Plant Circular RNA Database

Detail information of Os05g0411200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0411200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027882
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 20104377-20110199  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0411200						
					
						Parent gene annotation
						
							Similar to electron carrier/ oxidoreductase. (Os05t0411200-01);M
onooxygenase, Chloroplast development at low temperature (Os05t0
411200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0411200_circ_g.1 Os05g0411200_circ_g.3 						
					
						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
						Os05t0411200-01:10
Os05t0411200-02:10

General Information
CircRNA Name	Os05g0411200_circ_g.2
ID in PlantcircBase	osa_circ_027882
Alias	NA
Organism	Oryza sativa
Position	chr5: 20104377-20110199 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0411200
Parent gene annotation	Similar to electron carrier/ oxidoreductase. (Os05t0411200-01);M onooxygenase, Chloroplast development at low temperature (Os05t0 411200-02)
Parent gene strand	-
Alternative splicing	Os05g0411200_circ_g.1 Os05g0411200_circ_g.3
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	Os05t0411200-01:10 Os05t0411200-02:10

			
						 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  
						
							GTTCCAATCTAGCAATAAAATCCCACGTTCTCGGCTCCAAATCCAGAAGTCTCTTAACAGCCAC
ATCAACGGTATAAACAAATTGAGGTTCTTTCAAAATctcgacaccatgaagtaatgcctcacta
gatacaaatcctggcatctgaaaatattgggttgcaatgtcagagagatggtatttaaaaccac
agaagaag

