Plant Circular RNA Database

Detail information of Os05g0565400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0565400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_028976
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 28129031-28130728  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0565400						
					
						Parent gene annotation
						
							Protein of unknown function DUF561 family protein. (Os05t0565400
-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os05t0565400-01:7

General Information
CircRNA Name	Os05g0565400_circ_g.1
ID in PlantcircBase	osa_circ_028976
Alias	NA
Organism	Oryza sativa
Position	chr5: 28129031-28130728 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0565400
Parent gene annotation	Protein of unknown function DUF561 family protein. (Os05t0565400 -01)
Parent gene strand	-
Alternative splicing	NA
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	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	Os05t0565400-01:7

			
						 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  
						
							AAAAAAATAAGCAAGATAAATGCAATATCCACACCTTATCTGCAGCCGAGACAACAGAGGCAAC
ACTACTCCTGTCGAAATTCTGAAGCCCTGAAATGATcacaccggcagctcctgcagttactgcc
attggtgcagtcactgagcttagcccagatgcacacatcactggaattgtgacagcccgagaga
tggagtat

									
								

					

						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
						
							CACACCGGCAGCTCCTGCAGTTACTGCCATTGGTGCAGTCACTGAGCTTAGCCCAGATGCACAC
ATCACTGGAATTGTGACAGCCCGAGAGATGGAGTATGCAGCGGCCAAAGTTGGTGTTGCCTGAA
TTTGTTAAACAGTATTTATGAGTTTACATTGTATACTAAATTTGATTGTGAGGTCTTTCTTTTT
CTGTAATTTTTGCCATACCTTTTCAATTAATCCAAGCACTCCAGGCTTTGTTGGACTAGAACAC
TTCCCTCCTTCAGTTTGGATGATATCAGCGCCTTCCTCTTCGAGTAGCTCTGCAAGTCTTACCT
GTAATTATGCATAAACGTTTCCAGATTAAACAATTGGTTATTTACCATTTCAGAGTATTGTTGA
AGAGATGACAAGTGGTATACCTGATCTAGGAGGCTCAGTGTATGTGGAACTGTTACGGACAGTG
TTATATCTGGAAGCATTTCCCTTGTCTCCTTGGTCAGCTTTAAGATCTGAAATGATGAGCAGTT
CTTCTCAGAAACAAATCGTGTATAACTGCAGTAAACAGATGCATTATCATAACTGACTACTCAT
ATAATCAAAGAGAACGAATTTACCTTCTCAGAAGAGAATTCGATGCCTGTGTCATAAAAAGAAT
CATAGTTTCCAATCTCAATCTGCATGGAGAAAAGCTTGTGAGCGGAAGGAACTACTGGAAATTA
GTTCTTTCGGATTCATATACTTCTTATCAAAACTTAGAGCCTGACCATCTTTGCTCCAGCTTCT
ACCGCAGAACGGAATGCTGAAGGATCTACGGAGGAGACACAAATCTGCAACAAGCAATTCCCAC
AATGCATTTAGAATAGCTAACCCCACAGTTGGATAATGTAGGATAGCTACATGAACGCTTTGCT
CACCGGAAGGGAAGTAAGCTCCAGAGCAAGCTTTACTAAGTCTTGGTCACACGCTATATCAACA
TGGGTGGCACCTCCCTGAAATCATAAAATAGCTGAATAGCATTACAAATGTGTAATTCCCTCCA
AAATTTGGCTGTTCTAGTTGAAAGTTACCTAACTTATTAACAAACTTCATACAGAGATTTCTGC
AAATATTTAGAAAATATTTTGACTGTTGGAGAAGAGAATGAGATGGCAATATTGGTTGCCTTAG
TTCAAAAATTAATGGCTGCTTACTGATTTTGTGGAAGTTGTATGACTTCAAAGAGCATACTTGG
GTGATGCAGCGAACTTTCATTGATATATCATAGTAAATGCTGTGCGCTAAAATTATGACTCTAA
TTATCAGCTAAACAACAGGTCGTCTGCACTAGACTGCAGTGCCGTTTGCTTGTAGACTTCTTTG
TCGAGAAAATCAGGAGTGACATAAGCCCAAATTATTTATAGCTACGGAGCACATCAGTAGGCAA
CTCAACATTACTGTGTTGACTGGGTAAAAATGAATACTAGTATTACTATATTCAGGGATGGATT
TCATGATAGCCACGCAATACATTGTTTTTGTCGTTGACATGATTTCAGTTTTTCAGATAAGCCT
GCAAAGCTACTCCTAGAACGTAATTGGTACAAACACTTTATCCACATGCAAAGAACCAAACCAA
AAAAATAAGCAAGATAAATGCAATATCCACACCTTATCTGCAGCCGAGACAACAGAGGCAACAC
TACTCCTGTCGAAATTCTGAAGCCCTGAAATGAT
						
					

			
		

