Plant Circular RNA Database

Detail information of Os02g0812400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0812400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_017115
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 34785609-34786831  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os02g0812400						
					
						Parent gene annotation
						
							Trimeric LpxA-like domain containing protein. (Os02t0812400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0812400_circ_g.2 Os02g0812400_circ_g.3 Os02g0812400_circ_g.4 						
					
						Support reads
						3
					
						Tissues
						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
						Os02t0812400-01:3

General Information
CircRNA Name	Os02g0812400_circ_g.1
ID in PlantcircBase	osa_circ_017115
Alias	NA
Organism	Oryza sativa
Position	chr2: 34785609-34786831 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os02g0812400
Parent gene annotation	Trimeric LpxA-like domain containing protein. (Os02t0812400-01)
Parent gene strand	+
Alternative splicing	Os02g0812400_circ_g.2 Os02g0812400_circ_g.3 Os02g0812400_circ_g.4
Support reads	3
Tissues	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	Os02t0812400-01:3

			
						 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  
						
							AATTGAAGATGGATGCAAAGTGAGTAATTCACTAGTCTGTGATGGCGTTCATTTAGGGGCAGGG
GCTATTGTTGAACCTGGCTGCATACTGTCATTTAAGgactgctatattgatatatgctcaccag
aagttcttagtctttttacggataactttgattaccaacatcttcggcgccatttcgttaaggg
tttactag

									
								

					

						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: 564
Transcript exons: 34785609-34785716,34785819-34786011,34786569-34786831
GACTGCTATATTGATATATGCTCACCAGAAGTTCTTAGTCTTTTTACGGATAACTTTGATTACC
AACATCTTCGGCGCCATTTCGTTAAGGGTTTACTAGTTGATGATATTATGGGGTATAAAATATA
TACCCATGAAATACGCTCAAGTTATGCTGCCAGAATAGATAATTTTAGGAGCTATGATACTGTG
AGTAAGGATATAATTCAAAGGTGGACTTACCCTATGGTGCCTGATGTCCTGTCTTTCGGTGATC
GTCAAGAAATCAAACTTCATCGGCAGGGAATCTATAAGGCATCAGATGTAACACTGTCACATTC
TGCACAAATTGGTGCCAATTCTGTTGTTGGCAATGGGACAAGCGTTGGAGAAAACTGCAAGGTA
TCCAATTCAGTTATAGGACAAGGCTGCAATATTGGGAAAAATGTTTTGATTCATGGATCCTATA
TATGGGACAATGTCACAATTGAAGATGGATGCAAAGTGAGTAATTCACTAGTCTGTGATGGCGT
TCATTTAGGGGCAGGGGCTATTGTTGAACCTGGCTGCATACTGTCATTTAAG
						
					

						Genomic sequence
						
							GACTGCTATATTGATATATGCTCACCAGAAGTTCTTAGTCTTTTTACGGATAACTTTGATTACC
AACATCTTCGGCGCCATTTCGTTAAGGGTTTACTAGTTGATGATGTAAGTCCATTCACTTCTGT
TGAACATCTATAATACTACAGATTATGCTGTCTGTTCTTATATTTCTCTTGTAACGAATGACCT
GCTTCCTGATCCTTTCAGATTATGGGGTATAAAATATATACCCATGAAATACGCTCAAGTTATG
CTGCCAGAATAGATAATTTTAGGAGCTATGATACTGTGAGTAAGGATATAATTCAAAGGTGGAC
TTACCCTATGGTGCCTGATGTCCTGTCTTTCGGTGATCGTCAAGAAATCAAACTTCATCGGCAG
GGAATCTATAAGGCATCAGGTATATGGAATGAAAATAAATTTCCACAATGTTGATTGATTTTCA
CTTGCTCCTAGATTCATTGTTCTGAAATTCTAGATTTTTTCTCTCATGTTATTTATAGAGTACT
CTTATTTAAAATTGTTTAGTTTGGTATCTGGTTTTACAAAATTTCTTGTGCTGATGTGTGATTT
CTTGCTAACTAGTCATCAAATAGCCTAAATTAGTATATTTATTTCGTGTAAACTAATGGAAATT
GCTTCTAGGTATATATGTATGTTCCAAAGATGCTTAGTTTGCAGGTCATCATGTTTATCTGTTA
CGCAAATCATTCAGTGAACAATGAAAGTTATGGTTGCATAGTGAGTGTAACGATTCATATCTAA
CTTCTATGTTATGCTTCTTTAGTATTTTGTGGGGCTGTTGTTGAATTTTTATTTTTATTTGTTT
TAAAATATCTTGGGTATGCCACCCTGAACCCCACCCACCCATCATTTATGACTATATATGAAAG
TTCCTCCTGGTGAAGTAAATACAATTATCTATCTATATATCAACTGAGCATGTTTTTTTTCCAG
ATGTAACACTGTCACATTCTGCACAAATTGGTGCCAATTCTGTTGTTGGCAATGGGACAAGCGT
TGGAGAAAACTGCAAGGTATCCAATTCAGTTATAGGACAAGGCTGCAATATTGGGAAAAATGTT
TTGATTCATGGATCCTATATATGGGACAATGTCACAATTGAAGATGGATGCAAAGTGAGTAATT
CACTAGTCTGTGATGGCGTTCATTTAGGGGCAGGGGCTATTGTTGAACCTGGCTGCATACTGTC
ATTTAAG
						
					

			
		

