Plant Circular RNA Database

Detail information of Os07g0616500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0616500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_034771
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 25409665-25411365  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0616500						
					
						Parent gene annotation
						
							Similar to (S)-2-hydroxy-acid oxidase, peroxisomal (EC 1.1.3.15)
 (Glycolate oxidase) (GOX) (Short chain alpha-hydroxy acid oxida
se). (Os07t0616500-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0616500_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot, 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
						Os07t0616500-01:7

General Information
CircRNA Name	Os07g0616500_circ_g.1
ID in PlantcircBase	osa_circ_034771
Alias	NA
Organism	Oryza sativa
Position	chr7: 25409665-25411365 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0616500
Parent gene annotation	Similar to (S)-2-hydroxy-acid oxidase, peroxisomal (EC 1.1.3.15) (Glycolate oxidase) (GOX) (Short chain alpha-hydroxy acid oxida se). (Os07t0616500-01)
Parent gene strand	+
Alternative splicing	Os07g0616500_circ_g.2
Support reads	1
Tissues	shoot, 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	Os07t0616500-01:7

			
						 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  
						
							AACACTTAAACACACTATCCTCTTCTCGGTTTCGCAGACAAACGGTTCTCAGCTCGAACGATTC
GCACGAGCGACGCTGGATCCATCATTATCATGGAAGaaatggaggacaatctaccagtcaatgt
ccgggagtatcaagaactcgccaaaaaagcgttgccaaagatggcttatgattacatcaatggg
ggagcaga

									
								

					

						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: 647
Transcript exons: 25409665-25409812,25409999-25410123,25410230-25410276,25
410372-25410449,25410529-25410653,25410892-25410952,2541
1303-25411365
AAATGGAGGACAATCTACCAGTCAATGTCCGGGAGTATCAAGAACTCGCCAAAAAAGCGTTGCC
AAAGATGGCTTATGATTACATCAATGGGGGAGCAGAGGATGAGCACACACTGAGGGAGAATATC
GCAGCATACACAAGAATTATATTACGACCTCGCGTTCTTGTGGATGTGAGCAAGATAGACATGT
CAACAACTTTATTAGGATACACCATGCGTTCACCCATAATTGTGGCTCCAACTGGGGGGCACAA
ATTAGCACATCCAGAAGGGGAGAAGGCTACAGCAAGAGCTGCAGCATCATGTAACGCCATAATG
GTTCTTTCCTTTTCTTCCAGTTGCAAGATTGAGGATGTTGCCTCCAGTTGCAATGCCATTCGCT
TTTATCAGCTATATGTGTATAAGAATAGGAATGTTTCAGCAACATTAGTACGGCGGGCCGAGAG
TTGTGGATTCAAGGCACTTCTTTTGACAGTTGACACTCCTATGCTCGGTCGGCGTGAAGCAGAT
ATCCGAAACAAAATGGTTTTCCCACGGAGTGGTAATCTCGAAGGTTTAATGACAACAGATGACC
ATGATACCACAAACGGTTCTCAGCTCGAACGATTCGCACGAGCGACGCTGGATCCATCATTATC
ATGGAAG
						
					

