Plant Circular RNA Database

Detail information of Os09g0252100_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os09g0252100_circ_g.4
					
						ID in PlantcircBase
						osa_circ_038584
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 3971859-3973486  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0252100						
					
						Parent gene annotation
						
							Similar to Acetyl-CoA C-acetyltransferase. (Os09t0252100-01);Sim
ilar to Acetyl-CoA acetyltransferase, cytosolic 1. (Os09t0252100
-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0252100_circ_g.3 						
					
						Support reads
						3
					
						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  
						
							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
						Os09t0252100-02:4
Os09t0252100-01:4

General Information
CircRNA Name	Os09g0252100_circ_g.4
ID in PlantcircBase	osa_circ_038584
Alias	NA
Organism	Oryza sativa
Position	chr9: 3971859-3973486 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0252100
Parent gene annotation	Similar to Acetyl-CoA C-acetyltransferase. (Os09t0252100-01);Sim ilar to Acetyl-CoA acetyltransferase, cytosolic 1. (Os09t0252100 -02)
Parent gene strand	+
Alternative splicing	Os09g0252100_circ_g.3
Support reads	3
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	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	Os09t0252100-02:4 Os09t0252100-01:4

			
						 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  
						
							TATGTGCCTCTTAGTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGG
TGGTACTGTTACTGCTGGGAATGCTTCTAGTATAAGaaaaggatctcgttttggacatgacact
cttgttgatggcatgcttaaagatggcctttgggatgtatacggtgattttgccatgggaaatt
gtgctgag

									
								

					

						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
						
							AAAAGGATCTCGTTTTGGACATGACACTCTTGTTGATGGCATGCTTAAAGATGGCCTTTGGGAT
GTATACGGTGATTTTGCCATGGGAAATTGTGCTGAGCTTTGTGCTGACAATCATGCTCTGACAA
GGGAAGACCAGGTATTTTTTTACTAGTACTATAAATAGGAGTAACTACCTTCTGTTGTAATATT
ATTCTTACACTTGTCTACCTGACTCAAAAAACCAAAACTATCTTAGTTATTGCTTCTGGAGGTT
CGGTAACAGTGAATATTAAATAGAAGTGTGCATAAACAATTGTTAGTTCTTTTCAGAATGCAGG
GAAATTTACATTCCATACAGATTGAATTTCGTATGGCATAAATCAATATTGCTTAACTGCAAGG
AGCCTACTCTTCCTATACCAGGGATTCGCCATAAGGAATTGCTAGGGCAGATTATATGATGCTC
CATATCAGTAAACAAATATTCTAGTTTGCTTGTTTCAAAGGATGGTGGTGAACTTGTTAAAACC
AAATTGAAAAAAGTATTGTACCAAAATTTTGTATTCTTGTTCACCAAATACAATCATTAATTTC
ATATATAGGTTGCTCTTGGTAAACAGCATATGTTTTTCTGTCGCTTTTATTTCTAGAGGAAGTT
GATATATCTTGATGTCTTAATACTAGAGCAAGAACTATCACATGTCCCGGTGATCACATTGATT
TGTTGTAATATTTCTATTATACTTTGTAATACATATATTTATCATTAGTAACATATCTGATATT
TTAATAATTCTTCTATAGGATGCCTATGCTATTCAAAGCAATGAGCGTGGAATTGCTGCTCGGA
ACAGTGGTGCTTTTGCATGGGAGATTGTTCCGGTGATTTCCTGTCTGCCACTAATTTTTTTTAT
TTATTACTAACCAAATGCTCATTAATGGCAACAGATTTCATATAAATTTACCACAATTTTGAAT
TTTAAAAAGCTGTATATATTTTTCAGGAAAAAGAACATTTCTAATTCACAGTTGATCATCAATC
CATATGAATCTATATAACAAATACATTATTGCAAACCATGTGCACAAATGATATATTATCCAGA
GAAGATCATACTAACTCAAAAGATGGTGGGCTCACCTGTCACCACCACTAGGTTCTTTTATGTG
ACTTATTTATTTTCCTTATTCTCCTTGCTGTACCATCCAGATTGAAGTTCCTGTTGGGAGAGGG
AAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGGTACAATCTATATAGCAAATAT
GGCACGATAAACTAAGTCTTGTAATTTAGTCAACATTCACCTGTAGCTGTAAATTGCATGTTTC
CAAGCATAACTTGGTGCCTTGATGCACTCTTCAGTGTAATGTGTATTGGCACTAGGCTAAAAAA
CACGTCAGTATGCAGTAGGCACAATATTGTTGGTGTTCTAAAAGCTTGCCAAGGAAAAGATCAC
ATTTGAACATTTCTGTAATATTTTAGTGCCATAATGGTACTATGTAATTTGATCATTATGTGCC
TCTTAGTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGGTGGTACTG
TTACTGCTGGGAATGCTTCTAGTATAAG
						
					

			
		

