Plant Circular RNA Database

Detail information of Os06g0257050_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0257050_circ_g.1
					
						ID in PlantcircBase
						osa_circ_030442
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 8183247-8184171  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os06g0257050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os06t0257050-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0257050_circ_g.2 						
					
						Support reads
						6
					
						Tissues
						root, 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  
						
							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
						Os06t0256900-01:3
Os06t0256900-01:3
Os06t0257050-00:2

General Information
CircRNA Name	Os06g0257050_circ_g.1
ID in PlantcircBase	osa_circ_030442
Alias	NA
Organism	Oryza sativa
Position	chr6: 8183247-8184171 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os06g0257050
Parent gene annotation	Hypothetical protein. (Os06t0257050-00)
Parent gene strand	+
Alternative splicing	Os06g0257050_circ_g.2
Support reads	6
Tissues	root, 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	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	Os06t0256900-01:3 Os06t0256900-01:3 Os06t0257050-00:2

			
						 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  
						
							AGTCGATCAGCCCCCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTT
GTCGCCGGCGTCGTAGTACCCTCCCGTCAGGTCCACcttggagatgaggacgttgatgccggcg
tgcttgttgtcccagccgaactcgttgatggcctcgctggcgccgagcaccacctcgttccgct
tgatgtag

									
								

					

						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: 663
Transcript exons: 8183247-8183408,8183494-8183586,8183764-8184171
CTTGGAGATGAGGACGTTGATGCCGGCGTGCTTGTTGTCCCAGCCGAACTCGTTGATGGCCTCG
CTGGCGCCGAGCACCACCTCGTTCCGCTTGATGTAGTCGCGGTACTCCCGGCGCCGCGACGCCT
TGTGCAGCCACGCCGCGCCCCACAGCAACTCGTCCTTGTAGCCGGAGTAGTCGCAGTAGCAGGG
GCACACGGCCGCGTGCAGGCTGCTGCTGTATGGGCCCCTGTACTTGTCCGCGAACTCGAACACC
TGGATGGCGCGGTCGAGGAGGCGGTTGGAGTAGTCGGGGTCGGCGTCGCGGAAGACGATGGAGG
CGGCGGCGAGGGCGGCGGCGGTCTCGGCGGCGACGTCGGAGCCGGGGTGGGAGGGGTCGACCTT
GTAGACGGTGCGCGGGGTGTCCATGTCCTCGGGGCGCTCCCAGCAGGAGTGGTCGCGGAAGGCG
TCGCCGACCTGGACGTACACCGTGTTGGGCGTCGCCGTCGCCTTCATCAGGTAGTCCGTCGCCC
ACCGCACCGCCTCCCTCGCCTCCGCCGCGTGCGCCCCGAAGCTCCGCCCGAAGTCGATCAGCCC
CCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTTGTCGCCGGCGTCG
TAGTACCCTCCCGTCAGGTCCAC
						
					

						Genomic sequence
						
							CTTGGAGATGAGGACGTTGATGCCGGCGTGCTTGTTGTCCCAGCCGAACTCGTTGATGGCCTCG
CTGGCGCCGAGCACCACCTCGTTCCGCTTGATGTAGTCGCGGTACTCCCGGCGCCGCGACGCCT
TGTGCAGCCACGCCGCGCCCCACAGCAACTCGTCCTGCACAATCGCGACGCACATTACGCTCGG
TTAATCAATCAACCAACCGAATCGCAACGAGGGGAAGGAGGCAACGGATGCGCACCTTGTAGCC
GGAGTAGTCGCAGTAGCAGGGGCACACGGCCGCGTGCAGGCTGCTGCTGTATGGGCCCCTGTAC
TTGTCCGCGAACTCGAACACCTTCCCATCACACACACGAAGCAGAGTGAGTGCTCAAGTGAGAG
TGGCTTGCAAGTGCCAGTGATAGAAAGAAAACGTGCATACATTTAGTTACTCATTTATGCCCTA
ATGACATGGAACAGTACTAGTAGGAGGAGTTAGTACAGTGGTATTTAATTAATGGAGTGTGGAG
TGAACCTGGATGGCGCGGTCGAGGAGGCGGTTGGAGTAGTCGGGGTCGGCGTCGCGGAAGACGA
TGGAGGCGGCGGCGAGGGCGGCGGCGGTCTCGGCGGCGACGTCGGAGCCGGGGTGGGAGGGGTC
GACCTTGTAGACGGTGCGCGGGGTGTCCATGTCCTCGGGGCGCTCCCAGCAGGAGTGGTCGCGG
AAGGCGTCGCCGACCTGGACGTACACCGTGTTGGGCGTCGCCGTCGCCTTCATCAGGTAGTCCG
TCGCCCACCGCACCGCCTCCCTCGCCTCCGCCGCGTGCGCCCCGAAGCTCCGCCCGAAGTCGAT
CAGCCCCCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTTGTCGCCG
GCGTCGTAGTACCCTCCCGTCAGGTCCAC
						
					

			
		

