Plant Circular RNA Database

Detail information of Os03g0262200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0262200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_018975
					
						Alias
						Os_ciR3896
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 8573783-8575239  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0262150						
					
						Parent gene annotation
						
							Hypothetical gene. (Os03t0262150-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0262200_circ_g.2 Os03g0262200_circ_g.4 Os03g0262200_circ_g.5 						
					
						Support reads
						2/1
					
						Tissues
						root/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  
						
							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
						Os03t0262200-00:5
Os03t0262150-01:5
Os03t0262200-00:5

General Information
CircRNA Name	Os03g0262200_circ_g.3
ID in PlantcircBase	osa_circ_018975
Alias	Os_ciR3896
Organism	Oryza sativa
Position	chr3: 8573783-8575239 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0262150
Parent gene annotation	Hypothetical gene. (Os03t0262150-01)
Parent gene strand	+
Alternative splicing	Os03g0262200_circ_g.2 Os03g0262200_circ_g.4 Os03g0262200_circ_g.5
Support reads	2/1
Tissues	root/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	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	Os03t0262200-00:5 Os03t0262150-01:5 Os03t0262200-00:5

			
						 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  
						
							ATGCTGAAACATGAGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAAGAGATCCTTGGGT
GACTAATTCAAGGAAGATGTACAGTTTTGAGTCCTCcattccaccgatattctgaagccgtcct
caattctatccatttatgccgcgtaccgatgaatttgagcgcgaagatgtcctcatagacctta
tcgaccgc

									
								

					

						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: 663
Transcript exons: 8573783-8574043,8574185-8574292,8574636-8574695,8574806-
8574881,8575082-8575239
CATTCCACCGATATTCTGAAGCCGTCCTCAATTCTATCCATTTATGCCGCGTACCGATGAATTT
GAGCGCGAAGATGTCCTCATAGACCTTATCGACCGCATTGACCTATTAACGAAAGGATGCTCCA
GCAGCTTTGCTGCAGAGGGTCTGTCTTGCGGATTGGGTTTTACGCACTGGCTTATAAAATCACG
AGCATCCCTAGAAAGGCAATTTGGAATTGCTGGTGGTTCCCCCTTCCCAATCCTGTATAAAGCT
TGTGTCCATTCCAGACCAGGATAGGGAAGTTGACGTGTCAACATCTCTAGGACTGTGCAGCCCA
GACTCCATATATCAGCTTCAGGTCCATATGTTGTCTTGGGATTGACAACCTCAGGTGCCATCCA
ATAAACAGTTCCTTTGCACGATTTAAGCACGTTGAATTTGGTAATCTCCTTAGCAAGACCAAAG
TCAGCAAGTTTCACGGATCCATTGGCATGCACCAATATATTGGCACATTTGATATCCCTATGAA
CAATGTTTCGCTCATGCAGGTAAGTCAACCCATTAAGAATCTGTCTTGTATATGCTGAAACATG
AGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAAGAGATCCTTGGGTGACTAATTCAAGG
AAGATGTACAGTTTTGAGTCCTC
						
					

