Plant Circular RNA Database

Detail information of Os06g0563250_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0563250_circ_g.3
					
						ID in PlantcircBase
						osa_circ_031175
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 21656567-21659665  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0563250						
					
						Parent gene annotation
						
							Hypothetical gene. (Os06t0563250-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0563250_circ_g.1 Os06g0563250_circ_g.2 Os06g0563250_circ_g.4 Os06g0563250_circ_g.5 Os06g0563250_circ_g.6 Os06g0563250_circ_g.7 Os06g0563250_circ_g.8 Os06g0563250_circ_g.9 Os06g0563250_circ_g.10 Os06g0563250_circ_g.11 Os06g0563250_circ_g.12 Os06g0563250_circ_g.13 Os06g0563300_circ_g.1 						
					
						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
						Os06t0563250-01:7

General Information
CircRNA Name	Os06g0563250_circ_g.3
ID in PlantcircBase	osa_circ_031175
Alias	NA
Organism	Oryza sativa
Position	chr6: 21656567-21659665 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0563250
Parent gene annotation	Hypothetical gene. (Os06t0563250-01)
Parent gene strand	-
Alternative splicing	Os06g0563250_circ_g.1 Os06g0563250_circ_g.2 Os06g0563250_circ_g.4 Os06g0563250_circ_g.5 Os06g0563250_circ_g.6 Os06g0563250_circ_g.7 Os06g0563250_circ_g.8 Os06g0563250_circ_g.9 Os06g0563250_circ_g.10 Os06g0563250_circ_g.11 Os06g0563250_circ_g.12 Os06g0563250_circ_g.13 Os06g0563300_circ_g.1
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	Os06t0563250-01:7

