Plant Circular RNA Database

Detail information of Os03g0849600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0849600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022715
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 35736824-35739424  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0849600						
					
						Parent gene annotation
						
							COG complex component, COG2 family protein. (Os03t0849600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0849600_circ_g.2 Os03g0849600_circ_g.4 Os03g0849600_circ_g.5 Os03g0849600_circ_g.6 Os03g0849600_circ_g.7 Os03g0849600_circ_g.8 Os03g0849600_circ_g.9 						
					
						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
						Os03t0849600-01:8

General Information
CircRNA Name	Os03g0849600_circ_g.3
ID in PlantcircBase	osa_circ_022715
Alias	NA
Organism	Oryza sativa
Position	chr3: 35736824-35739424 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0849600
Parent gene annotation	COG complex component, COG2 family protein. (Os03t0849600-01)
Parent gene strand	-
Alternative splicing	Os03g0849600_circ_g.2 Os03g0849600_circ_g.4 Os03g0849600_circ_g.5 Os03g0849600_circ_g.6 Os03g0849600_circ_g.7 Os03g0849600_circ_g.8 Os03g0849600_circ_g.9
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	Os03t0849600-01:8

			
						 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  
						
							CCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGATTGCCAAATGGACTTCTTTGAGTATTGAAT
TGGCCAGAAAATCAAAAACATGAAGCCCAGAGTTTGctgaatgtcaagaaatagctgcatgcag
atcttgtcagtatcagaaatgatgttatccgaggtatcggtattagctcctactcgtctttgtg
caccttga

									
								

					

						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: 1154
Transcript exons: 35736824-35736958,35737039-35737161,35737455-35737556,35
737699-35737905,35738449-35738563,35738654-35738863,3573
8950-35739049,35739263-35739424
CTGAATGTCAAGAAATAGCTGCATGCAGATCTTGTCAGTATCAGAAATGATGTTATCCGAGGTA
TCGGTATTAGCTCCTACTCGTCTTTGTGCACCTTGACGTAGTCTTTGCAATGATGATTCAGTTT
TCCTTGCCACAGTGACTACTTCAGACACCATGTCATAATAAATTGAAGTGATCTTATCTGTCGA
TCCACGGCGCAGCTTTGCTTTATCATCTTCTGATAAATAGTGAATACGGTCACCTTCAAGAAAA
ACCTTAAGTGGATGCAAAATCCCAGATACATATGGAGAATGCCTTACTGGAAGCTTATTGGTCA
TTCTATATGTTGCTGTTATTCCCTTTAGGTGCTTCAAGTCCTCATTAGACCTTTTAACTATCAC
CATAATCATGACATTCATTATAGCAGGCAACAACTCCTTTAAAGGCTCAACAGCTTGCAGTATA
CTGTGTTTCACGAGAGCAAGTACTTCGGTTGGGCATGATGCTAGCAATTGGTTTACATGTTCCA
CAAATTGGCCTGATTCCAAAAGCTCGCTTATTACAGCATTTACATCATGCATTACATAAATGAA
ATCCTCCACAGGTACAGATAGTGCCCATTCAGCATCCGCAGGAGAACTTGAGCCCCCATCAGAA
GCTTTCCGTGCAGCCAAACCAGAAGAAAGCCATGTTGTATACCTTGAAATAAGCTGCAAAGACA
AGCGGAGGAACTTATCAGAGTGGGAGAAAACAAGAACATCGTCACTCCAGCAGGCCTGCAAACT
TTCTAAGAGCTTAACGCTTTGTTTCAACAACAGTGTCTGCGGCTTCGCTTGATTGTCATGCATT
CCAGCAGGAGTAATTGTGGCTGTAAGCACAGAATCAAGACCACCAGCAATGTCCTGAAATTTCA
ATGTGAAGTAGACAGCAACATGCCACTGTCGCATGAAATCGGCATAAGCAGGCTCGGAGCGGAA
CTTTGTTACAGCAGGCTTAGATGAACAGTAACCTTCCAGAAAATCAAGGAATCTTAAGCTTGCT
TTGTAGTTTTTGAGGAACTGTTTAGGTTTTCCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGA
TTGCCAAATGGACTTCTTTGAGTATTGAATTGGCCAGAAAATCAAAAACATGAAGCCCAGAGTT
TG
						
