Plant Circular RNA Database

Detail information of Os02g0137100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0137100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_013048
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 1969379-1971011  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0137100						
					
						Parent gene annotation
						
							Similar to plant-specific domain TIGR01589 family protein. (Os02
t0137100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0137100_circ_g.1 Os02g0137100_circ_g.2 Os02g0137100_circ_g.4 Os02g0137100_circ_g.5 Os02g0137100_circ_g.6 Os02g0137100_circ_g.7 						
					
						Support reads
						1
					
						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
						Os02t0137100-01:3

General Information
CircRNA Name	Os02g0137100_circ_g.3
ID in PlantcircBase	osa_circ_013048
Alias	NA
Organism	Oryza sativa
Position	chr2: 1969379-1971011 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0137100
Parent gene annotation	Similar to plant-specific domain TIGR01589 family protein. (Os02 t0137100-01)
Parent gene strand	+
Alternative splicing	Os02g0137100_circ_g.1 Os02g0137100_circ_g.2 Os02g0137100_circ_g.4 Os02g0137100_circ_g.5 Os02g0137100_circ_g.6 Os02g0137100_circ_g.7
Support reads	1
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	Os02t0137100-01:3

			
						 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  
						
							CCAATTATGGACATGGATTCATCATCTTTTGGTTTCTTGAGCCAAATTCCTCGGAATTTCAGTT
TTTCAGATTTAACTGAAGACTTTAGCCAAAGTGCAGgtccagaatcttattgaacgatgtcttc
agctttatatgaaccagaaagaagtggttgagaccctatcattccaggcgaaaattgaacctag
ttttactg

									
								

					

						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: 769
Transcript exons: 1969379-1969484,1969785-1969970,1970535-1971011
GTCCAGAATCTTATTGAACGATGTCTTCAGCTTTATATGAACCAGAAAGAAGTGGTTGAGACCC
TATCATTCCAGGCGAAAATTGAACCTAGTTTTACTGAGCTTGTCTGGCAGAAACTTGAGGAAGA
GAATCGTGAGTTCTTTAAAGCATATTATGTGAGACTTATGCTTAAGAATCAAATAATGGTCTTC
AACAAGCTCCTTGAGGATCAGTATCGGCTTATGTGTAAAGAGCAGCCTTCTGGAGTACCTTCTA
TGCCTCCTACTACTAATGGCTCCAACATGGGCACATTGAATCAAAATGCATGCTTTTTGCCAGA
CACTACTCCCAGCACTGCAATGCCAGATAGCTTGCTACCCAATGGAAGTTCCAGCGGTATTGTA
AATGGCACTCCATCCAGTGACCAATTTATCTATGCTGGTAAAGTCATTCATGGTCTTCCTAGCA
GTATGGATGCTTCATCTAGTCTACTGGCAGCACATAACTCAACTGCTGGGAGGTTTAATGGAGA
CAATGGAACAACAATCAAGACAGAAGCAAGCTACTCGGGCAACTCTGATTTTGGTTTCTGCAAT
GAGAGCGCTTTCCTAGAACCTTGCCAGTCAATTGGGGATGCCTCTGGTGGATCCTTCAGCAGCT
CTGAGCTGAATGGACAGCCACTAGGTGATCCAATTATGGACATGGATTCATCATCTTTTGGTTT
CTTGAGCCAAATTCCTCGGAATTTCAGTTTTTCAGATTTAACTGAAGACTTTAGCCAAAGTGCA
G
						
					