						Genomic sequence
						
							AAATGGAGGACAATCTACCAGTCAATGTCCGGGAGTATCAAGAACTCGCCAAAAAAGCGTTGCC
AAAGATGGCTTATGATTACATCAATGGGGGAGCAGAGGATGAGCACACACTGAGGGAGAATATC
GCAGCATACACAAGAATTATGTACTGTTTATACCGAATTCTTAGGCCATAACTTTATTATTTTT
ATTCTTTTTTATTTGTGATGAAGTCAGAGCTTCATTATGCAAAGATGAACTAGGACTTCACATT
ATACTGAAACCTTAAGCCAGAGCTTCATTATTCAACAGTGTACTTAGACCATAAATTATATTGG
TGTCGATTTTGCAGATTACGACCTCGCGTTCTTGTGGATGTGAGCAAGATAGACATGTCAACAA
CTTTATTAGGATACACCATGCGTTCACCCATAATTGTGGCTCCAACTGGGGGGCACAAATTAGC
ACATCCAGAAGGTCTTAAAACTAAAACCTTCTTTCAATTTTTAAATTGTGAATTATGTGATGTA
ATTATCTAAGCACTGCAGTATCTCTATTTCTCTTGGTTGAATGCTTATTTCAGGGGAGAAGGCT
ACAGCAAGAGCTGCAGCATCATGTAACGCCATAATGGTTGGTAACAATTGACATTGTTCAGGAT
CATTTGGTCAAACACTTCCACTTTCTCCATGAATTGCTACACATTTTCATATGTTTCTCATTTA
CAGGTTCTTTCCTTTTCTTCCAGTTGCAAGATTGAGGATGTTGCCTCCAGTTGCAATGCCATTC
GCTTTTATCAGCTATATGTATGGCATTCACATTTTGAACCAAATATTTTCCTTTTACTCCTGAT
AATTTATCTGAAATTTGTCATAATCATTGTAGGTGTATAAGAATAGGAATGTTTCAGCAACATT
AGTACGGCGGGCCGAGAGTTGTGGATTCAAGGCACTTCTTTTGACAGTTGACACTCCTATGCTC
GGTCGGCGTGAAGCAGATATCCGAAACAAGTAATATGCTACCACAAATATTGTTCTGAAGATAT
ATTTTTTAGATATAACAAAGATTTCATTGAGCAAATATTGCTCTGAAGATTCAGTCAATTACAT
ATCCTCTGGAAGGATAAAACTTGGCAAGCATGCATAATGCAAGATAGTAGAAGTGAATATATTC
ACTGATGGCATTTTAGGATATTGTACAGTTATCATGGTACGAAATTCTGGTTACTAATTTCGAT
TGTTCACGCAGAATGGTTTTCCCACGGAGTGGTAATCTCGAAGGTTTAATGACAACAGATGACC
ATGATACCGTGAGTGAAATTTTTCGCTTGATAGAATCTCTTATATATGTCTCAATTAATCAGTT
ATTTTCTTGAAACAACTAAATGCTCATTTTTTTTTATTTTTTTTTAGAGAAGGGTATTTTCTAC
CTGGCCTCTATATCCAACCAGATATATACGGCCATTGAGATAGGAAACTTAGCCCCGCAAACAA
CCCAATCTGAAATTCGCTCCATAGGAGATTTGAATTCAGTACCTTTGGGTACTACTCAGTCACT
AAATGCTCATGGAGAATAAAAAGAACAGAACTAACCTTTTTCAGATGAACTTTCTTTCCTCCGA
GAACACTTAAACACACTATCCTCTTCTCGGTTTCGCAGACAAACGGTTCTCAGCTCGAACGATT
CGCACGAGCGACGCTGGATCCATCATTATCATGGAAG
						
					

			
		