					

						Genomic sequence
						
							CTGAATGTCAAGAAATAGCTGCATGCAGATCTTGTCAGTATCAGAAATGATGTTATCCGAGGTA
TCGGTATTAGCTCCTACTCGTCTTTGTGCACCTTGACGTAGTCTTTGCAATGATGATTCAGTTT
TCCTTGCCTTTATATTCAATAAAAATGGTTTAATTCACCAATAAGCAGATATGAGCTCTCATAA
GCAGTTAAGCATTCCTTACTTACCACAGTGACTACTTCAGACACCATGTCATAATAAATTGAAG
TGATCTTATCTGTCGATCCACGGCGCAGCTTTGCTTTATCATCTTCTGATAAATAGTGAATACG
GTCACCTTCAAGAAAAACCTACAAGAACAGAGGAACATCACATATGAAATATGGAGGCAAAAAG
AGCATAAACACATGTTTCTAAATATCGGGGCCTGCAAAATGGCAAAACATAAGTTATTCTTGAG
GGTGATAACGATCAGACTAATGGGTACTAGATACTGACCATGGCACTTAAAAATCGCCAAGAAC
ACATACTGAATGCAGCCATTAGGACATAGACGCTACCAGTTAAGTAGTTAACTTTTGATGCTTC
ACTTTTGAGAAACATAAATCATAAAGCAGAGAAGTAAAACAGGATGTCCATTCACCTTAAGTGG
ATGCAAAATCCCAGATACATATGGAGAATGCCTTACTGGAAGCTTATTGGTCATTCTATATGTT
GCTGTTATTCCCTTTAGGTGCTTCAAGTCCTACAATCAACCAGAAATATAGTTGGTAAGAACAG
AAGGACCATGACTCAAAATTGTCTTATTGTACCATACGAGTGATGAACCACAGATACAGTAAGA
AATGATGACATTGCTTCTCTTCTGCTGACTTAGGTGTACTCACCTCATTAGACCTTTTAACTAT
CACCATAATCATGACATTCATTATAGCAGGCAACAACTCCTTTAAAGGCTCAACAGCTTGCAGT
ATACTGTGTTTCACGAGAGCAAGTACTTCGGTTGGGCATGATGCTAGCAATTGGTTTACATGTT
CCACAAATTGGCCTGATTCCAAAAGCTCGCTTATTACAGCATTTACATCATGCATTACCTGTGC
ATCAAATACAGAATTTAAATGCAATTCACAAAATATGCCTGATGGCCATAATCTTCTATGTTTC
AAATTTTATAAGAAATATGAGAATCAGGGCCCAAAATAATGGGTAAGATTACGTAATAATCAAT
ATTGACTAGCTTCCAATCTAGAGCACATCATGAAGAACAAGCCGAACAACTATTTCCAGTTTAC
ACATGAAAAAAAAGGGACAAGTCATACCTGATATGCTACACCGCTACCAACTGTAGACTTTCTA
ACTAACCAGTAACCACAGTATATGTGTTCCTGGAATGTTTGTTGGGCTAGAAGTGCAAGGTGTC
ATCTTTGGGATGCCCTCCTAAGCACTTATAGTCTTAAACCTTAGTGTGAGTCTCAAATTATTGC
TAATCTATGCAACCATCTCAATGTCACTGGCTAAGATGACAATACTATTTCAGTCTTAAGCCAA
AAAGTTCATGATGAAGGATGAAAAGCAGTAGGTTCAGATGACTGAAATAACACACTTGGAATTC
AAGGAGTATTGTAGACATGACATACATAAATGAAATCCTCCACAGGTACAGATAGTGCCCATTC
AGCATCCGCAGGAGAACTTGAGCCCCCATCAGAAGCTTTCCGTGCAGCCAAACCAGAAGAAAGC
CATGTTGTATACCTTATTGTAAAATGTAGAATACAAAAAGGGTCAATCACCATAGGTTAAATCA
TAAAAGATAAGGCAAAGAATCCTCTGCAGTAGCTATACCTTGAAATAAGCTGCAAAGACAAGCG
GAGGAACTTATCAGAGTGGGAGAAAACAAGAACATCGTCACTCCAGCAGGCCTGCAAACTTTCT
AAGAGCTTAACGCTTTGTTTCAACAACAGTGTCTGCGGCTTCGCTTGATTGTCATGCATTCCAG
CAGGAGTAATTGTGGCTGTAAGCACAGAATCAAGACCACCAGCAATGTCCTGAAATCTTATGAT
TGAACCAGTTGAAGTCAAGTTAGAAATGAAGTTCTGAAGAGCATTTGACAGCAGCATAGCCTAA
ATATTTATGCTTACTTCAATGTGAAGTAGACAGCAACATGCCACTGTCGCATGAAATCGGCATA
AGCAGGCTCGGAGCGGAACTTTGTTACAGCAGGCTTAGATGAACAGTAACCTACAGGACCAAAT
ATTCAATCAATAGCAACTCCCAATAGTCATATATGTATATCTTTAACCCAGTCTAACCACATTC
CTTGTTAGTCCTATATAATGGCTGTCCCAAATGTATAAACCAGCATAACTTGCGAGCAAGCATA
GTATTTATTGTAGTAGGCTTAGCTGGTTAAATACAAAACAATAATCACAATGCAACATAATTTA
GCAATACCTTCCAGAAAATCAAGGAATCTTAAGCTTGCTTTGTAGTTTTTGAGGAACTGTTTAG
GTTTTCCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGATTGCCAAATGGACTTCTTTGAGTAT
TGAATTGGCCAGAAAATCAAAAACATGAAGCCCAGAGTTTG
						
