Plant Circular RNA Database

Detail information of Os05g0301600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0301600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_027309
					
						Alias
						Os_ciR1576
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 13538273-13539702  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os05g0301600						
					
						Parent gene annotation
						
							Protein phosphatase inhibitor 2 (IPP-2) family protein. (Os05t03
01600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0301600_circ_g.2 Os05g0301600_circ_g.4 Os05g0301600_circ_g.5 Os05g0301600_circ_g.6 Os05g0301600_circ_g.7 Os05g0301600_circ_g.8 Os05g0301600_circ_g.9 						
					
						Support reads
						10/2
					
						Tissues
						root/shoot, root, seed
					
						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
						Os05t0301600-01:3

General Information
CircRNA Name	Os05g0301600_circ_g.3
ID in PlantcircBase	osa_circ_027309
Alias	Os_ciR1576
Organism	Oryza sativa
Position	chr5: 13538273-13539702 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
Parent gene	Os05g0301600
Parent gene annotation	Protein phosphatase inhibitor 2 (IPP-2) family protein. (Os05t03 01600-01)
Parent gene strand	+
Alternative splicing	Os05g0301600_circ_g.2 Os05g0301600_circ_g.4 Os05g0301600_circ_g.5 Os05g0301600_circ_g.6 Os05g0301600_circ_g.7 Os05g0301600_circ_g.8 Os05g0301600_circ_g.9
Support reads	10/2
Tissues	root/shoot, root, seed
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	Os05t0301600-01:3

			
						 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  
						
							ACTGCTTTAAATGGTGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCT
CAGATGATGATGCAGATGCCATGGAACAAGATGATGctttcgtgagtgaggatttctcaaactt
catttattttccatcactgggaggtgttgaagcttaatcatgaggtcaattcttgcttcctacc
tttggaca

									
								

					

						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: 356
Transcript exons: 13538273-13538344,13539322-13539437,13539535-13539702
CTTTCGTGAGTGAGGATTTCTCAAACTTCATTTATTTTCCATCACTGGGAGGTGTTGAAGCTTA
ATCATGAGCTCTCGTCGTGTGAAGTGGAATGAAGACAACCTGTATGAGATTGAATCAAATAAAC
CTGTTAGGCAGAAGATAACTGAGCCTAAGACACCATATCACCCTATGGTAGATGATGATGGGTC
ATTGTCACCAACGCGTCCTTTTGACAAGTGTCTGGATGAGACTGTTAATGCTGAAGCTATTTTA
ACTGCTTTAAATGGTGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCT
CAGATGATGATGCAGATGCCATGGAACAAGATGATG
						
					

