYADNLWYIEPHTYKAGDRVKLFYNRSSRPLMHNTEIWM HGGYNNWSDGLSIAEKLIKSYEKDGDWWYADADHKVQEIYKDKASPMLGGKCRLF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0624600_circ_g.6

Address

Any questions?

Supported by