					

			
		

Sequences
Splice junction sequence	CCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGATTGCCAAATGGACTTCTTTGAGTATTGAAT TGGCCAGAAAATCAAAAACATGAAGCCCAGAGTTTGctgaatgtcaagaaatagctgcatgcag atcttgtcagtatcagaaatgatgttatccgaggtatcggtattagctcctactcgtctttgtg caccttga
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: 1154 Transcript exons: 35736824-35736958,35737039-35737161,35737455-35737556,35 737699-35737905,35738449-35738563,35738654-35738863,3573 8950-35739049,35739263-35739424 CTGAATGTCAAGAAATAGCTGCATGCAGATCTTGTCAGTATCAGAAATGATGTTATCCGAGGTA TCGGTATTAGCTCCTACTCGTCTTTGTGCACCTTGACGTAGTCTTTGCAATGATGATTCAGTTT TCCTTGCCACAGTGACTACTTCAGACACCATGTCATAATAAATTGAAGTGATCTTATCTGTCGA TCCACGGCGCAGCTTTGCTTTATCATCTTCTGATAAATAGTGAATACGGTCACCTTCAAGAAAA ACCTTAAGTGGATGCAAAATCCCAGATACATATGGAGAATGCCTTACTGGAAGCTTATTGGTCA TTCTATATGTTGCTGTTATTCCCTTTAGGTGCTTCAAGTCCTCATTAGACCTTTTAACTATCAC CATAATCATGACATTCATTATAGCAGGCAACAACTCCTTTAAAGGCTCAACAGCTTGCAGTATA CTGTGTTTCACGAGAGCAAGTACTTCGGTTGGGCATGATGCTAGCAATTGGTTTACATGTTCCA CAAATTGGCCTGATTCCAAAAGCTCGCTTATTACAGCATTTACATCATGCATTACATAAATGAA ATCCTCCACAGGTACAGATAGTGCCCATTCAGCATCCGCAGGAGAACTTGAGCCCCCATCAGAA GCTTTCCGTGCAGCCAAACCAGAAGAAAGCCATGTTGTATACCTTGAAATAAGCTGCAAAGACA AGCGGAGGAACTTATCAGAGTGGGAGAAAACAAGAACATCGTCACTCCAGCAGGCCTGCAAACT TTCTAAGAGCTTAACGCTTTGTTTCAACAACAGTGTCTGCGGCTTCGCTTGATTGTCATGCATT CCAGCAGGAGTAATTGTGGCTGTAAGCACAGAATCAAGACCACCAGCAATGTCCTGAAATTTCA ATGTGAAGTAGACAGCAACATGCCACTGTCGCATGAAATCGGCATAAGCAGGCTCGGAGCGGAA CTTTGTTACAGCAGGCTTAGATGAACAGTAACCTTCCAGAAAATCAAGGAATCTTAAGCTTGCT TTGTAGTTTTTGAGGAACTGTTTAGGTTTTCCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGA TTGCCAAATGGACTTCTTTGAGTATTGAATTGGCCAGAAAATCAAAAACATGAAGCCCAGAGTT TG
Genomic sequence	CTGAATGTCAAGAAATAGCTGCATGCAGATCTTGTCAGTATCAGAAATGATGTTATCCGAGGTA TCGGTATTAGCTCCTACTCGTCTTTGTGCACCTTGACGTAGTCTTTGCAATGATGATTCAGTTT TCCTTGCCTTTATATTCAATAAAAATGGTTTAATTCACCAATAAGCAGATATGAGCTCTCATAA GCAGTTAAGCATTCCTTACTTACCACAGTGACTACTTCAGACACCATGTCATAATAAATTGAAG TGATCTTATCTGTCGATCCACGGCGCAGCTTTGCTTTATCATCTTCTGATAAATAGTGAATACG GTCACCTTCAAGAAAAACCTACAAGAACAGAGGAACATCACATATGAAATATGGAGGCAAAAAG AGCATAAACACATGTTTCTAAATATCGGGGCCTGCAAAATGGCAAAACATAAGTTATTCTTGAG GGTGATAACGATCAGACTAATGGGTACTAGATACTGACCATGGCACTTAAAAATCGCCAAGAAC