Sequences
Splice junction sequence	AATTGAAGATGGATGCAAAGTGAGTAATTCACTAGTCTGTGATGGCGTTCATTTAGGGGCAGGG GCTATTGTTGAACCTGGCTGCATACTGTCATTTAAGgactgctatattgatatatgctcaccag aagttcttagtctttttacggataactttgattaccaacatcttcggcgccatttcgttaaggg tttactag
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: 564 Transcript exons: 34785609-34785716,34785819-34786011,34786569-34786831 GACTGCTATATTGATATATGCTCACCAGAAGTTCTTAGTCTTTTTACGGATAACTTTGATTACC AACATCTTCGGCGCCATTTCGTTAAGGGTTTACTAGTTGATGATATTATGGGGTATAAAATATA TACCCATGAAATACGCTCAAGTTATGCTGCCAGAATAGATAATTTTAGGAGCTATGATACTGTG AGTAAGGATATAATTCAAAGGTGGACTTACCCTATGGTGCCTGATGTCCTGTCTTTCGGTGATC GTCAAGAAATCAAACTTCATCGGCAGGGAATCTATAAGGCATCAGATGTAACACTGTCACATTC TGCACAAATTGGTGCCAATTCTGTTGTTGGCAATGGGACAAGCGTTGGAGAAAACTGCAAGGTA TCCAATTCAGTTATAGGACAAGGCTGCAATATTGGGAAAAATGTTTTGATTCATGGATCCTATA TATGGGACAATGTCACAATTGAAGATGGATGCAAAGTGAGTAATTCACTAGTCTGTGATGGCGT TCATTTAGGGGCAGGGGCTATTGTTGAACCTGGCTGCATACTGTCATTTAAG
Genomic sequence	GACTGCTATATTGATATATGCTCACCAGAAGTTCTTAGTCTTTTTACGGATAACTTTGATTACC AACATCTTCGGCGCCATTTCGTTAAGGGTTTACTAGTTGATGATGTAAGTCCATTCACTTCTGT TGAACATCTATAATACTACAGATTATGCTGTCTGTTCTTATATTTCTCTTGTAACGAATGACCT GCTTCCTGATCCTTTCAGATTATGGGGTATAAAATATATACCCATGAAATACGCTCAAGTTATG CTGCCAGAATAGATAATTTTAGGAGCTATGATACTGTGAGTAAGGATATAATTCAAAGGTGGAC TTACCCTATGGTGCCTGATGTCCTGTCTTTCGGTGATCGTCAAGAAATCAAACTTCATCGGCAG GGAATCTATAAGGCATCAGGTATATGGAATGAAAATAAATTTCCACAATGTTGATTGATTTTCA CTTGCTCCTAGATTCATTGTTCTGAAATTCTAGATTTTTTCTCTCATGTTATTTATAGAGTACT CTTATTTAAAATTGTTTAGTTTGGTATCTGGTTTTACAAAATTTCTTGTGCTGATGTGTGATTT CTTGCTAACTAGTCATCAAATAGCCTAAATTAGTATATTTATTTCGTGTAAACTAATGGAAATT GCTTCTAGGTATATATGTATGTTCCAAAGATGCTTAGTTTGCAGGTCATCATGTTTATCTGTTA CGCAAATCATTCAGTGAACAATGAAAGTTATGGTTGCATAGTGAGTGTAACGATTCATATCTAA CTTCTATGTTATGCTTCTTTAGTATTTTGTGGGGCTGTTGTTGAATTTTTATTTTTATTTGTTT TAAAATATCTTGGGTATGCCACCCTGAACCCCACCCACCCATCATTTATGACTATATATGAAAG TTCCTCCTGGTGAAGTAAATACAATTATCTATCTATATATCAACTGAGCATGTTTTTTTTCCAG ATGTAACACTGTCACATTCTGCACAAATTGGTGCCAATTCTGTTGTTGGCAATGGGACAAGCGT TGGAGAAAACTGCAAGGTATCCAATTCAGTTATAGGACAAGGCTGCAATATTGGGAAAAATGTT TTGATTCATGGATCCTATATATGGGACAATGTCACAATTGAAGATGGATGCAAAGTGAGTAATT CACTAGTCTGTGATGGCGTTCATTTAGGGGCAGGGGCTATTGTTGAACCTGGCTGCATACTGTC ATTTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.164391415

Conservation Information
Conserved circRNAs	NA
PMCS	0.164391415

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34785823-34786828(+)
						
						Potential amino acid sequence
						
							MGYKIYTHEIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASD
VTLSHSAQIGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNS
LVCDGVHLGAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYK
IYTHEIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLS
HSAQIGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCD
GVHLGAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYKIYTH
EIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLSHSAQ
IGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCDGVHL
GAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYKIYTHEIRS
SYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLSHSAQIGAN
SVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCDGVHLGAGA
IVEPGCILSFK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34785823-34786828(+)
Potential amino acid sequence	MGYKIYTHEIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASD VTLSHSAQIGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNS LVCDGVHLGAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYK IYTHEIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLS HSAQIGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCD GVHLGAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYKIYTH EIRSSYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLSHSAQ IGANSVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCDGVHL GAGAIVEPGCILSFKDCYIDICSPEVLSLFTDNFDYQHLRRHFVKGLLVDDIMGYKIYTHEIRS SYAARIDNFRSYDTVSKDIIQRWTYPMVPDVLSFGDRQEIKLHRQGIYKASDVTLSHSAQIGAN SVVGNGTSVGENCKVSNSVIGQGCNIGKNVLIHGSYIWDNVTIEDGCKVSNSLVCDGVHLGAGA IVEPGCILSFK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0812400_circ_g.1

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