Sequences
Splice junction sequence	AACACTTAAACACACTATCCTCTTCTCGGTTTCGCAGACAAACGGTTCTCAGCTCGAACGATTC GCACGAGCGACGCTGGATCCATCATTATCATGGAAGaaatggaggacaatctaccagtcaatgt ccgggagtatcaagaactcgccaaaaaagcgttgccaaagatggcttatgattacatcaatggg ggagcaga
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: 647 Transcript exons: 25409665-25409812,25409999-25410123,25410230-25410276,25 410372-25410449,25410529-25410653,25410892-25410952,2541 1303-25411365 AAATGGAGGACAATCTACCAGTCAATGTCCGGGAGTATCAAGAACTCGCCAAAAAAGCGTTGCC AAAGATGGCTTATGATTACATCAATGGGGGAGCAGAGGATGAGCACACACTGAGGGAGAATATC GCAGCATACACAAGAATTATATTACGACCTCGCGTTCTTGTGGATGTGAGCAAGATAGACATGT CAACAACTTTATTAGGATACACCATGCGTTCACCCATAATTGTGGCTCCAACTGGGGGGCACAA ATTAGCACATCCAGAAGGGGAGAAGGCTACAGCAAGAGCTGCAGCATCATGTAACGCCATAATG GTTCTTTCCTTTTCTTCCAGTTGCAAGATTGAGGATGTTGCCTCCAGTTGCAATGCCATTCGCT TTTATCAGCTATATGTGTATAAGAATAGGAATGTTTCAGCAACATTAGTACGGCGGGCCGAGAG TTGTGGATTCAAGGCACTTCTTTTGACAGTTGACACTCCTATGCTCGGTCGGCGTGAAGCAGAT ATCCGAAACAAAATGGTTTTCCCACGGAGTGGTAATCTCGAAGGTTTAATGACAACAGATGACC ATGATACCACAAACGGTTCTCAGCTCGAACGATTCGCACGAGCGACGCTGGATCCATCATTATC ATGGAAG
Genomic sequence	AAATGGAGGACAATCTACCAGTCAATGTCCGGGAGTATCAAGAACTCGCCAAAAAAGCGTTGCC AAAGATGGCTTATGATTACATCAATGGGGGAGCAGAGGATGAGCACACACTGAGGGAGAATATC GCAGCATACACAAGAATTATGTACTGTTTATACCGAATTCTTAGGCCATAACTTTATTATTTTT ATTCTTTTTTATTTGTGATGAAGTCAGAGCTTCATTATGCAAAGATGAACTAGGACTTCACATT ATACTGAAACCTTAAGCCAGAGCTTCATTATTCAACAGTGTACTTAGACCATAAATTATATTGG TGTCGATTTTGCAGATTACGACCTCGCGTTCTTGTGGATGTGAGCAAGATAGACATGTCAACAA CTTTATTAGGATACACCATGCGTTCACCCATAATTGTGGCTCCAACTGGGGGGCACAAATTAGC ACATCCAGAAGGTCTTAAAACTAAAACCTTCTTTCAATTTTTAAATTGTGAATTATGTGATGTA ATTATCTAAGCACTGCAGTATCTCTATTTCTCTTGGTTGAATGCTTATTTCAGGGGAGAAGGCT ACAGCAAGAGCTGCAGCATCATGTAACGCCATAATGGTTGGTAACAATTGACATTGTTCAGGAT CATTTGGTCAAACACTTCCACTTTCTCCATGAATTGCTACACATTTTCATATGTTTCTCATTTA CAGGTTCTTTCCTTTTCTTCCAGTTGCAAGATTGAGGATGTTGCCTCCAGTTGCAATGCCATTC GCTTTTATCAGCTATATGTATGGCATTCACATTTTGAACCAAATATTTTCCTTTTACTCCTGAT AATTTATCTGAAATTTGTCATAATCATTGTAGGTGTATAAGAATAGGAATGTTTCAGCAACATT AGTACGGCGGGCCGAGAGTTGTGGATTCAAGGCACTTCTTTTGACAGTTGACACTCCTATGCTC GGTCGGCGTGAAGCAGATATCCGAAACAAGTAATATGCTACCACAAATATTGTTCTGAAGATAT ATTTTTTAGATATAACAAAGATTTCATTGAGCAAATATTGCTCTGAAGATTCAGTCAATTACAT ATCCTCTGGAAGGATAAAACTTGGCAAGCATGCATAATGCAAGATAGTAGAAGTGAATATATTC ACTGATGGCATTTTAGGATATTGTACAGTTATCATGGTACGAAATTCTGGTTACTAATTTCGAT TGTTCACGCAGAATGGTTTTCCCACGGAGTGGTAATCTCGAAGGTTTAATGACAACAGATGACC ATGATACCGTGAGTGAAATTTTTCGCTTGATAGAATCTCTTATATATGTCTCAATTAATCAGTT ATTTTCTTGAAACAACTAAATGCTCATTTTTTTTTATTTTTTTTTAGAGAAGGGTATTTTCTAC CTGGCCTCTATATCCAACCAGATATATACGGCCATTGAGATAGGAAACTTAGCCCCGCAAACAA CCCAATCTGAAATTCGCTCCATAGGAGATTTGAATTCAGTACCTTTGGGTACTACTCAGTCACT AAATGCTCATGGAGAATAAAAAGAACAGAACTAACCTTTTTCAGATGAACTTTCTTTCCTCCGA GAACACTTAAACACACTATCCTCTTCTCGGTTTCGCAGACAAACGGTTCTCAGCTCGAACGATT CGCACGAGCGACGCTGGATCCATCATTATCATGGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017345 						
					