ACATACTGAATGCAGCCATTAGGACATAGACGCTACCAGTTAAGTAGTTAACTTTTGATGCTTC ACTTTTGAGAAACATAAATCATAAAGCAGAGAAGTAAAACAGGATGTCCATTCACCTTAAGTGG ATGCAAAATCCCAGATACATATGGAGAATGCCTTACTGGAAGCTTATTGGTCATTCTATATGTT GCTGTTATTCCCTTTAGGTGCTTCAAGTCCTACAATCAACCAGAAATATAGTTGGTAAGAACAG AAGGACCATGACTCAAAATTGTCTTATTGTACCATACGAGTGATGAACCACAGATACAGTAAGA AATGATGACATTGCTTCTCTTCTGCTGACTTAGGTGTACTCACCTCATTAGACCTTTTAACTAT CACCATAATCATGACATTCATTATAGCAGGCAACAACTCCTTTAAAGGCTCAACAGCTTGCAGT ATACTGTGTTTCACGAGAGCAAGTACTTCGGTTGGGCATGATGCTAGCAATTGGTTTACATGTT CCACAAATTGGCCTGATTCCAAAAGCTCGCTTATTACAGCATTTACATCATGCATTACCTGTGC ATCAAATACAGAATTTAAATGCAATTCACAAAATATGCCTGATGGCCATAATCTTCTATGTTTC AAATTTTATAAGAAATATGAGAATCAGGGCCCAAAATAATGGGTAAGATTACGTAATAATCAAT ATTGACTAGCTTCCAATCTAGAGCACATCATGAAGAACAAGCCGAACAACTATTTCCAGTTTAC ACATGAAAAAAAAGGGACAAGTCATACCTGATATGCTACACCGCTACCAACTGTAGACTTTCTA ACTAACCAGTAACCACAGTATATGTGTTCCTGGAATGTTTGTTGGGCTAGAAGTGCAAGGTGTC ATCTTTGGGATGCCCTCCTAAGCACTTATAGTCTTAAACCTTAGTGTGAGTCTCAAATTATTGC TAATCTATGCAACCATCTCAATGTCACTGGCTAAGATGACAATACTATTTCAGTCTTAAGCCAA AAAGTTCATGATGAAGGATGAAAAGCAGTAGGTTCAGATGACTGAAATAACACACTTGGAATTC AAGGAGTATTGTAGACATGACATACATAAATGAAATCCTCCACAGGTACAGATAGTGCCCATTC AGCATCCGCAGGAGAACTTGAGCCCCCATCAGAAGCTTTCCGTGCAGCCAAACCAGAAGAAAGC CATGTTGTATACCTTATTGTAAAATGTAGAATACAAAAAGGGTCAATCACCATAGGTTAAATCA TAAAAGATAAGGCAAAGAATCCTCTGCAGTAGCTATACCTTGAAATAAGCTGCAAAGACAAGCG GAGGAACTTATCAGAGTGGGAGAAAACAAGAACATCGTCACTCCAGCAGGCCTGCAAACTTTCT AAGAGCTTAACGCTTTGTTTCAACAACAGTGTCTGCGGCTTCGCTTGATTGTCATGCATTCCAG CAGGAGTAATTGTGGCTGTAAGCACAGAATCAAGACCACCAGCAATGTCCTGAAATCTTATGAT TGAACCAGTTGAAGTCAAGTTAGAAATGAAGTTCTGAAGAGCATTTGACAGCAGCATAGCCTAA ATATTTATGCTTACTTCAATGTGAAGTAGACAGCAACATGCCACTGTCGCATGAAATCGGCATA AGCAGGCTCGGAGCGGAACTTTGTTACAGCAGGCTTAGATGAACAGTAACCTACAGGACCAAAT ATTCAATCAATAGCAACTCCCAATAGTCATATATGTATATCTTTAACCCAGTCTAACCACATTC CTTGTTAGTCCTATATAATGGCTGTCCCAAATGTATAAACCAGCATAACTTGCGAGCAAGCATA GTATTTATTGTAGTAGGCTTAGCTGGTTAAATACAAAACAATAATCACAATGCAACATAATTTA GCAATACCTTCCAGAAAATCAAGGAATCTTAAGCTTGCTTTGTAGTTTTTGAGGAACTGTTTAG GTTTTCCAGGAGAGGTCGCCCCGGGCTTTCCCTTCTGGATTGCCAAATGGACTTCTTTGAGTAT TGAATTGGCCAGAAAATCAAAAACATGAAGCCCAGAGTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239152262