Sequences
Splice junction sequence	TATGTGCCTCTTAGTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGG TGGTACTGTTACTGCTGGGAATGCTTCTAGTATAAGaaaaggatctcgttttggacatgacact cttgttgatggcatgcttaaagatggcctttgggatgtatacggtgattttgccatgggaaatt gtgctgag
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	AAAAGGATCTCGTTTTGGACATGACACTCTTGTTGATGGCATGCTTAAAGATGGCCTTTGGGAT GTATACGGTGATTTTGCCATGGGAAATTGTGCTGAGCTTTGTGCTGACAATCATGCTCTGACAA GGGAAGACCAGGTATTTTTTTACTAGTACTATAAATAGGAGTAACTACCTTCTGTTGTAATATT ATTCTTACACTTGTCTACCTGACTCAAAAAACCAAAACTATCTTAGTTATTGCTTCTGGAGGTT CGGTAACAGTGAATATTAAATAGAAGTGTGCATAAACAATTGTTAGTTCTTTTCAGAATGCAGG GAAATTTACATTCCATACAGATTGAATTTCGTATGGCATAAATCAATATTGCTTAACTGCAAGG AGCCTACTCTTCCTATACCAGGGATTCGCCATAAGGAATTGCTAGGGCAGATTATATGATGCTC CATATCAGTAAACAAATATTCTAGTTTGCTTGTTTCAAAGGATGGTGGTGAACTTGTTAAAACC AAATTGAAAAAAGTATTGTACCAAAATTTTGTATTCTTGTTCACCAAATACAATCATTAATTTC ATATATAGGTTGCTCTTGGTAAACAGCATATGTTTTTCTGTCGCTTTTATTTCTAGAGGAAGTT GATATATCTTGATGTCTTAATACTAGAGCAAGAACTATCACATGTCCCGGTGATCACATTGATT TGTTGTAATATTTCTATTATACTTTGTAATACATATATTTATCATTAGTAACATATCTGATATT TTAATAATTCTTCTATAGGATGCCTATGCTATTCAAAGCAATGAGCGTGGAATTGCTGCTCGGA ACAGTGGTGCTTTTGCATGGGAGATTGTTCCGGTGATTTCCTGTCTGCCACTAATTTTTTTTAT TTATTACTAACCAAATGCTCATTAATGGCAACAGATTTCATATAAATTTACCACAATTTTGAAT TTTAAAAAGCTGTATATATTTTTCAGGAAAAAGAACATTTCTAATTCACAGTTGATCATCAATC CATATGAATCTATATAACAAATACATTATTGCAAACCATGTGCACAAATGATATATTATCCAGA GAAGATCATACTAACTCAAAAGATGGTGGGCTCACCTGTCACCACCACTAGGTTCTTTTATGTG ACTTATTTATTTTCCTTATTCTCCTTGCTGTACCATCCAGATTGAAGTTCCTGTTGGGAGAGGG AAACCACCGGTACTTGTTGACAAAGATGAGGGCCTGGACAAGGTACAATCTATATAGCAAATAT GGCACGATAAACTAAGTCTTGTAATTTAGTCAACATTCACCTGTAGCTGTAAATTGCATGTTTC CAAGCATAACTTGGTGCCTTGATGCACTCTTCAGTGTAATGTGTATTGGCACTAGGCTAAAAAA CACGTCAGTATGCAGTAGGCACAATATTGTTGGTGTTCTAAAAGCTTGCCAAGGAAAAGATCAC ATTTGAACATTTCTGTAATATTTTAGTGCCATAATGGTACTATGTAATTTGATCATTATGTGCC TCTTAGTTTGACCCAGTGAAACTGAAGAAGCTCCGTCCTAGTTTCAAGGAGAATGGTGGTACTG TTACTGCTGGGAATGCTTCTAGTATAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.119031168

Conservation Information
Conserved circRNAs	NA
PMCS	0.119031168

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3971900-3973483(+)
3971944-3972661(-)
3971978-3971861(-)
						
						Potential amino acid sequence
						
							MLKDGLWDVYGDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPV
GRGKPPVLVDKDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDG
LWDVYGDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKP
PVLVDKDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDGLWDVY
GDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKPPVLVD
KDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDGLWDVYGDFAM
GNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKPPVLVDKDEGL
DKFDPVKLKKLRPSFKENGGTVTAGNASSI(+)
MAKSPYTSQRPSLSMPSTRVSCPKRDPFLILEAFPAVTVPPFSLKLGRSFFSFTGSNLSRPSSL
STSTGGFPLPTGTSIGTISHAKAPLFRAAIPRSLL*(-)
MIVSTKLSTISHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQF
HWVKLVQALIFVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVST
KLSTISHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQFHWVKL
VQALIFVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVSTKLSTI
SHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQFHWVKLVQALI
FVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVSTKLSTISHGKI
TVYIPKAIFKHAINKSVMSKTRSF(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3971900-3973483(+) 3971944-3972661(-) 3971978-3971861(-)
Potential amino acid sequence	MLKDGLWDVYGDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPV GRGKPPVLVDKDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDG LWDVYGDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKP PVLVDKDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDGLWDVY GDFAMGNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKPPVLVD KDEGLDKFDPVKLKKLRPSFKENGGTVTAGNASSIRKGSRFGHDTLVDGMLKDGLWDVYGDFAM GNCAELCADNHALTREDQDAYAIQSNERGIAARNSGAFAWEIVPIEVPVGRGKPPVLVDKDEGL DKFDPVKLKKLRPSFKENGGTVTAGNASSI(+) MAKSPYTSQRPSLSMPSTRVSCPKRDPFLILEAFPAVTVPPFSLKLGRSFFSFTGSNLSRPSSL STSTGGFPLPTGTSIGTISHAKAPLFRAAIPRSLL*(-) MIVSTKLSTISHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQF HWVKLVQALIFVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVST KLSTISHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQFHWVKL VQALIFVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVSTKLSTI SHGKITVYIPKAIFKHAINKSVMSKTRSFSYTRSIPSSNSTTILLETRTELLQFHWVKLVQALI FVNKYRWFPSPNRNFNRNNLPCKSTTVPSSNSTLIALNSIGILVFPCQSMIVSTKLSTISHGKI TVYIPKAIFKHAINKSVMSKTRSF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0252100_circ_g.4

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