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 1461
Transcript exons: 20104377-20104421,20104498-20104616,20104696-20104789,20
106070-20106231,20106363-20106512,20107180-20107227,2010
7900-20108112,20108199-20108324,20108846-20108917,201097
68-20110199
CTCGACACCATGAAGTAATGCCTCACTAGATACAAATCCTGGCATCTCTTCCTCAATCATTATT
ATTGATTGTTGTAGAACTTCAGTTATGTGCGAAGGGAATAGCTCATGGAGTTTGGATGGCCGAA
CTCCCAGCCTATAGCTTGATGGTGGGAGAGTTGTAACTGACAATCTGTTACTGAGAAAATCTGT
GACACACTGTGCAGGAACAACGAAATTCCCTCCCCCCATGGTAGCTGCTCTTCTTTCAAATTCT
CTCTGGAATTCAACGCCTGCAAGAGAACCATGGGATTCAAATGGCCTAAAGTCATGAGATGACA
CAGTGGCCACAAAAGCTGAGTTTGCCCACTTGGATGCACGCCTTGAGAATGACATACCATTGAT
GCACAATTCTGATGGGTTTGTGCTAGTTAGAACAACCTGTCCACCAGGACACATGCAAAATGAG
TAACAACTGCGATTTTGTTCTGGTAGCTCTGCATCTCCTTCACCAAAAGATTTCACTATCTTGT
AATCTGCTACAGGTATCCGCCCACGCCCTTTATGTACTTCAGCAGCCAATTCAGAGTATTGAAT
GTCGTTTATCAGTTCTTGGGGGTGCTCGATTCTTAAGCCAACAGCAAAACTCTTTGGGTGCATA
TCTACATTATGCCTCAGAAGCATACTGTATGTGTCACGAGCTGAGTGACCAACTGCCAATACAA
CTGCATCAAATGATAGTGTCTGGTTGGGAGAACCTAGCTGCAGTCTTGAGTCAGACACGACAAC
TCCTTTTACTTGCCCACCTTCCACTACAAGATCATCTACTCTAGTATTAAATATTATGTTAACA
CCCAACTCTTTTAAGTGATGCCTGAAGTTCCGCAGCAGAGGAACAAGTTTATCTGTACCCAAGT
GAGGTTTCCCATCAACTAGTATATTTGGAGGACCTCCAAATTGAACAAATGTTTTCATAACAGC
CTGAACACCATCAGTGTTTCTTCCTATCCTGGTCACAAGTTTCCCATCACTCCATGTACCTGCA
CCACCCTCTCCAAAGCAAAAGTTGCTTTCTGAATGGAGAATTCGTCTAACTACTAAGGCACCAA
TATCACGCCCCCTTTGTTCAACAGGTTGACCACGCTCTATTAAGGTAACTTCTGCACCAAGTTC
ACCTAGAACAAGGGAGGCAAACAAGCCTGATGGCCCACTTCCTACAACTGCCACCCTTGGTTTC
TTTCGCGGACTACAGATAGAGCCATTATTGACAGTATCATTGATTCCCAGTTCACCATCAGAAC
CTTGCTTATAAACATTAAGCATACTGACCAGATCAGATGCTACTTTCTCATCAGGCATGTATTC
TATTGTTCCAAGCTTTGGTTCCAATCTAGCAATAAAATCCCACGTTCTCGGCTCCAAATCCAGA
AGTCTCTTAACAGCCACATCAACGGTATAAACAAATTGAGGTTCTTTCAAAAT
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	GTTCCAATCTAGCAATAAAATCCCACGTTCTCGGCTCCAAATCCAGAAGTCTCTTAACAGCCAC ATCAACGGTATAAACAAATTGAGGTTCTTTCAAAATctcgacaccatgaagtaatgcctcacta gatacaaatcctggcatctgaaaatattgggttgcaatgtcagagagatggtatttaaaaccac agaagaag
Assembled circRNA sequence	Yes 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	Transcript length: 1461 Transcript exons: 20104377-20104421,20104498-20104616,20104696-20104789,20 106070-20106231,20106363-20106512,20107180-20107227,2010 7900-20108112,20108199-20108324,20108846-20108917,201097 68-20110199 CTCGACACCATGAAGTAATGCCTCACTAGATACAAATCCTGGCATCTCTTCCTCAATCATTATT ATTGATTGTTGTAGAACTTCAGTTATGTGCGAAGGGAATAGCTCATGGAGTTTGGATGGCCGAA CTCCCAGCCTATAGCTTGATGGTGGGAGAGTTGTAACTGACAATCTGTTACTGAGAAAATCTGT GACACACTGTGCAGGAACAACGAAATTCCCTCCCCCCATGGTAGCTGCTCTTCTTTCAAATTCT CTCTGGAATTCAACGCCTGCAAGAGAACCATGGGATTCAAATGGCCTAAAGTCATGAGATGACA CAGTGGCCACAAAAGCTGAGTTTGCCCACTTGGATGCACGCCTTGAGAATGACATACCATTGAT GCACAATTCTGATGGGTTTGTGCTAGTTAGAACAACCTGTCCACCAGGACACATGCAAAATGAG TAACAACTGCGATTTTGTTCTGGTAGCTCTGCATCTCCTTCACCAAAAGATTTCACTATCTTGT AATCTGCTACAGGTATCCGCCCACGCCCTTTATGTACTTCAGCAGCCAATTCAGAGTATTGAAT GTCGTTTATCAGTTCTTGGGGGTGCTCGATTCTTAAGCCAACAGCAAAACTCTTTGGGTGCATA TCTACATTATGCCTCAGAAGCATACTGTATGTGTCACGAGCTGAGTGACCAACTGCCAATACAA CTGCATCAAATGATAGTGTCTGGTTGGGAGAACCTAGCTGCAGTCTTGAGTCAGACACGACAAC TCCTTTTACTTGCCCACCTTCCACTACAAGATCATCTACTCTAGTATTAAATATTATGTTAACA CCCAACTCTTTTAAGTGATGCCTGAAGTTCCGCAGCAGAGGAACAAGTTTATCTGTACCCAAGT GAGGTTTCCCATCAACTAGTATATTTGGAGGACCTCCAAATTGAACAAATGTTTTCATAACAGC CTGAACACCATCAGTGTTTCTTCCTATCCTGGTCACAAGTTTCCCATCACTCCATGTACCTGCA CCACCCTCTCCAAAGCAAAAGTTGCTTTCTGAATGGAGAATTCGTCTAACTACTAAGGCACCAA TATCACGCCCCCTTTGTTCAACAGGTTGACCACGCTCTATTAAGGTAACTTCTGCACCAAGTTC ACCTAGAACAAGGGAGGCAAACAAGCCTGATGGCCCACTTCCTACAACTGCCACCCTTGGTTTC TTTCGCGGACTACAGATAGAGCCATTATTGACAGTATCATTGATTCCCAGTTCACCATCAGAAC CTTGCTTATAAACATTAAGCATACTGACCAGATCAGATGCTACTTTCTCATCAGGCATGTATTC TATTGTTCCAAGCTTTGGTTCCAATCTAGCAATAAAATCCCACGTTCTCGGCTCCAAATCCAGA AGTCTCTTAACAGCCACATCAACGGTATAAACAAATTGAGGTTCTTTCAAAAT
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.208722279

Conservation Information
Conserved circRNAs	NA
PMCS	0.208722279

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							20110078-20104379(-)
						
					

