Plant Circular RNA Database

Detail information of Os01g0306800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0306800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001490
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 11416436-11417846  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os01g0306800						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os01t0306800-01);Hypothetical c
onserved gene. (Os01t0306800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						44
					
						Tissues
						shoot, 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
						Os01t0306800-02:3
Os01t0306800-01:3

General Information
CircRNA Name	Os01g0306800_circ_g.1
ID in PlantcircBase	osa_circ_001490
Alias	NA
Organism	Oryza sativa
Position	chr1: 11416436-11417846 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os01g0306800
Parent gene annotation	Conserved hypothetical protein. (Os01t0306800-01);Hypothetical c onserved gene. (Os01t0306800-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	44
Tissues	shoot, 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	Os01t0306800-02:3 Os01t0306800-01:3

			
						 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  
						
							TAAAAGCTTAGCCAAGACTAAAGAACTTGATTCGTCCTTAATTCTTCTAATAAACAGAGCGTGG
GCTGCTGCAAAAGACTCTACAACTATGAAGAATGAGggtgtgtggctagtcctactattgctaa
tgtggatgactgcactgaaggtgaaggtgcactggggtacacaatgacccaaatctgtgataag
tttattga

									
								

					

						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: 683
Transcript exons: 11416436-11416710,11416938-11417103,11417605-11417846
GGTGTGTGGCTAGTCCTACTATTGCTAATGTGGATGACTGCACTGAAGGTGAAGGTGCACTGGG
GTACACAATGACCCAAATCTGTGATAAGTTTATTGAGTTCTTCATGTACAAGAAACCACAAACA
AAGGACTGGAGAAAAGTATTGGTGTTTAGAGAGGAGTGGGAAAGATACAGACCATACTTTTACA
AGCACTGTCAAGCACGTATAGATATGGAAAATGATTCTTCAATGAAGCAAAAGTTGGTTGTACT
TGCTAGAAAAGTTAAGAAGATTGACAATGAGATAGAGAAGCACATGGAACTCTTCACACAGCTC
CGCGAGAATCCCACAGATATTAATGCCATTGTCGCAAGAAGACGAAAGGATTTCACTGGAGGGT
TCTTCCAACATCTTAATTTTCTTGTTAATGCATATAATGGTCTTGATGAGAGAGATGCAATTGC
CAGGCTTGGGGCGAAGTGCCTGTCTGCAATCCATGCATATGACTGCACACTGGAGCAGTTGGAC
CTTGATTCTGCTCAATCAAAGTTTGATGACATTCTGAATTCTTCTTCCCTGGATGATGCATGTG
ACAAGATTAAAAGCTTAGCCAAGACTAAAGAACTTGATTCGTCCTTAATTCTTCTAATAAACAG
AGCGTGGGCTGCTGCAAAAGACTCTACAACTATGAAGAATGAG
						
					