			
						 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  
						
							ACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCT
GCGACAATCAGCTTTGTGTGACAACCATTCCAAGATttgacatcatctctgcaattgagtttga
taaatctggtgatcatcttgccaccggagacagaggaggacgtgttgttttatttgaaaggaca
gatgctcg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							TTGACATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGG
AGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCGGGATGTAAGCACCATTAGTTGAACTTCT
CTTGCTCAATTTCATTATTTTATACTCATGAAAGTCTATCTGTTAGCAGAATGCCAGTCGGAGA
GAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTC
AGAGTCATGAACCTGAGGTATGTTGATAATCTGGATTGGCTGTTGTAGCACATAGTATTATCTG
TTATTTCCATGAAGTTGGACGCATAAGATCAAATTAACAAGCTGGCATTCTTATCTCAGAGCAA
GAAAGGAATCCTTAGCTTAACCATTGCAAGCAAATGAAGCATTACATTATTGTGCTATGCTCTT
GTTTTGTTCTTGCTTGAATTACTTGCATATGGAAACTCACATCTATGTTTTTTTGATGAACTGT
TCTAGTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCA
GACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATAAAACAATAAAATACTGGAAGGTA
TGGAGAAAAATATGTTAGGACCCAGGAATGGTTTTCAAGATTTCTGCATGCCAATATCTTTCTA
ATCTAATGTAACATTTAAGCCTGTCTTGACCAAGACCAACTCTGTTGGATGTTTGTATTTCTCC
GAACTGGTGGATCAAGATATTTATGTTGATTATTCCATCATTAGTGGAAAATTTAATGAAGTTT
ACATGAGCACTCTCTAGTTACGCAATGGAAATGATTTGTGATACCAGAGTACCAGACGTGATTT
TGTTACTACCTCTGTCCCATAATAATTGTATTTCTAGGATTTGAATTTGTCCCAAAATAATTGT
CACAATAGAGTACTAATGGCCCCATTAATCACTTCTCATTCAAATTTCTCCCTATTTTACCCTC
AACTACTCTTCCACTCTTACCTATACACCATTTAATAAGGGACATTATAGTCTTTCTTCTCAAA
GCTTAATATGCAGTAAACAACCTAGAATTACAATTATTTTGGGAAGGAAGTAGTATTAATTTTT
AACCTTTCGAAGCACCAACAAGATGCATTTGTTTAATCGGTGGTCGTACACGAGCTATGCCTTT
TCTTTTCTTTTTTCCTCACAAAATATCCACAATCCAAGTATTAGCTGTTTTGACCTTGGTTACA
TATTGCTTTACTTCCTTTACAGGTGCAAGAGAAGAAAGTAAAACAAGTTTCAGTTATGAATTTG
GATTCACGGAGTGTAGGGACTGGTACCTCTTCTAGTGCAAGTACTAGTAGTTCTAGGGGTCTTC
TTCCAAATGGTGGATGTTCAGACAAGTCCAGTTTCTTGAACAGTGACATTTTGTTTCCACCTGG
AGGCTACCCGTCATTACGTTTGCCTGTGGTAGTTGTACTTAACCTCTATATATCTTAATCAACA
GAAGATGACTTGATGTCTTGATCAGCTCTAGCACATCTAGCTGGCATATGATAACTTGCACGGC
AACCTATGATCAAGTCCAAAATTGACTGCATTTCTTATCATGCAGGTTGCAAGTCAAGATGTGA
ACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATC
AACCAATAGGTAAGTATGATCATTGCATTGAATATTAATCTATTAAGCTGTATCCCTAATGCAT
TTTTTCTCCATGAGTTCATCTGTATCTATTTCTTTTCATGTTGAAATAAAATAATATCGAGCCG
AGCATCCAATTCTCATGGATTGCTCTTATTGTAAAACCAATAGTCAGTGCAATAGTCATGACAC
ATTGAATCAGCTTTAAAATCAGTGCAAACCATTGTTGTAGAGGCATACACTTTTTTATATTACA
ACAGTAACGCAATAGAGTTATCTGCAGTTTTTCTACCTGTATATTCCATATACTTTTTCAATGA
TCTAATTTGTGAACATTGTGCTGATTTGCTTCTCTTTTTCATTTAATTGTCAGTGATGGCGAGA
CATACATATCAGCAGATGATCTGCGTATAAATCTATGGAATTTGGAGATAAATAACCAGAGCTT
CAATATTGTTGACGTGAAGCCTCCAAACATGGAAGACCTAACGGGTAACTCCATTTAGTACCTT
ATTTCTTACATGATTTGTGCTCAACTTTGAATTAATGTACTGCAGCATGGATAAAATTGATTGA
TGGAAGCTTTCTTAATTTCTATTCCTTTTACCGCAAAACATTATCATTTTTCTTGTGTTACATG
ACTAAAGTGAAGAATCGAAATATTGTTTTTCATAGTCCATTGTTTATGACATGGTTACTTAGCG
CTTAATGTGAATATGGCCTCTGTATTTGTGATGAAGGCCTATTCTGAATTTGCATTATGCTGTC
ATACTTTCTTAAAATGCTTGCTATATGCGGCTGCAAGCAGCTGTAACAAATGGCATGTTTCTGA
TCTCTGTTCATTTATATTTAGCTTCAAATTGGCATGGACACATCACACATGGCACTAACCAGAT
TATAGAAGCTCAATTTTATAAATTCAGTTTGCATCTTCTTGTCTATTTTATATGTTGAATTAAA
TAAGGAGCAGATGTCTATGGGGGATTTATGTTGTGAGAGAATTGATAGTTATTTAGGGAATAAC
CAAATGAATGAGACCAACATTATCCATGTCGTTGCATGACTTTTTATTAAGAAGTTGATCTGCT
ATTTTATCATACTATTTTTCTAATGATGATATAGAAGTCAAGAGTAGCAGTGCATCTTTATTAT
TGATGTTTAAGATGACCTGGAATCTGATCTTTACACTTACTGTAATTCATGTCCTGGTAATATG
TTGTGCATGATGTAATTTGTTGATATTTCAGAGGTCATTACATGTGCGGAGTTCCACCCAACTC
ATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATC
AGCTTTGTGTGACAACCATTCCAAGAT
						