Sequences
Splice junction sequence	AAAAAAATAAGCAAGATAAATGCAATATCCACACCTTATCTGCAGCCGAGACAACAGAGGCAAC ACTACTCCTGTCGAAATTCTGAAGCCCTGAAATGATcacaccggcagctcctgcagttactgcc attggtgcagtcactgagcttagcccagatgcacacatcactggaattgtgacagcccgagaga tggagtat
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	CACACCGGCAGCTCCTGCAGTTACTGCCATTGGTGCAGTCACTGAGCTTAGCCCAGATGCACAC ATCACTGGAATTGTGACAGCCCGAGAGATGGAGTATGCAGCGGCCAAAGTTGGTGTTGCCTGAA TTTGTTAAACAGTATTTATGAGTTTACATTGTATACTAAATTTGATTGTGAGGTCTTTCTTTTT CTGTAATTTTTGCCATACCTTTTCAATTAATCCAAGCACTCCAGGCTTTGTTGGACTAGAACAC TTCCCTCCTTCAGTTTGGATGATATCAGCGCCTTCCTCTTCGAGTAGCTCTGCAAGTCTTACCT GTAATTATGCATAAACGTTTCCAGATTAAACAATTGGTTATTTACCATTTCAGAGTATTGTTGA AGAGATGACAAGTGGTATACCTGATCTAGGAGGCTCAGTGTATGTGGAACTGTTACGGACAGTG TTATATCTGGAAGCATTTCCCTTGTCTCCTTGGTCAGCTTTAAGATCTGAAATGATGAGCAGTT CTTCTCAGAAACAAATCGTGTATAACTGCAGTAAACAGATGCATTATCATAACTGACTACTCAT ATAATCAAAGAGAACGAATTTACCTTCTCAGAAGAGAATTCGATGCCTGTGTCATAAAAAGAAT CATAGTTTCCAATCTCAATCTGCATGGAGAAAAGCTTGTGAGCGGAAGGAACTACTGGAAATTA GTTCTTTCGGATTCATATACTTCTTATCAAAACTTAGAGCCTGACCATCTTTGCTCCAGCTTCT ACCGCAGAACGGAATGCTGAAGGATCTACGGAGGAGACACAAATCTGCAACAAGCAATTCCCAC AATGCATTTAGAATAGCTAACCCCACAGTTGGATAATGTAGGATAGCTACATGAACGCTTTGCT CACCGGAAGGGAAGTAAGCTCCAGAGCAAGCTTTACTAAGTCTTGGTCACACGCTATATCAACA TGGGTGGCACCTCCCTGAAATCATAAAATAGCTGAATAGCATTACAAATGTGTAATTCCCTCCA AAATTTGGCTGTTCTAGTTGAAAGTTACCTAACTTATTAACAAACTTCATACAGAGATTTCTGC AAATATTTAGAAAATATTTTGACTGTTGGAGAAGAGAATGAGATGGCAATATTGGTTGCCTTAG TTCAAAAATTAATGGCTGCTTACTGATTTTGTGGAAGTTGTATGACTTCAAAGAGCATACTTGG GTGATGCAGCGAACTTTCATTGATATATCATAGTAAATGCTGTGCGCTAAAATTATGACTCTAA TTATCAGCTAAACAACAGGTCGTCTGCACTAGACTGCAGTGCCGTTTGCTTGTAGACTTCTTTG TCGAGAAAATCAGGAGTGACATAAGCCCAAATTATTTATAGCTACGGAGCACATCAGTAGGCAA CTCAACATTACTGTGTTGACTGGGTAAAAATGAATACTAGTATTACTATATTCAGGGATGGATT TCATGATAGCCACGCAATACATTGTTTTTGTCGTTGACATGATTTCAGTTTTTCAGATAAGCCT GCAAAGCTACTCCTAGAACGTAATTGGTACAAACACTTTATCCACATGCAAAGAACCAAACCAA AAAAATAAGCAAGATAAATGCAATATCCACACCTTATCTGCAGCCGAGACAACAGAGGCAACAC TACTCCTGTCGAAATTCTGAAGCCCTGAAATGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.125686033

Conservation Information
Conserved circRNAs	NA
PMCS	0.125686033

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28130725-28129435(+)
28129784-28129033(-)
						
						Potential amino acid sequence
						
							MITPAAPAVTAIGAVTELSPDAHITGIVTAREMEYAAAKVGVAFSINPSTPGFVGLEHFPPSVW
MISAPSSSSSSASLT*(+)
MIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELLEEEGAD
IIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVTAGAAGV
IISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAFRSAVEA
GAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELLEEE
GADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVTAGA
AGVIISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAFRSA
VEAGAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELL
EEEGADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVT
AGAAGVIISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAF
RSAVEAGAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLA
ELLEEEGADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPM
AVTAGAAGV(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28130725-28129435(+) 28129784-28129033(-)
Potential amino acid sequence	MITPAAPAVTAIGAVTELSPDAHITGIVTAREMEYAAAKVGVAFSINPSTPGFVGLEHFPPSVW MISAPSSSSSSASLT*(+) MIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELLEEEGAD IIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVTAGAAGV IISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAFRSAVEA GAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELLEEE GADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVTAGA AGVIISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAFRSA VEAGAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLAELL EEEGADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPMAVT AGAAGVIISGLQNFDRSSVASVVSAADKGGATHVDIACDQDLVKLALELTSLPICVSSVDPSAF RSAVEAGAKMIEIGNYDSFYDTGIEFSSEKILKLTKETREMLPDITLSVTVPHTLSLLDQVRLA ELLEEEGADIIQTEGGKCSSPTKPGVLGLIEKATPTLAAAYSISRAVTIPVMCASGLSSVTAPM AVTAGAAGV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0565400_circ_g.1

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