						PMCS
						0.218915427

Conservation Information
Conserved circRNAs	osi_circ_017345
PMCS	0.218915427

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25410940-25409740(+)
25411360-25409778(+)
25409668-25409778(+)
						
						Potential amino acid sequence
						
							MTMIPQTVLSSNDSHERRWIHHYHGRNGGQSTSQCPGVSRTRQKSVAKDGL*(+)
MEEMEDNLPVNVREYQELAKKALPKMAYDYINGGAEDEHTLRENIAAYTRIILRPRVLVDVSKI
DMSTTLLGYTMRSPIIVAPTGGHKLAHPEGEKATARAAASCNAIMVLSFSSSCKIEDVASSCNA
IRFYQLYVYKNRNVSATLVRRAESCGFKALLLTVDTPMLGRREADIRNKMVFPRSGNLEGLMTT
DDHDTTNGSQLERFARATLDPSLSWKKWRTIYQSMSGSIKNSPKKRCQRWLMITSMGEQRMSTH
*(+)
MEDNLPVNVREYQELAKKALPKMAYDYINGGAEDEHTLRENIAAYTRIILRPRVLVDVSKIDMS
TTLLGYTMRSPIIVAPTGGHKLAHPEGEKATARAAASCNAIMVLSFSSSCKIEDVASSCNAIRF
YQLYVYKNRNVSATLVRRAESCGFKALLLTVDTPMLGRREADIRNKMVFPRSGNLEGLMTTDDH
DTTNGSQLERFARATLDPSLSWKKWRTIYQSMSGSIKNSPKKRCQRWLMITSMGEQRMSTH*(+
)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25410940-25409740(+) 25411360-25409778(+) 25409668-25409778(+)
Potential amino acid sequence	MTMIPQTVLSSNDSHERRWIHHYHGRNGGQSTSQCPGVSRTRQKSVAKDGL(+) MEEMEDNLPVNVREYQELAKKALPKMAYDYINGGAEDEHTLRENIAAYTRIILRPRVLVDVSKI DMSTTLLGYTMRSPIIVAPTGGHKLAHPEGEKATARAAASCNAIMVLSFSSSCKIEDVASSCNA IRFYQLYVYKNRNVSATLVRRAESCGFKALLLTVDTPMLGRREADIRNKMVFPRSGNLEGLMTT DDHDTTNGSQLERFARATLDPSLSWKKWRTIYQSMSGSIKNSPKKRCQRWLMITSMGEQRMSTH (+) MEDNLPVNVREYQELAKKALPKMAYDYINGGAEDEHTLRENIAAYTRIILRPRVLVDVSKIDMS TTLLGYTMRSPIIVAPTGGHKLAHPEGEKATARAAASCNAIMVLSFSSSCKIEDVASSCNAIRF YQLYVYKNRNVSATLVRRAESCGFKALLLTVDTPMLGRREADIRNKMVFPRSGNLEGLMTTDDH DTTNGSQLERFARATLDPSLSWKKWRTIYQSMSGSIKNSPKKRCQRWLMITSMGEQRMSTH*(+ )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0616500_circ_g.1

Address

Any questions?

Supported by