Plant Circular RNA Database

Detail information of Os01g0323000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0323000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001561
					
						Alias
						Os_ciR5717
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 12327773-12329722  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0323000						
					
						Parent gene annotation
						
							Similar to Ser Thr specific protein kinase-like protein. (Os01t0
323000-01);Similar to BRASSINOSTEROID INSENSITIVE 1-associated r
eceptor kinase 1. (Os01t0323000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0323000_circ_g.2 Os01g0323000_circ_g.3 						
					
						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  
						
							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
						Os01t0323000-01:5
Os01t0323000-02:5

General Information
CircRNA Name	Os01g0323000_circ_g.1
ID in PlantcircBase	osa_circ_001561
Alias	Os_ciR5717
Organism	Oryza sativa
Position	chr1: 12327773-12329722 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0323000
Parent gene annotation	Similar to Ser Thr specific protein kinase-like protein. (Os01t0 323000-01);Similar to BRASSINOSTEROID INSENSITIVE 1-associated r eceptor kinase 1. (Os01t0323000-02)
Parent gene strand	+
Alternative splicing	Os01g0323000_circ_g.2 Os01g0323000_circ_g.3
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	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	Os01t0323000-01:5 Os01t0323000-02:5

			
						 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  
						
							ACTCTTGAATGAAAAGAGTGACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGG
AGGGATCCTGTTGACTATGGTCGTCCAGCGAATGAGgagcgaagcattgacattccgctatgga
ggctccttcgtcgtccccgtcatcgccaagtctgaaagatcatctctcttcgccaactggccct
ttgcatct

									
								

					

						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: 1232
Transcript exons: 12327773-12328475,12328596-12328700,12328876-12328998,12
329327-12329497,12329593-12329722
GAGCGAAGCATTGACATTCCGCTATGGAGGCTCCTTCGTCGTCCCCGTCATCGCCAAGTCTGAA
AGATCATCTCTCTTCGCCAACTGGCCCTTTGCATCTCAAAGTATGGGAGGTCATATGCATTGTC
TTGGGGGCTTTCATGGTGGTCATCTTCTTTGTAACCGTGTGGCTCACGATCCGGAGTCGGAAGA
GGGTTAGACGGGCTTCGGCAAATATCCCAATCACCCAAATCCCTGCCATTTCCAAGGAAATCAA
GGAAGTGAGGGTGGAGCAAGTCCCAACAAGCGATTTTGCAGCACATGATGGAGTCCTGATGACA
ATCCAAGACAAGTCTAGTGAGAAGGAGTCAGACAAGGTCATGGTCCATTTGGGTGTAAGCAAAT
CGAAGCGTGGCGATGAGAGCCACTCAGGATCATTCCGTTACATGGACAAGGATTTAGGATTCCA
GTCAGCTGATGAAGGAGGCTCAGGAACATTTCGGCATAATTCAGCTCATGCAATAACTGCTCCT
TCACCTTTGGTTGGCCTGCCAGAGTTCTCTTACCTAGGCTGGGGCCATTGGTTTACTTTGAGGG
ATCTGGAAGTTGCTACTAGCCGTTTTTCAAAGGATAACATTCTTGGTGAGGGTGGATATGGTGT
AGTTTATCGTGGCCAACTGATCAATGGCACTCCTGTTGCTGTTAAGAAGCTTCTCAATAACCTA
GGACAGGCCGAGAAGGAATTCAGAGTTGAAGTTGAGGCTATTGGTCATGTTCGCCACAAGAACT
TGGTCCGGCTTCTGGGTTACTGTGTGGAGGGTACTCAAAGAATGCTTGTCTATGAGTATGTAAA
CAATGGAAACCTAGAGCAATGGCTTCATGGAGCTATGAGTCACCGTGGTTCCCTTACATGGGAG
GCCCGTGTAAAGATTCTTCTTGGGACAGCTAAAGCGCTTGCTTACTTGCATGAGGCAATTGAAC
CCAAAGTGGTGCACCGTGATATCAAATCCAGCAATATATTGATTGATGATGATTTTGATGCCAA
AGTATCAGACTTTGGTTTAGCTAAACTTCTTGGTGCTGGCAAGAGTCATGTCACTACTAGGGTT
ATGGGAACCTTCGGCTACGTGGCACCAGAGTATGCAAACACTGGACTCTTGAATGAAAAGAGTG
ACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGGAGGGATCCTGTTGACTATGG
TCGTCCAGCGAATGAG
						
					