						Genomic sequence
						
							GGTGTGTGGCTAGTCCTACTATTGCTAATGTGGATGACTGCACTGAAGGTGAAGGTGCACTGGG
GTACACAATGACCCAAATCTGTGATAAGTTTATTGAGTTCTTCATGTACAAGAAACCACAAACA
AAGGACTGGAGAAAAGTATTGGTGTTTAGAGAGGAGTGGGAAAGATACAGACCATACTTTTACA
AGCACTGTCAAGCACGTATAGATATGGAAAATGATTCTTCAATGAAGCAAAAGTTGGTTGTACT
TGCTAGAAAAGTTAAGAAGGTATGCTATTATTTGGTCTCTATATGCATCCTTATCTTTTGTAAA
TTTGTTTGAACAAAGATTTATTTCATAATATGATTGTTAAAATCCACCATGAAAACTTAAGATT
TTTTGTGACACAACATATTGGACAGTAGGTCACAAAACTCATAATCAACATATATGTTTATATC
AATCATAATGTTGTGACTTGTGAATTTGCCTCATGTTTGCAATTTACTTCTCAGATTGACAATG
AGATAGAGAAGCACATGGAACTCTTCACACAGCTCCGCGAGAATCCCACAGATATTAATGCCAT
TGTCGCAAGAAGACGAAAGGATTTCACTGGAGGGTTCTTCCAACATCTTAATTTTCTTGTTAAT
GCATATAATGGTCTTGATGAGAGAGATGGTAACTATATGCCTTTTAACAGTTGTTCGTTCCCAA
ATTGCGCTTATCTAACAAACAACTCAAAGAATTCACTGTGAATTAACTGGACATTGGGTTTTTG
ACCATCTTGAATTGCTTTAGCATGATCACTGGTTTCCAACAGTTGGAAATGGAAAATGAAAAAA
AGTTAGATATGGAATTTAGAAGCTACCTAGATTGTATTTATCTAGTTCCCAGTTAAAAAAAATA
CATATATTTGGTATTTTACTGCTTTGACTTGTTTTCACATCCAATCGATCTGTTTTATCGAGCA
TGTTCATTTAGTTCATTTCAAGAGTGTGAATTGGCGTAACAAAAGCATATGTTCGCCTTTAGTT
TTAACTTTTGTCCCCAAGTACCACTTGATGAGTTGTAAGACCATGTGATTAATAATTGGCAAAG
CTAGATATTCAGTCCAACATGAGGTTGCACTTCTTGTGTGTGCTAAAAGAAATATATTTTTTTT
GTCTCTAAATACTGCAGCAATTGCCAGGCTTGGGGCGAAGTGCCTGTCTGCAATCCATGCATAT
GACTGCACACTGGAGCAGTTGGACCTTGATTCTGCTCAATCAAAGTTTGATGACATTCTGAATT
CTTCTTCCCTGGATGATGCATGTGACAAGATTAAAAGCTTAGCCAAGACTAAAGAACTTGATTC
GTCCTTAATTCTTCTAATAAACAGAGCGTGGGCTGCTGCAAAAGACTCTACAACTATGAAGAAT
GAG
						
					

			
		