						Genomic sequence
						
							CATTCCACCGATATTCTGAAGCCGTCCTCAATTCTATCCATTTATGCCGCGTACCGATGAATTT
GAGCGCGAAGATGTCCTCATAGACCTTATCGACCGCATTGACCTATTAACGAAAGGATGCTCCA
GCAGCTTTGCTGCAGAGGGTCTGTCTTGCGGATTGGGTTTTACGCACTGGCTTATAAAATCACG
AGCATCCCTAGAAAGGCAATTTGGAATTGCTGGTGGTTCCCCCTTCCCAATCCTGTATAAAGCT
TGTGTCTGCAGAACAAGTTGAGAAAATGGGGTAAATGCAAAAAGGAAACAAAGTAATATGCATA
CTGGATAATTATCAAACTTGGAACCAACACCATAACTGAATTTGGAGGAGCTAAATTAGATTCC
TGATGAACAATAACTCACCCATTCCAGACCAGGATAGGGAAGTTGACGTGTCAACATCTCTAGG
ACTGTGCAGCCCAGACTCCATATATCAGCTTCAGGTCCATATGTTGTCTTGGGATTGACAACCT
GAAATTTCATCATTATCTTAGGAGGCAACTACAACATTATCTAACATCAATGCATTATAAACAC
ATTTTTGGCTTTTTACCTCCTACCTATTAGTTTGTTATTCTAGATAAACCATCAAAATAAAAGA
AGGTAAACAAATACTACCTCTGTTTCAAGTTATAAGATTTTCTAGTATTGCCTACATTCATATA
TATGTTAATGAATCTAGATATATATGTGTGCCTAGATTCATTAACATCTATATGAATGTGGGCA
ATGCTAGAAAATCTTATAATATGAAACGGAGGAAGTAAAACCCAAGCATGTCCAAATCTAATCT
AATAGAAATATTGTGCCATACCTCAGGTGCCATCCAATAAACAGTTCCTTTGCACGATTTAAGC
ACGTTGAATTTGGTAATCTGAGAGATTTGACAGAAATCAATCATATAAATGAGATAAATTTTAA
AATAATAACTGAAACATTCAAAGATTAAAAAGGAACATAAAGATTTCGCGAGAGTAAGCAGACC
TCCTTAGCAAGACCAAAGTCAGCAAGTTTCACGGATCCATTGGCATGCACCAATATATTGGCAC
ATTTGATATCCCTGCAAGACGAGATTTGAACTGTTATTCACTTATTCAGAATAAATGTACAGTA
CCAGTTCCTTAAGAATCTTCAAGCTAACGATAAAAATCAGTGAGCAGGCATTAATTAGAATAAC
TGTCAGCTGAAGTGAAAAAAAAAAACAATAAGCCTCCTTAGAAGGCTAAACAGCAGATATGCTG
ATTCAACTAATGTTATTACCTATGAACAATGTTTCGCTCATGCAGGTAAGTCAACCCATTAAGA
ATCTGTCTTGTATATGCTGAAACATGAGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAA
GAGATCCTTGGGTGACTAATTCAAGGAAGATGTACAGTTTTGAGTCCTC
						
					

			
		