						Genomic sequence
						
							GTCCAGAATCTTATTGAACGATGTCTTCAGCTTTATATGAACCAGAAAGAAGTGGTTGAGACCC
TATCATTCCAGGCGAAAATTGAACCTAGTTTTACTGAGCTTGGTAATACCCTTATACAGATTTT
CTTTTTCTTGTTGTGCACTGAATGTAGCATAACTATAACTTGGTTGACTTCCCATTGCATATTG
ACATAGCAATATAGCATTCATGGTGCACCAAGCCTTTGAATTTTTATGAGCCAATGGTTAATAT
CGGACAGGAATATGTGTGCTTTCTAATACAATTTGGAGGGCATTAATTTCATTCCGTCGTAATT
CATAAACAATTGGTTCTCCGATTGCTGTTTTTAATGGTAAAACACAAACACGTTTGCCTCTATT
TCTCACTGTTGTTTTTCTCCAGTCTGGCAGAAACTTGAGGAAGAGAATCGTGAGTTCTTTAAAG
CATATTATGTGAGACTTATGCTTAAGAATCAAATAATGGTCTTCAACAAGCTCCTTGAGGATCA
GTATCGGCTTATGTGTAAAGAGCAGCCTTCTGGAGTACCTTCTATGCCTCCTACTACTAATGGC
TCCAACATGGGCACATGTAAGTATATGTTGTTTTTTTTTTCATCAGCTGTCTATACAATGATGT
TACCTTGCTTACTGTTCAACAAATCCCTCTAAACTATTTCATTCTAAATTGATGCTAGAGGTTG
TTTACCCTCTTATTCGGGTAATATAGCTGTTCCGTCTGTATATATTAAGACAGTAGTAAACTAG
TAGAGTGATGTCCGTTTCTTTGTACTAGTGATACAGTATGAAGAATTTATGGGCTTGCCAGTAG
TATATCTTGGGATTACCATCGAGTTTAGATGATTTGCAAGTTGCAACTTTGGTAGTTTGGCTCT
CCTCAAGATCTAACATTTCCCGCCTTCCAACGAAAATCATAATATCATATTAAGTTGATTTTAG
GCCACTTTATGTTTACTAGTTACTACTGTGCTTTTAGAGTTCTCTACTGGCAGTTTTGTTAGAT
CAGAACAGTATTTGAGAAAGTTTGTTCCCTAGTCCTGAATCCTGATACATAGCTTATTACTAAG
TTTGTAATTTTTGTGATGTCCGGACCAAATTTTATTATGTTCTGACATAGTTCACTGTTGACTC
TCAGTGAATCAAAATGCATGCTTTTTGCCAGACACTACTCCCAGCACTGCAATGCCAGATAGCT
TGCTACCCAATGGAAGTTCCAGCGGTATTGTAAATGGCACTCCATCCAGTGACCAATTTATCTA
TGCTGGTAAAGTCATTCATGGTCTTCCTAGCAGTATGGATGCTTCATCTAGTCTACTGGCAGCA
CATAACTCAACTGCTGGGAGGTTTAATGGAGACAATGGAACAACAATCAAGACAGAAGCAAGCT
ACTCGGGCAACTCTGATTTTGGTTTCTGCAATGAGAGCGCTTTCCTAGAACCTTGCCAGTCAAT
TGGGGATGCCTCTGGTGGATCCTTCAGCAGCTCTGAGCTGAATGGACAGCCACTAGGTGATCCA
ATTATGGACATGGATTCATCATCTTTTGGTTTCTTGAGCCAAATTCCTCGGAATTTCAGTTTTT
CAGATTTAACTGAAGACTTTAGCCAAAGTGCAG
						
					

			
		