						Genomic sequence
						
							GAGCGAAGCATTGACATTCCGCTATGGAGGCTCCTTCGTCGTCCCCGTCATCGCCAAGTCTGAA
AGATCATCTCTCTTCGCCAACTGGCCCTTTGCATCTCAAAGTATGGGAGGTCATATGCATTGTC
TTGGGGGCTTTCATGGTGGTCATCTTCTTTGTAACCGTGTGGCTCACGATCCGGAGTCGGAAGA
GGGTTAGACGGGCTTCGGCAAATATCCCAATCACCCAAATCCCTGCCATTTCCAAGGAAATCAA
GGAAGTGAGGGTGGAGCAAGTCCCAACAAGCGATTTTGCAGCACATGATGGAGTCCTGATGACA
ATCCAAGACAAGTCTAGTGAGAAGGAGTCAGACAAGGTCATGGTCCATTTGGGTGTAAGCAAAT
CGAAGCGTGGCGATGAGAGCCACTCAGGATCATTCCGTTACATGGACAAGGATTTAGGATTCCA
GTCAGCTGATGAAGGAGGCTCAGGAACATTTCGGCATAATTCAGCTCATGCAATAACTGCTCCT
TCACCTTTGGTTGGCCTGCCAGAGTTCTCTTACCTAGGCTGGGGCCATTGGTTTACTTTGAGGG
ATCTGGAAGTTGCTACTAGCCGTTTTTCAAAGGATAACATTCTTGGTGAGGGTGGATATGGTGT
AGTTTATCGTGGCCAACTGATCAATGGCACTCCTGTTGCTGTTAAGAAGCTTCTCAATAACCTG
TAAGTCTTGCCCTGCTTATCAGAGTTTGATCTTTTTGTTTATTCTCCTTGTCTCTTGTCTCCAA
TACCACAAATCAGACAGCTTTAAGTTTTTCCAATCGATGTTTTGTAAACTTGCAGAGGACAGGC
CGAGAAGGAATTCAGAGTTGAAGTTGAGGCTATTGGTCATGTTCGCCACAAGAACTTGGTCCGG
CTTCTGGGTTACTGTGTGGAGGGTACTCAAAGGTATTGATATTTCTCTTGTATCTATTGCAATG
TTCATATTTCCAAGCTACATGTACTACCAAGCAAGAATATTCTTCTAGACATTCCATGCTCTCT
GAGACCTCTAGGTTCATTTGACTGCAATACTTGTATGGAATTCTAAGACATATTTGTTAACTTT
GTGTGCTTTTTTCAGAATGCTTGTCTATGAGTATGTAAACAATGGAAACCTAGAGCAATGGCTT
CATGGAGCTATGAGTCACCGTGGTTCCCTTACATGGGAGGCCCGTGTAAAGATTCTTCTTGGGA
CAGCTAAAGCGTAAGTTCTTCCTGGAGATGTCATTTCTTTTTGCTAGTACTTCACCATATTTTT
GTTATATTGTCAGTCCGCCTTAGGGCAATGTAATCTTATGTTCCTATCATGTTCCAAATTGCAT
TACCTTTTCTTTCCTGGAGCTATTTCTGTTATTTTACTTGCATAACAACATGACATCCCTCTTT
ATTTGAGTATAACTGAGCTGAAGCACATAAATTCCTAATACAACACTGAACTGGTTTGTTGCTG
AACTTTGTTCACTTTCTCTTCTCCCTGTTTTTTCCATGTGTGAATTGAACTAAATCGAAGAATT
ATCACTACCTATCTGCAGGCTTGCTTACTTGCATGAGGCAATTGAACCCAAAGTGGTGCACCGT
GATATCAAATCCAGCAATATATTGATTGATGATGATTTTGATGCCAAAGTATCAGACTTTGGTT
TAGCTAAACTTCTTGGTGCTGGCAAGAGTCATGTCACTACTAGGGTTATGGGAACCTTCGGGTA
TGTTGTGTTAATTGTGAACAAGATTTCCATGGTTAACGGAATGTTAGATTGCTAGTACTAGTTA
ATGATGTGTTGCATTGCACTCATTGCAGCTACGTGGCACCAGAGTATGCAAACACTGGACTCTT
GAATGAAAAGAGTGACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGGAGGGAT
CCTGTTGACTATGGTCGTCCAGCGAATGAG
						
					

			
		