						Potential amino acid sequence
						
							MPDEKVASDLVSMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGEL
GAEVTLIERGQPVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAV
MKTFVQFGGPPNILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVV
VSDSRLQLGSPNQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQ
YSELAAEVHKGRGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCIN
GMSFSRRASKWANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTD
FLSNRLSVTTLPPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVEIL
KEPQFVYTVDVAVKRLLDLEPRTWDFIARLEPKLGTIEYMPDEKVASDLVSMLNVYKQGSDGEL
GINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGELGAEVTLIERGQPVEQRGRDIGALVV
RRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAVMKTFVQFGGPPNILVDGKPHLGTDK
LVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVVVSDSRLQLGSPNQTLSFDAVVLAVG
HSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQYSELAAEVHKGRGRIPVADYKIVKS
FGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCINGMSFSRRASKWANSAFVATVSSHDF
RPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTDFLSNRLSVTTLPPSSYRLGVRPSKL
HELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVEILKEPQFVYTVDVAVKRLLDLEPRTWD
FIARLEPKLGTIEYMPDEKVASDLVSMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGS
GPSGLFASLVLGELGAEVTLIERGQPVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKL
VTRIGRNTDGVQAVMKTFVQFGGPPNILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRV
DDLVVEGGQVKGVVVSDSRLQLGSPNQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVG
LRIEHPQELINDIQYSELAAEVHKGRGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQ
VVLTSTNPSELCINGMSFSRRASKWANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATM
GGGNFVVPAQCVTDFLSNRLSVTTLPPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPG
FVSSEALLHGVEILKEPQFVYTVDVAVKRLLDLEPRTWDFIARLEPKLGTIEYMPDEKVASDLV
SMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGELGAEVTLIERGQ
PVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAVMKTFVQFGGPP
NILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVVVSDSRLQLGSP
NQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQYSELAAEVHKG
RGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCINGMSFSRRASKW
ANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTDFLSNRLSVTTL
PPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVE(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	20110078-20104379(-)
Potential amino acid sequence	MPDEKVASDLVSMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGEL GAEVTLIERGQPVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAV MKTFVQFGGPPNILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVV VSDSRLQLGSPNQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQ YSELAAEVHKGRGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCIN GMSFSRRASKWANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTD FLSNRLSVTTLPPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVEIL KEPQFVYTVDVAVKRLLDLEPRTWDFIARLEPKLGTIEYMPDEKVASDLVSMLNVYKQGSDGEL GINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGELGAEVTLIERGQPVEQRGRDIGALVV RRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAVMKTFVQFGGPPNILVDGKPHLGTDK LVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVVVSDSRLQLGSPNQTLSFDAVVLAVG HSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQYSELAAEVHKGRGRIPVADYKIVKS FGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCINGMSFSRRASKWANSAFVATVSSHDF RPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTDFLSNRLSVTTLPPSSYRLGVRPSKL HELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVEILKEPQFVYTVDVAVKRLLDLEPRTWD FIARLEPKLGTIEYMPDEKVASDLVSMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGS GPSGLFASLVLGELGAEVTLIERGQPVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKL VTRIGRNTDGVQAVMKTFVQFGGPPNILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRV DDLVVEGGQVKGVVVSDSRLQLGSPNQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVG LRIEHPQELINDIQYSELAAEVHKGRGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQ VVLTSTNPSELCINGMSFSRRASKWANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATM GGGNFVVPAQCVTDFLSNRLSVTTLPPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPG FVSSEALLHGVEILKEPQFVYTVDVAVKRLLDLEPRTWDFIARLEPKLGTIEYMPDEKVASDLV SMLNVYKQGSDGELGINDTVNNGSICSPRKKPRVAVVGSGPSGLFASLVLGELGAEVTLIERGQ PVEQRGRDIGALVVRRILHSESNFCFGEGGAGTWSDGKLVTRIGRNTDGVQAVMKTFVQFGGPP NILVDGKPHLGTDKLVPLLRNFRHHLKELGVNIIFNTRVDDLVVEGGQVKGVVVSDSRLQLGSP NQTLSFDAVVLAVGHSARDTYSMLLRHNVDMHPKSFAVGLRIEHPQELINDIQYSELAAEVHKG RGRIPVADYKIVKSFGEGDAELPEQNRSCYSFCMCPGGQVVLTSTNPSELCINGMSFSRRASKW ANSAFVATVSSHDFRPFESHGSLAGVEFQREFERRAATMGGGNFVVPAQCVTDFLSNRLSVTTL PPSSYRLGVRPSKLHELFPSHITEVLQQSIIMIEEEMPGFVSSEALLHGVE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0411200_circ_g.2

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