Sequences
Splice junction sequence	ATGCTGAAACATGAGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAAGAGATCCTTGGGT GACTAATTCAAGGAAGATGTACAGTTTTGAGTCCTCcattccaccgatattctgaagccgtcct caattctatccatttatgccgcgtaccgatgaatttgagcgcgaagatgtcctcatagacctta tcgaccgc
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: 663 Transcript exons: 8573783-8574043,8574185-8574292,8574636-8574695,8574806- 8574881,8575082-8575239 CATTCCACCGATATTCTGAAGCCGTCCTCAATTCTATCCATTTATGCCGCGTACCGATGAATTT GAGCGCGAAGATGTCCTCATAGACCTTATCGACCGCATTGACCTATTAACGAAAGGATGCTCCA GCAGCTTTGCTGCAGAGGGTCTGTCTTGCGGATTGGGTTTTACGCACTGGCTTATAAAATCACG AGCATCCCTAGAAAGGCAATTTGGAATTGCTGGTGGTTCCCCCTTCCCAATCCTGTATAAAGCT TGTGTCCATTCCAGACCAGGATAGGGAAGTTGACGTGTCAACATCTCTAGGACTGTGCAGCCCA GACTCCATATATCAGCTTCAGGTCCATATGTTGTCTTGGGATTGACAACCTCAGGTGCCATCCA ATAAACAGTTCCTTTGCACGATTTAAGCACGTTGAATTTGGTAATCTCCTTAGCAAGACCAAAG TCAGCAAGTTTCACGGATCCATTGGCATGCACCAATATATTGGCACATTTGATATCCCTATGAA CAATGTTTCGCTCATGCAGGTAAGTCAACCCATTAAGAATCTGTCTTGTATATGCTGAAACATG AGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAAGAGATCCTTGGGTGACTAATTCAAGG AAGATGTACAGTTTTGAGTCCTC
Genomic sequence	CATTCCACCGATATTCTGAAGCCGTCCTCAATTCTATCCATTTATGCCGCGTACCGATGAATTT GAGCGCGAAGATGTCCTCATAGACCTTATCGACCGCATTGACCTATTAACGAAAGGATGCTCCA GCAGCTTTGCTGCAGAGGGTCTGTCTTGCGGATTGGGTTTTACGCACTGGCTTATAAAATCACG AGCATCCCTAGAAAGGCAATTTGGAATTGCTGGTGGTTCCCCCTTCCCAATCCTGTATAAAGCT TGTGTCTGCAGAACAAGTTGAGAAAATGGGGTAAATGCAAAAAGGAAACAAAGTAATATGCATA CTGGATAATTATCAAACTTGGAACCAACACCATAACTGAATTTGGAGGAGCTAAATTAGATTCC TGATGAACAATAACTCACCCATTCCAGACCAGGATAGGGAAGTTGACGTGTCAACATCTCTAGG ACTGTGCAGCCCAGACTCCATATATCAGCTTCAGGTCCATATGTTGTCTTGGGATTGACAACCT GAAATTTCATCATTATCTTAGGAGGCAACTACAACATTATCTAACATCAATGCATTATAAACAC ATTTTTGGCTTTTTACCTCCTACCTATTAGTTTGTTATTCTAGATAAACCATCAAAATAAAAGA AGGTAAACAAATACTACCTCTGTTTCAAGTTATAAGATTTTCTAGTATTGCCTACATTCATATA TATGTTAATGAATCTAGATATATATGTGTGCCTAGATTCATTAACATCTATATGAATGTGGGCA ATGCTAGAAAATCTTATAATATGAAACGGAGGAAGTAAAACCCAAGCATGTCCAAATCTAATCT AATAGAAATATTGTGCCATACCTCAGGTGCCATCCAATAAACAGTTCCTTTGCACGATTTAAGC ACGTTGAATTTGGTAATCTGAGAGATTTGACAGAAATCAATCATATAAATGAGATAAATTTTAA AATAATAACTGAAACATTCAAAGATTAAAAAGGAACATAAAGATTTCGCGAGAGTAAGCAGACC TCCTTAGCAAGACCAAAGTCAGCAAGTTTCACGGATCCATTGGCATGCACCAATATATTGGCAC ATTTGATATCCCTGCAAGACGAGATTTGAACTGTTATTCACTTATTCAGAATAAATGTACAGTA CCAGTTCCTTAAGAATCTTCAAGCTAACGATAAAAATCAGTGAGCAGGCATTAATTAGAATAAC TGTCAGCTGAAGTGAAAAAAAAAAACAATAAGCCTCCTTAGAAGGCTAAACAGCAGATATGCTG ATTCAACTAATGTTATTACCTATGAACAATGTTTCGCTCATGCAGGTAAGTCAACCCATTAAGA ATCTGTCTTGTATATGCTGAAACATGAGTATCTCGCAGTCTGTACTTCTGATACAAAGATGCAA GAGATCCTTGGGTGACTAATTCAAGGAAGATGTACAGTTTTGAGTCCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.34680693

Conservation Information
Conserved circRNAs	NA
PMCS	0.34680693

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8573787-8573818(-)
8573825-8575208(-)
						
						Potential amino acid sequence
						
							MEDSKLYIFLELVTQGSLASLYQKYRLRDTHVSAYTRQILNGLTYLHERNIVHRDIKCANILVH
ANGSVKLADFGLAKEITKFNVLKSCKGTVYWMAPEVVNPKTTYGPEADIWSLGCTVLEMLTRQL
PYPGLEWTQALYRIGKGEPPAIPNCLSRDARDFISQCVKPNPQDRPSAAKLLEHPFVNRSMRSI
RSMRTSSRSNSSVRGING*(-)
MDRIEDGFRISVEWRTQNCTSSLN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8573787-8573818(-) 8573825-8575208(-)
Potential amino acid sequence	MEDSKLYIFLELVTQGSLASLYQKYRLRDTHVSAYTRQILNGLTYLHERNIVHRDIKCANILVH ANGSVKLADFGLAKEITKFNVLKSCKGTVYWMAPEVVNPKTTYGPEADIWSLGCTVLEMLTRQL PYPGLEWTQALYRIGKGEPPAIPNCLSRDARDFISQCVKPNPQDRPSAAKLLEHPFVNRSMRSI RSMRTSSRSNSSVRGING(-) MDRIEDGFRISVEWRTQNCTSSLN(-)
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 Os03g0262200_circ_g.3

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