Conservation Information
Conserved circRNAs	NA
PMCS	0.239152262

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35738989-35739286(-)
						
						Potential amino acid sequence
						
							MRQWHVAVYFTLKFQDIAGGLDSVLTATITPAGMHDNQAKPQTLLLKQSVKLLESLQACWSDDV
LVFSHSDKFLRLSLQLISRYTTWLSSGLAARKASDGGSSSPADAEWALSVPVEDFIYVMHDVNA
VISELLESGQFVEHVNQLLASCPTEVLALVKHSILQAVEPLKELLPAIMNVMIMVIVKRSNEDL
KHLKGITATYRMTNKLPVRHSPYVSGILHPLKVFLEGDRIHYLSEDDKAKLRRGSTDKITSIYY
DMVSEVVTVARKTESSLQRLRQGAQRRVGANTDTSDNIISDTDKICMQLFLDIQQTLGFMFLIF
WPIQYSKKSIWQSRRESPGRPLLENLNSSSKTTKQA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35738989-35739286(-)
Potential amino acid sequence	MRQWHVAVYFTLKFQDIAGGLDSVLTATITPAGMHDNQAKPQTLLLKQSVKLLESLQACWSDDV LVFSHSDKFLRLSLQLISRYTTWLSSGLAARKASDGGSSSPADAEWALSVPVEDFIYVMHDVNA VISELLESGQFVEHVNQLLASCPTEVLALVKHSILQAVEPLKELLPAIMNVMIMVIVKRSNEDL KHLKGITATYRMTNKLPVRHSPYVSGILHPLKVFLEGDRIHYLSEDDKAKLRRGSTDKITSIYY DMVSEVVTVARKTESSLQRLRQGAQRRVGANTDTSDNIISDTDKICMQLFLDIQQTLGFMFLIF WPIQYSKKSIWQSRRESPGRPLLENLNSSSKTTKQA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0849600_circ_g.3

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