						Genomic sequence
						
							CTTTCGTGAGTGAGGATTTCTCAAACTTCATTTATTTTCCATCACTGGGAGGTGTTGAAGCTTA
ATCATGAGGTCAATTCTTGCTTCCTACCTTTGGACATATTTCTGCTGGTTTGCATACCTTAGGC
CCACGCCCATAACACGTTACCAAGAAGTATGTTTGGTAAATTCTGAGGATTATTTGTTATTTTC
CAGTTGCTATGATATGTAAATTAAAAAAACAAAACTCGGCCGGCGGGGGAAAGACCGCCCCCTC
ATCTTTTCAAGCTAAGAAGAAACCACAGACAAAGCTAGTCAAGAAAGGCCACGAACCCTGGGCC
CTTGACAAAGAATCAATTTAAGCAGCACCTCTTTGTTTACAGTTGTTTTTCCTTTTTTTTTCCT
TTTTACCTTACAAAAGTTAAGGTTCCAGCCAGGCAGTTATTAATATGAGGTGGTGTAAAGATTC
AGCAGTTTCAATGATGATGAAATCAGTGGTTCCATTCCGGATTACTTCAGGGTCAAATATTGTT
TAGATGGGACTCAATGTTGAGAATTTAGAGCTGTATGATTGTATGATTGTTTAGTAAAATCAAA
TATTACTATAAATACTAAAAAGTTGAGAATTTAGAGCTGTATGATTGTTGAAGTATGATGTCTC
AATCTTTTAGGCCCAGAAATAGTAGTTTGTTGATTTATGCTGCTTGGATTTCAGAACCTGATAC
GTTAAAACTGAAGGGATGAAAGGGCAAACAGAGCTTGTCAAAGTTTTGTGTTAAGAAAAAGGTG
ACACGGCTCCTTTTGATGATGGTACCATGGTGGAATAACTTACAATAAGGCCCTAAGTGCTTAG
ACAGATACACCATAGCTGCTGATTTGTACATGAATTTTGTTTCGAAAAACTGTTTGATTTTTAG
ATTAAAGAACTTTATGGAGTTTTAGATTCATACACCATCTTTTTTTCTTTTTTGGTGTGGAAAT
GCTGGACTGTTAAGAGCTAGTTGAAAAAAAACTACTGCACAAGCGTGAGTTTAGAGTTTACTTA
ATTTGATTTTACTGTTTTTCTTTAGCTCTCGTCGTGTGAAGTGGAATGAAGACAACCTGTATGA
GATTGAATCAAATAAACCTGTTAGGCAGAAGATAACTGAGCCTAAGACACCATATCACCCTATG
GTAGATGATGATGGTACATGTTTTCCTGTTCTGATCTCATTATACCTTTACTTGACCATATTAG
TTACTGTGTCGTTGTTGAATATGTCTTGCCATTGCTTTCTTTATAGGGTCATTGTCACCAACGC
GTCCTTTTGACAAGTGTCTGGATGAGACTGTTAATGCTGAAGCTATTTTAACTGCTTTAAATGG
TGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCTCAGATGATGATGCA
GATGCCATGGAACAAGATGATG
						
					

			
		