Sequences
Splice junction sequence	ACTCTTGAATGAAAAGAGTGACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGG AGGGATCCTGTTGACTATGGTCGTCCAGCGAATGAGgagcgaagcattgacattccgctatgga ggctccttcgtcgtccccgtcatcgccaagtctgaaagatcatctctcttcgccaactggccct ttgcatct
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: 1232 Transcript exons: 12327773-12328475,12328596-12328700,12328876-12328998,12 329327-12329497,12329593-12329722 GAGCGAAGCATTGACATTCCGCTATGGAGGCTCCTTCGTCGTCCCCGTCATCGCCAAGTCTGAA AGATCATCTCTCTTCGCCAACTGGCCCTTTGCATCTCAAAGTATGGGAGGTCATATGCATTGTC TTGGGGGCTTTCATGGTGGTCATCTTCTTTGTAACCGTGTGGCTCACGATCCGGAGTCGGAAGA GGGTTAGACGGGCTTCGGCAAATATCCCAATCACCCAAATCCCTGCCATTTCCAAGGAAATCAA GGAAGTGAGGGTGGAGCAAGTCCCAACAAGCGATTTTGCAGCACATGATGGAGTCCTGATGACA ATCCAAGACAAGTCTAGTGAGAAGGAGTCAGACAAGGTCATGGTCCATTTGGGTGTAAGCAAAT CGAAGCGTGGCGATGAGAGCCACTCAGGATCATTCCGTTACATGGACAAGGATTTAGGATTCCA GTCAGCTGATGAAGGAGGCTCAGGAACATTTCGGCATAATTCAGCTCATGCAATAACTGCTCCT TCACCTTTGGTTGGCCTGCCAGAGTTCTCTTACCTAGGCTGGGGCCATTGGTTTACTTTGAGGG ATCTGGAAGTTGCTACTAGCCGTTTTTCAAAGGATAACATTCTTGGTGAGGGTGGATATGGTGT AGTTTATCGTGGCCAACTGATCAATGGCACTCCTGTTGCTGTTAAGAAGCTTCTCAATAACCTA GGACAGGCCGAGAAGGAATTCAGAGTTGAAGTTGAGGCTATTGGTCATGTTCGCCACAAGAACT TGGTCCGGCTTCTGGGTTACTGTGTGGAGGGTACTCAAAGAATGCTTGTCTATGAGTATGTAAA CAATGGAAACCTAGAGCAATGGCTTCATGGAGCTATGAGTCACCGTGGTTCCCTTACATGGGAG GCCCGTGTAAAGATTCTTCTTGGGACAGCTAAAGCGCTTGCTTACTTGCATGAGGCAATTGAAC CCAAAGTGGTGCACCGTGATATCAAATCCAGCAATATATTGATTGATGATGATTTTGATGCCAA AGTATCAGACTTTGGTTTAGCTAAACTTCTTGGTGCTGGCAAGAGTCATGTCACTACTAGGGTT ATGGGAACCTTCGGCTACGTGGCACCAGAGTATGCAAACACTGGACTCTTGAATGAAAAGAGTG ACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGGAGGGATCCTGTTGACTATGG TCGTCCAGCGAATGAG
Genomic sequence	GAGCGAAGCATTGACATTCCGCTATGGAGGCTCCTTCGTCGTCCCCGTCATCGCCAAGTCTGAA AGATCATCTCTCTTCGCCAACTGGCCCTTTGCATCTCAAAGTATGGGAGGTCATATGCATTGTC TTGGGGGCTTTCATGGTGGTCATCTTCTTTGTAACCGTGTGGCTCACGATCCGGAGTCGGAAGA GGGTTAGACGGGCTTCGGCAAATATCCCAATCACCCAAATCCCTGCCATTTCCAAGGAAATCAA GGAAGTGAGGGTGGAGCAAGTCCCAACAAGCGATTTTGCAGCACATGATGGAGTCCTGATGACA ATCCAAGACAAGTCTAGTGAGAAGGAGTCAGACAAGGTCATGGTCCATTTGGGTGTAAGCAAAT CGAAGCGTGGCGATGAGAGCCACTCAGGATCATTCCGTTACATGGACAAGGATTTAGGATTCCA GTCAGCTGATGAAGGAGGCTCAGGAACATTTCGGCATAATTCAGCTCATGCAATAACTGCTCCT TCACCTTTGGTTGGCCTGCCAGAGTTCTCTTACCTAGGCTGGGGCCATTGGTTTACTTTGAGGG ATCTGGAAGTTGCTACTAGCCGTTTTTCAAAGGATAACATTCTTGGTGAGGGTGGATATGGTGT AGTTTATCGTGGCCAACTGATCAATGGCACTCCTGTTGCTGTTAAGAAGCTTCTCAATAACCTG TAAGTCTTGCCCTGCTTATCAGAGTTTGATCTTTTTGTTTATTCTCCTTGTCTCTTGTCTCCAA TACCACAAATCAGACAGCTTTAAGTTTTTCCAATCGATGTTTTGTAAACTTGCAGAGGACAGGC CGAGAAGGAATTCAGAGTTGAAGTTGAGGCTATTGGTCATGTTCGCCACAAGAACTTGGTCCGG CTTCTGGGTTACTGTGTGGAGGGTACTCAAAGGTATTGATATTTCTCTTGTATCTATTGCAATG TTCATATTTCCAAGCTACATGTACTACCAAGCAAGAATATTCTTCTAGACATTCCATGCTCTCT GAGACCTCTAGGTTCATTTGACTGCAATACTTGTATGGAATTCTAAGACATATTTGTTAACTTT GTGTGCTTTTTTCAGAATGCTTGTCTATGAGTATGTAAACAATGGAAACCTAGAGCAATGGCTT CATGGAGCTATGAGTCACCGTGGTTCCCTTACATGGGAGGCCCGTGTAAAGATTCTTCTTGGGA CAGCTAAAGCGTAAGTTCTTCCTGGAGATGTCATTTCTTTTTGCTAGTACTTCACCATATTTTT GTTATATTGTCAGTCCGCCTTAGGGCAATGTAATCTTATGTTCCTATCATGTTCCAAATTGCAT TACCTTTTCTTTCCTGGAGCTATTTCTGTTATTTTACTTGCATAACAACATGACATCCCTCTTT ATTTGAGTATAACTGAGCTGAAGCACATAAATTCCTAATACAACACTGAACTGGTTTGTTGCTG AACTTTGTTCACTTTCTCTTCTCCCTGTTTTTTCCATGTGTGAATTGAACTAAATCGAAGAATT ATCACTACCTATCTGCAGGCTTGCTTACTTGCATGAGGCAATTGAACCCAAAGTGGTGCACCGT GATATCAAATCCAGCAATATATTGATTGATGATGATTTTGATGCCAAAGTATCAGACTTTGGTT TAGCTAAACTTCTTGGTGCTGGCAAGAGTCATGTCACTACTAGGGTTATGGGAACCTTCGGGTA TGTTGTGTTAATTGTGAACAAGATTTCCATGGTTAACGGAATGTTAGATTGCTAGTACTAGTTA ATGATGTGTTGCATTGCACTCATTGCAGCTACGTGGCACCAGAGTATGCAAACACTGGACTCTT GAATGAAAAGAGTGACATTTACAGCTTTGGGGTAGTACTTCTAGAAGCAATTACAGGGAGGGAT CCTGTTGACTATGGTCGTCCAGCGAATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.320665248