Sequences
Splice junction sequence	CCAATTATGGACATGGATTCATCATCTTTTGGTTTCTTGAGCCAAATTCCTCGGAATTTCAGTT TTTCAGATTTAACTGAAGACTTTAGCCAAAGTGCAGgtccagaatcttattgaacgatgtcttc agctttatatgaaccagaaagaagtggttgagaccctatcattccaggcgaaaattgaacctag ttttactg
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: 769 Transcript exons: 1969379-1969484,1969785-1969970,1970535-1971011 GTCCAGAATCTTATTGAACGATGTCTTCAGCTTTATATGAACCAGAAAGAAGTGGTTGAGACCC TATCATTCCAGGCGAAAATTGAACCTAGTTTTACTGAGCTTGTCTGGCAGAAACTTGAGGAAGA GAATCGTGAGTTCTTTAAAGCATATTATGTGAGACTTATGCTTAAGAATCAAATAATGGTCTTC AACAAGCTCCTTGAGGATCAGTATCGGCTTATGTGTAAAGAGCAGCCTTCTGGAGTACCTTCTA TGCCTCCTACTACTAATGGCTCCAACATGGGCACATTGAATCAAAATGCATGCTTTTTGCCAGA CACTACTCCCAGCACTGCAATGCCAGATAGCTTGCTACCCAATGGAAGTTCCAGCGGTATTGTA AATGGCACTCCATCCAGTGACCAATTTATCTATGCTGGTAAAGTCATTCATGGTCTTCCTAGCA GTATGGATGCTTCATCTAGTCTACTGGCAGCACATAACTCAACTGCTGGGAGGTTTAATGGAGA CAATGGAACAACAATCAAGACAGAAGCAAGCTACTCGGGCAACTCTGATTTTGGTTTCTGCAAT GAGAGCGCTTTCCTAGAACCTTGCCAGTCAATTGGGGATGCCTCTGGTGGATCCTTCAGCAGCT CTGAGCTGAATGGACAGCCACTAGGTGATCCAATTATGGACATGGATTCATCATCTTTTGGTTT CTTGAGCCAAATTCCTCGGAATTTCAGTTTTTCAGATTTAACTGAAGACTTTAGCCAAAGTGCA G
Genomic sequence	GTCCAGAATCTTATTGAACGATGTCTTCAGCTTTATATGAACCAGAAAGAAGTGGTTGAGACCC TATCATTCCAGGCGAAAATTGAACCTAGTTTTACTGAGCTTGGTAATACCCTTATACAGATTTT CTTTTTCTTGTTGTGCACTGAATGTAGCATAACTATAACTTGGTTGACTTCCCATTGCATATTG ACATAGCAATATAGCATTCATGGTGCACCAAGCCTTTGAATTTTTATGAGCCAATGGTTAATAT CGGACAGGAATATGTGTGCTTTCTAATACAATTTGGAGGGCATTAATTTCATTCCGTCGTAATT CATAAACAATTGGTTCTCCGATTGCTGTTTTTAATGGTAAAACACAAACACGTTTGCCTCTATT TCTCACTGTTGTTTTTCTCCAGTCTGGCAGAAACTTGAGGAAGAGAATCGTGAGTTCTTTAAAG CATATTATGTGAGACTTATGCTTAAGAATCAAATAATGGTCTTCAACAAGCTCCTTGAGGATCA GTATCGGCTTATGTGTAAAGAGCAGCCTTCTGGAGTACCTTCTATGCCTCCTACTACTAATGGC TCCAACATGGGCACATGTAAGTATATGTTGTTTTTTTTTTCATCAGCTGTCTATACAATGATGT TACCTTGCTTACTGTTCAACAAATCCCTCTAAACTATTTCATTCTAAATTGATGCTAGAGGTTG TTTACCCTCTTATTCGGGTAATATAGCTGTTCCGTCTGTATATATTAAGACAGTAGTAAACTAG TAGAGTGATGTCCGTTTCTTTGTACTAGTGATACAGTATGAAGAATTTATGGGCTTGCCAGTAG TATATCTTGGGATTACCATCGAGTTTAGATGATTTGCAAGTTGCAACTTTGGTAGTTTGGCTCT CCTCAAGATCTAACATTTCCCGCCTTCCAACGAAAATCATAATATCATATTAAGTTGATTTTAG GCCACTTTATGTTTACTAGTTACTACTGTGCTTTTAGAGTTCTCTACTGGCAGTTTTGTTAGAT CAGAACAGTATTTGAGAAAGTTTGTTCCCTAGTCCTGAATCCTGATACATAGCTTATTACTAAG TTTGTAATTTTTGTGATGTCCGGACCAAATTTTATTATGTTCTGACATAGTTCACTGTTGACTC TCAGTGAATCAAAATGCATGCTTTTTGCCAGACACTACTCCCAGCACTGCAATGCCAGATAGCT TGCTACCCAATGGAAGTTCCAGCGGTATTGTAAATGGCACTCCATCCAGTGACCAATTTATCTA TGCTGGTAAAGTCATTCATGGTCTTCCTAGCAGTATGGATGCTTCATCTAGTCTACTGGCAGCA CATAACTCAACTGCTGGGAGGTTTAATGGAGACAATGGAACAACAATCAAGACAGAAGCAAGCT ACTCGGGCAACTCTGATTTTGGTTTCTGCAATGAGAGCGCTTTCCTAGAACCTTGCCAGTCAAT TGGGGATGCCTCTGGTGGATCCTTCAGCAGCTCTGAGCTGAATGGACAGCCACTAGGTGATCCA ATTATGGACATGGATTCATCATCTTTTGGTTTCTTGAGCCAAATTCCTCGGAATTTCAGTTTTT CAGATTTAACTGAAGACTTTAGCCAAAGTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003644* osi_circ_011846 						
					
						PMCS
						0.246221652

Conservation Information
Conserved circRNAs	osi_circ_003644* osi_circ_011846
PMCS	0.246221652

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1969416-1969392(+)
						
						Potential amino acid sequence
						
							MNQKEVVETLSFQAKIEPSFTELVWQKLEEENREFFKAYYVRLMLKNQIMVFNKLLEDQYRLMC
KEQPSGVPSMPPTTNGSNMGTLNQNACFLPDTTPSTAMPDSLLPNGSSSGIVNGTPSSDQFIYA
GKVIHGLPSSMDASSSLLAAHNSTAGRFNGDNGTTIKTEASYSGNSDFGFCNESAFLEPCQSIG
DASGGSFSSSELNGQPLGDPIMDMDSSSFGFLSQIPRNFSFSDLTEDFSQSAGPESY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1969416-1969392(+)
Potential amino acid sequence	MNQKEVVETLSFQAKIEPSFTELVWQKLEEENREFFKAYYVRLMLKNQIMVFNKLLEDQYRLMC KEQPSGVPSMPPTTNGSNMGTLNQNACFLPDTTPSTAMPDSLLPNGSSSGIVNGTPSSDQFIYA GKVIHGLPSSMDASSSLLAAHNSTAGRFNGDNGTTIKTEASYSGNSDFGFCNESAFLEPCQSIG DASGGSFSSSELNGQPLGDPIMDMDSSSFGFLSQIPRNFSFSDLTEDFSQSAGPESY*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0137100_circ_g.3

Address

Any questions?

Supported by