Sequences
Splice junction sequence	ACTGCTTTAAATGGTGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCT CAGATGATGATGCAGATGCCATGGAACAAGATGATGctttcgtgagtgaggatttctcaaactt catttattttccatcactgggaggtgttgaagcttaatcatgaggtcaattcttgcttcctacc tttggaca
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: 356 Transcript exons: 13538273-13538344,13539322-13539437,13539535-13539702 CTTTCGTGAGTGAGGATTTCTCAAACTTCATTTATTTTCCATCACTGGGAGGTGTTGAAGCTTA ATCATGAGCTCTCGTCGTGTGAAGTGGAATGAAGACAACCTGTATGAGATTGAATCAAATAAAC CTGTTAGGCAGAAGATAACTGAGCCTAAGACACCATATCACCCTATGGTAGATGATGATGGGTC ATTGTCACCAACGCGTCCTTTTGACAAGTGTCTGGATGAGACTGTTAATGCTGAAGCTATTTTA ACTGCTTTAAATGGTGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCT CAGATGATGATGCAGATGCCATGGAACAAGATGATG
Genomic sequence	CTTTCGTGAGTGAGGATTTCTCAAACTTCATTTATTTTCCATCACTGGGAGGTGTTGAAGCTTA ATCATGAGGTCAATTCTTGCTTCCTACCTTTGGACATATTTCTGCTGGTTTGCATACCTTAGGC CCACGCCCATAACACGTTACCAAGAAGTATGTTTGGTAAATTCTGAGGATTATTTGTTATTTTC CAGTTGCTATGATATGTAAATTAAAAAAACAAAACTCGGCCGGCGGGGGAAAGACCGCCCCCTC ATCTTTTCAAGCTAAGAAGAAACCACAGACAAAGCTAGTCAAGAAAGGCCACGAACCCTGGGCC CTTGACAAAGAATCAATTTAAGCAGCACCTCTTTGTTTACAGTTGTTTTTCCTTTTTTTTTCCT TTTTACCTTACAAAAGTTAAGGTTCCAGCCAGGCAGTTATTAATATGAGGTGGTGTAAAGATTC AGCAGTTTCAATGATGATGAAATCAGTGGTTCCATTCCGGATTACTTCAGGGTCAAATATTGTT TAGATGGGACTCAATGTTGAGAATTTAGAGCTGTATGATTGTATGATTGTTTAGTAAAATCAAA TATTACTATAAATACTAAAAAGTTGAGAATTTAGAGCTGTATGATTGTTGAAGTATGATGTCTC AATCTTTTAGGCCCAGAAATAGTAGTTTGTTGATTTATGCTGCTTGGATTTCAGAACCTGATAC GTTAAAACTGAAGGGATGAAAGGGCAAACAGAGCTTGTCAAAGTTTTGTGTTAAGAAAAAGGTG ACACGGCTCCTTTTGATGATGGTACCATGGTGGAATAACTTACAATAAGGCCCTAAGTGCTTAG ACAGATACACCATAGCTGCTGATTTGTACATGAATTTTGTTTCGAAAAACTGTTTGATTTTTAG ATTAAAGAACTTTATGGAGTTTTAGATTCATACACCATCTTTTTTTCTTTTTTGGTGTGGAAAT GCTGGACTGTTAAGAGCTAGTTGAAAAAAAACTACTGCACAAGCGTGAGTTTAGAGTTTACTTA ATTTGATTTTACTGTTTTTCTTTAGCTCTCGTCGTGTGAAGTGGAATGAAGACAACCTGTATGA GATTGAATCAAATAAACCTGTTAGGCAGAAGATAACTGAGCCTAAGACACCATATCACCCTATG GTAGATGATGATGGTACATGTTTTCCTGTTCTGATCTCATTATACCTTTACTTGACCATATTAG TTACTGTGTCGTTGTTGAATATGTCTTGCCATTGCTTTCTTTATAGGGTCATTGTCACCAACGC GTCCTTTTGACAAGTGTCTGGATGAGACTGTTAATGCTGAAGCTATTTTAACTGCTTTAAATGG TGTGGCTTCTTCAAGCAAAACTGATCCAAAGGATGATGGTTGGGCATCCTCAGATGATGATGCA GATGCCATGGAACAAGATGATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006122* osi_circ_015281 						
					
						PMCS
						0.353565163

Conservation Information
Conserved circRNAs	osi_circ_006122* osi_circ_015281
PMCS	0.353565163

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13538341-13538334(+)
13539614-13538278(+)
13538305-13539417(-)
						
						Potential amino acid sequence
						
							MSSRRVKWNEDNLYEIESNKPVRQKITEPKTPYHPMVDDDGSLSPTRPFDKCLDETVNAEAILT
ALNGVASSSKTDPKDDGWASSDDDADAMEQDDAFVSEDFSNFIYFPSLGGVEA*(+)
MVWLLQAKLIQRMMVGHPQMMMQMPWNKMMLS*(+)
MKFEKSSLTKASSCSMASASSSEDAQPSSFGSVLLEEATPFKAVKIASALTVSSRHLSKGRVGD
NDPSSSTIG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13538341-13538334(+) 13539614-13538278(+) 13538305-13539417(-)
Potential amino acid sequence	MSSRRVKWNEDNLYEIESNKPVRQKITEPKTPYHPMVDDDGSLSPTRPFDKCLDETVNAEAILT ALNGVASSSKTDPKDDGWASSDDDADAMEQDDAFVSEDFSNFIYFPSLGGVEA(+) MVWLLQAKLIQRMMVGHPQMMMQMPWNKMMLS(+) MKFEKSSLTKASSCSMASASSSEDAQPSSFGSVLLEEATPFKAVKIASALTVSSRHLSKGRVGD NDPSSSTIG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os05g0301600_circ_g.3

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