Conservation Information
Conserved circRNAs	NA
PMCS	0.320665248

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12329704-12327968(+)
12327797-12327832(+)
						
						Potential amino acid sequence
						
							MVVQRMRSEALTFRYGGSFVVPVIAKSERSSLFANWPFASQSMGGHMHCLGGFHGGHLLCNRVA
HDPESEEG*(+)
MEAPSSSPSSPSLKDHLSSPTGPLHLKVWEVICIVLGAFMVVIFFVTVWLTIRSRKRVRRASAN
IPITQIPAISKEIKEVRVEQVPTSDFAAHDGVLMTIQDKSSEKESDKVMVHLGVSKSKRGDESH
SGSFRYMDKDLGFQSADEGGSGTFRHNSAHAITAPSPLVGLPEFSYLGWGHWFTLRDLEVATSR
FSKDNILGEGGYGVVYRGQLINGTPVAVKKLLNNLGQAEKEFRVEVEAIGHVRHKNLVRLLGYC
VEGTQRMLVYEYVNNGNLEQWLHGAMSHRGSLTWEARVKILLGTAKALAYLHEAIEPKVVHRDI
KSSNILIDDDFDAKVSDFGLAKLLGAGKSHVTTRVMGTFGYVAPEYANTGLLNEKSDIYSFGVV
LLEAITGRDPVDYGRPANEERSIDIPLWRLLRRPRHRQV*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12329704-12327968(+) 12327797-12327832(+)
Potential amino acid sequence	MVVQRMRSEALTFRYGGSFVVPVIAKSERSSLFANWPFASQSMGGHMHCLGGFHGGHLLCNRVA HDPESEEG(+) MEAPSSSPSSPSLKDHLSSPTGPLHLKVWEVICIVLGAFMVVIFFVTVWLTIRSRKRVRRASAN IPITQIPAISKEIKEVRVEQVPTSDFAAHDGVLMTIQDKSSEKESDKVMVHLGVSKSKRGDESH SGSFRYMDKDLGFQSADEGGSGTFRHNSAHAITAPSPLVGLPEFSYLGWGHWFTLRDLEVATSR FSKDNILGEGGYGVVYRGQLINGTPVAVKKLLNNLGQAEKEFRVEVEAIGHVRHKNLVRLLGYC VEGTQRMLVYEYVNNGNLEQWLHGAMSHRGSLTWEARVKILLGTAKALAYLHEAIEPKVVHRDI KSSNILIDDDFDAKVSDFGLAKLLGAGKSHVTTRVMGTFGYVAPEYANTGLLNEKSDIYSFGVV LLEAITGRDPVDYGRPANEERSIDIPLWRLLRRPRHRQV(+)
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 Os01g0323000_circ_g.1

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