					

			
		

Sequences
Splice junction sequence	ACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCT GCGACAATCAGCTTTGTGTGACAACCATTCCAAGATttgacatcatctctgcaattgagtttga taaatctggtgatcatcttgccaccggagacagaggaggacgtgttgttttatttgaaaggaca gatgctcg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TTGACATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGG AGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCGGGATGTAAGCACCATTAGTTGAACTTCT CTTGCTCAATTTCATTATTTTATACTCATGAAAGTCTATCTGTTAGCAGAATGCCAGTCGGAGA GAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTC AGAGTCATGAACCTGAGGTATGTTGATAATCTGGATTGGCTGTTGTAGCACATAGTATTATCTG TTATTTCCATGAAGTTGGACGCATAAGATCAAATTAACAAGCTGGCATTCTTATCTCAGAGCAA GAAAGGAATCCTTAGCTTAACCATTGCAAGCAAATGAAGCATTACATTATTGTGCTATGCTCTT GTTTTGTTCTTGCTTGAATTACTTGCATATGGAAACTCACATCTATGTTTTTTTGATGAACTGT TCTAGTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCA GACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATAAAACAATAAAATACTGGAAGGTA TGGAGAAAAATATGTTAGGACCCAGGAATGGTTTTCAAGATTTCTGCATGCCAATATCTTTCTA ATCTAATGTAACATTTAAGCCTGTCTTGACCAAGACCAACTCTGTTGGATGTTTGTATTTCTCC GAACTGGTGGATCAAGATATTTATGTTGATTATTCCATCATTAGTGGAAAATTTAATGAAGTTT ACATGAGCACTCTCTAGTTACGCAATGGAAATGATTTGTGATACCAGAGTACCAGACGTGATTT TGTTACTACCTCTGTCCCATAATAATTGTATTTCTAGGATTTGAATTTGTCCCAAAATAATTGT CACAATAGAGTACTAATGGCCCCATTAATCACTTCTCATTCAAATTTCTCCCTATTTTACCCTC AACTACTCTTCCACTCTTACCTATACACCATTTAATAAGGGACATTATAGTCTTTCTTCTCAAA GCTTAATATGCAGTAAACAACCTAGAATTACAATTATTTTGGGAAGGAAGTAGTATTAATTTTT AACCTTTCGAAGCACCAACAAGATGCATTTGTTTAATCGGTGGTCGTACACGAGCTATGCCTTT TCTTTTCTTTTTTCCTCACAAAATATCCACAATCCAAGTATTAGCTGTTTTGACCTTGGTTACA TATTGCTTTACTTCCTTTACAGGTGCAAGAGAAGAAAGTAAAACAAGTTTCAGTTATGAATTTG GATTCACGGAGTGTAGGGACTGGTACCTCTTCTAGTGCAAGTACTAGTAGTTCTAGGGGTCTTC TTCCAAATGGTGGATGTTCAGACAAGTCCAGTTTCTTGAACAGTGACATTTTGTTTCCACCTGG AGGCTACCCGTCATTACGTTTGCCTGTGGTAGTTGTACTTAACCTCTATATATCTTAATCAACA GAAGATGACTTGATGTCTTGATCAGCTCTAGCACATCTAGCTGGCATATGATAACTTGCACGGC AACCTATGATCAAGTCCAAAATTGACTGCATTTCTTATCATGCAGGTTGCAAGTCAAGATGTGA ACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATC AACCAATAGGTAAGTATGATCATTGCATTGAATATTAATCTATTAAGCTGTATCCCTAATGCAT TTTTTCTCCATGAGTTCATCTGTATCTATTTCTTTTCATGTTGAAATAAAATAATATCGAGCCG AGCATCCAATTCTCATGGATTGCTCTTATTGTAAAACCAATAGTCAGTGCAATAGTCATGACAC ATTGAATCAGCTTTAAAATCAGTGCAAACCATTGTTGTAGAGGCATACACTTTTTTATATTACA ACAGTAACGCAATAGAGTTATCTGCAGTTTTTCTACCTGTATATTCCATATACTTTTTCAATGA TCTAATTTGTGAACATTGTGCTGATTTGCTTCTCTTTTTCATTTAATTGTCAGTGATGGCGAGA CATACATATCAGCAGATGATCTGCGTATAAATCTATGGAATTTGGAGATAAATAACCAGAGCTT CAATATTGTTGACGTGAAGCCTCCAAACATGGAAGACCTAACGGGTAACTCCATTTAGTACCTT ATTTCTTACATGATTTGTGCTCAACTTTGAATTAATGTACTGCAGCATGGATAAAATTGATTGA TGGAAGCTTTCTTAATTTCTATTCCTTTTACCGCAAAACATTATCATTTTTCTTGTGTTACATG ACTAAAGTGAAGAATCGAAATATTGTTTTTCATAGTCCATTGTTTATGACATGGTTACTTAGCG CTTAATGTGAATATGGCCTCTGTATTTGTGATGAAGGCCTATTCTGAATTTGCATTATGCTGTC ATACTTTCTTAAAATGCTTGCTATATGCGGCTGCAAGCAGCTGTAACAAATGGCATGTTTCTGA TCTCTGTTCATTTATATTTAGCTTCAAATTGGCATGGACACATCACACATGGCACTAACCAGAT TATAGAAGCTCAATTTTATAAATTCAGTTTGCATCTTCTTGTCTATTTTATATGTTGAATTAAA TAAGGAGCAGATGTCTATGGGGGATTTATGTTGTGAGAGAATTGATAGTTATTTAGGGAATAAC CAAATGAATGAGACCAACATTATCCATGTCGTTGCATGACTTTTTATTAAGAAGTTGATCTGCT ATTTTATCATACTATTTTTCTAATGATGATATAGAAGTCAAGAGTAGCAGTGCATCTTTATTAT TGATGTTTAAGATGACCTGGAATCTGATCTTTACACTTACTGTAATTCATGTCCTGGTAATATG TTGTGCATGATGTAATTTGTTGATATTTCAGAGGTCATTACATGTGCGGAGTTCCACCCAACTC ATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATC AGCTTTGTGTGACAACCATTCCAAGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.22310185