Sequences
Splice junction sequence	TAAAAGCTTAGCCAAGACTAAAGAACTTGATTCGTCCTTAATTCTTCTAATAAACAGAGCGTGG GCTGCTGCAAAAGACTCTACAACTATGAAGAATGAGggtgtgtggctagtcctactattgctaa tgtggatgactgcactgaaggtgaaggtgcactggggtacacaatgacccaaatctgtgataag tttattga
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: 683 Transcript exons: 11416436-11416710,11416938-11417103,11417605-11417846 GGTGTGTGGCTAGTCCTACTATTGCTAATGTGGATGACTGCACTGAAGGTGAAGGTGCACTGGG GTACACAATGACCCAAATCTGTGATAAGTTTATTGAGTTCTTCATGTACAAGAAACCACAAACA AAGGACTGGAGAAAAGTATTGGTGTTTAGAGAGGAGTGGGAAAGATACAGACCATACTTTTACA AGCACTGTCAAGCACGTATAGATATGGAAAATGATTCTTCAATGAAGCAAAAGTTGGTTGTACT TGCTAGAAAAGTTAAGAAGATTGACAATGAGATAGAGAAGCACATGGAACTCTTCACACAGCTC CGCGAGAATCCCACAGATATTAATGCCATTGTCGCAAGAAGACGAAAGGATTTCACTGGAGGGT TCTTCCAACATCTTAATTTTCTTGTTAATGCATATAATGGTCTTGATGAGAGAGATGCAATTGC CAGGCTTGGGGCGAAGTGCCTGTCTGCAATCCATGCATATGACTGCACACTGGAGCAGTTGGAC CTTGATTCTGCTCAATCAAAGTTTGATGACATTCTGAATTCTTCTTCCCTGGATGATGCATGTG ACAAGATTAAAAGCTTAGCCAAGACTAAAGAACTTGATTCGTCCTTAATTCTTCTAATAAACAG AGCGTGGGCTGCTGCAAAAGACTCTACAACTATGAAGAATGAG
Genomic sequence	GGTGTGTGGCTAGTCCTACTATTGCTAATGTGGATGACTGCACTGAAGGTGAAGGTGCACTGGG GTACACAATGACCCAAATCTGTGATAAGTTTATTGAGTTCTTCATGTACAAGAAACCACAAACA AAGGACTGGAGAAAAGTATTGGTGTTTAGAGAGGAGTGGGAAAGATACAGACCATACTTTTACA AGCACTGTCAAGCACGTATAGATATGGAAAATGATTCTTCAATGAAGCAAAAGTTGGTTGTACT TGCTAGAAAAGTTAAGAAGGTATGCTATTATTTGGTCTCTATATGCATCCTTATCTTTTGTAAA TTTGTTTGAACAAAGATTTATTTCATAATATGATTGTTAAAATCCACCATGAAAACTTAAGATT TTTTGTGACACAACATATTGGACAGTAGGTCACAAAACTCATAATCAACATATATGTTTATATC AATCATAATGTTGTGACTTGTGAATTTGCCTCATGTTTGCAATTTACTTCTCAGATTGACAATG AGATAGAGAAGCACATGGAACTCTTCACACAGCTCCGCGAGAATCCCACAGATATTAATGCCAT TGTCGCAAGAAGACGAAAGGATTTCACTGGAGGGTTCTTCCAACATCTTAATTTTCTTGTTAAT GCATATAATGGTCTTGATGAGAGAGATGGTAACTATATGCCTTTTAACAGTTGTTCGTTCCCAA ATTGCGCTTATCTAACAAACAACTCAAAGAATTCACTGTGAATTAACTGGACATTGGGTTTTTG ACCATCTTGAATTGCTTTAGCATGATCACTGGTTTCCAACAGTTGGAAATGGAAAATGAAAAAA AGTTAGATATGGAATTTAGAAGCTACCTAGATTGTATTTATCTAGTTCCCAGTTAAAAAAAATA CATATATTTGGTATTTTACTGCTTTGACTTGTTTTCACATCCAATCGATCTGTTTTATCGAGCA TGTTCATTTAGTTCATTTCAAGAGTGTGAATTGGCGTAACAAAAGCATATGTTCGCCTTTAGTT TTAACTTTTGTCCCCAAGTACCACTTGATGAGTTGTAAGACCATGTGATTAATAATTGGCAAAG CTAGATATTCAGTCCAACATGAGGTTGCACTTCTTGTGTGTGCTAAAAGAAATATATTTTTTTT GTCTCTAAATACTGCAGCAATTGCCAGGCTTGGGGCGAAGTGCCTGTCTGCAATCCATGCATAT GACTGCACACTGGAGCAGTTGGACCTTGATTCTGCTCAATCAAAGTTTGATGACATTCTGAATT CTTCTTCCCTGGATGATGCATGTGACAAGATTAAAAGCTTAGCCAAGACTAAAGAACTTGATTC GTCCTTAATTCTTCTAATAAACAGAGCGTGGGCTGCTGCAAAAGACTCTACAACTATGAAGAAT GAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_001999* 						
					
						PMCS
						0.258484349

Conservation Information
Conserved circRNAs	osi_circ_001999*
PMCS	0.258484349

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11416508-11416507(+)
11416546-11417835(-)
						
						Potential amino acid sequence
						
							MTQICDKFIEFFMYKKPQTKDWRKVLVFREEWERYRPYFYKHCQARIDMENDSSMKQKLVVLAR
KVKKIDNEIEKHMELFTQLRENPTDINAIVARRRKDFTGGFFQHLNFLVNAYNGLDERDAIARL
GAKCLSAIHAYDCTLEQLDLDSAQSKFDDILNSSSLDDACDKIKSLAKTKELDSSLILLINRAW
AAAKDSTTMKNEGVWLVLLLLMWMTALKVKVHWGTQ*(+)
MKNSINLSQIWVIVYPSAPSPSVQSSTLAIVGLATHPHSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11416508-11416507(+) 11416546-11417835(-)
Potential amino acid sequence	MTQICDKFIEFFMYKKPQTKDWRKVLVFREEWERYRPYFYKHCQARIDMENDSSMKQKLVVLAR KVKKIDNEIEKHMELFTQLRENPTDINAIVARRRKDFTGGFFQHLNFLVNAYNGLDERDAIARL GAKCLSAIHAYDCTLEQLDLDSAQSKFDDILNSSSLDDACDKIKSLAKTKELDSSLILLINRAW AAAKDSTTMKNEGVWLVLLLLMWMTALKVKVHWGTQ(+) MKNSINLSQIWVIVYPSAPSPSVQSSTLAIVGLATHPHSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0306800_circ_g.1

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