Conservation Information
Conserved circRNAs	NA
PMCS	0.22310185

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21656763-21656567(+)
21656612-21659622(-)
						
						Potential amino acid sequence
						
							MERQDAPITRHPEFRYKSEFQSHEPEFDYLKSLEIEEKINKIRWCQTANNSLSLLSTNDKTIKY
WKVQEKKVKQVSVMNLDSRSVGTGTSSSASTSSSRGLLPNGGCSDKSSFLNSDILFPPGGYPSL
RLPVVVASQDVNLVARCRRVYAHAHDYHINSISTNSDGETYISADDLRINLWNLEINNQSFNIV
DVKPPNMEDLTEVITCAEFHPTHCNTLAYSSSKGSIRLIDLRQSALCDNHSKI*(+)
MITRFIKLNCRDDVKSWNGCHTKLIVADQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21656763-21656567(+) 21656612-21659622(-)
Potential amino acid sequence	MERQDAPITRHPEFRYKSEFQSHEPEFDYLKSLEIEEKINKIRWCQTANNSLSLLSTNDKTIKY WKVQEKKVKQVSVMNLDSRSVGTGTSSSASTSSSRGLLPNGGCSDKSSFLNSDILFPPGGYPSL RLPVVVASQDVNLVARCRRVYAHAHDYHINSISTNSDGETYISADDLRINLWNLEINNQSFNIV DVKPPNMEDLTEVITCAEFHPTHCNTLAYSSSKGSIRLIDLRQSALCDNHSKI(+) MITRFIKLNCRDDVKSWNGCHTKLIVADQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0563250_circ_g.3

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