Sequences
Splice junction sequence	AGTCGATCAGCCCCCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTT GTCGCCGGCGTCGTAGTACCCTCCCGTCAGGTCCACcttggagatgaggacgttgatgccggcg tgcttgttgtcccagccgaactcgttgatggcctcgctggcgccgagcaccacctcgttccgct tgatgtag
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: 663 Transcript exons: 8183247-8183408,8183494-8183586,8183764-8184171 CTTGGAGATGAGGACGTTGATGCCGGCGTGCTTGTTGTCCCAGCCGAACTCGTTGATGGCCTCG CTGGCGCCGAGCACCACCTCGTTCCGCTTGATGTAGTCGCGGTACTCCCGGCGCCGCGACGCCT TGTGCAGCCACGCCGCGCCCCACAGCAACTCGTCCTTGTAGCCGGAGTAGTCGCAGTAGCAGGG GCACACGGCCGCGTGCAGGCTGCTGCTGTATGGGCCCCTGTACTTGTCCGCGAACTCGAACACC TGGATGGCGCGGTCGAGGAGGCGGTTGGAGTAGTCGGGGTCGGCGTCGCGGAAGACGATGGAGG CGGCGGCGAGGGCGGCGGCGGTCTCGGCGGCGACGTCGGAGCCGGGGTGGGAGGGGTCGACCTT GTAGACGGTGCGCGGGGTGTCCATGTCCTCGGGGCGCTCCCAGCAGGAGTGGTCGCGGAAGGCG TCGCCGACCTGGACGTACACCGTGTTGGGCGTCGCCGTCGCCTTCATCAGGTAGTCCGTCGCCC ACCGCACCGCCTCCCTCGCCTCCGCCGCGTGCGCCCCGAAGCTCCGCCCGAAGTCGATCAGCCC CCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTTGTCGCCGGCGTCG TAGTACCCTCCCGTCAGGTCCAC
Genomic sequence	CTTGGAGATGAGGACGTTGATGCCGGCGTGCTTGTTGTCCCAGCCGAACTCGTTGATGGCCTCG CTGGCGCCGAGCACCACCTCGTTCCGCTTGATGTAGTCGCGGTACTCCCGGCGCCGCGACGCCT TGTGCAGCCACGCCGCGCCCCACAGCAACTCGTCCTGCACAATCGCGACGCACATTACGCTCGG TTAATCAATCAACCAACCGAATCGCAACGAGGGGAAGGAGGCAACGGATGCGCACCTTGTAGCC GGAGTAGTCGCAGTAGCAGGGGCACACGGCCGCGTGCAGGCTGCTGCTGTATGGGCCCCTGTAC TTGTCCGCGAACTCGAACACCTTCCCATCACACACACGAAGCAGAGTGAGTGCTCAAGTGAGAG TGGCTTGCAAGTGCCAGTGATAGAAAGAAAACGTGCATACATTTAGTTACTCATTTATGCCCTA ATGACATGGAACAGTACTAGTAGGAGGAGTTAGTACAGTGGTATTTAATTAATGGAGTGTGGAG TGAACCTGGATGGCGCGGTCGAGGAGGCGGTTGGAGTAGTCGGGGTCGGCGTCGCGGAAGACGA TGGAGGCGGCGGCGAGGGCGGCGGCGGTCTCGGCGGCGACGTCGGAGCCGGGGTGGGAGGGGTC GACCTTGTAGACGGTGCGCGGGGTGTCCATGTCCTCGGGGCGCTCCCAGCAGGAGTGGTCGCGG AAGGCGTCGCCGACCTGGACGTACACCGTGTTGGGCGTCGCCGTCGCCTTCATCAGGTAGTCCG TCGCCCACCGCACCGCCTCCCTCGCCTCCGCCGCGTGCGCCCCGAAGCTCCGCCCGAAGTCGAT CAGCCCCCACGACATGAGCGTCGCCGTGAACGCCATCGGGAACCCGAACTTCACGTTGTCGCCG GCGTCGTAGTACCCTCCCGTCAGGTCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016887 osi_circ_012247 						
					
						PMCS
						0.324559613

Conservation Information
Conserved circRNAs	osi_circ_016887 osi_circ_012247
PMCS	0.324559613

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8184116-8183249(-)
						
						Potential amino acid sequence
						
							MAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKATATPNTVYVQVGDAFRDHSCWERP
EDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIVFRDADPDYSNRLLDRAIQVFEFADKYRGP
YSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRDYIKRNEVVLGASEAINEFGWDNK
HAGINVLISKVDLTGGYYDAGDNVKFGFPMAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATD
YLMKATATPNTVYVQVGDAFRDHSCWERPEDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIV
FRDADPDYSNRLLDRAIQVFEFADKYRGPYSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASR
RREYRDYIKRNEVVLGASEAINEFGWDNKHAGINVLISKVDLTGGYYDAGDNVKFGFPMAFTAT
LMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKATATPNTVYVQVGDAFRDHSCWERPEDMDTP
RTVYKVDPSHPGSDVAAETAAALAAASIVFRDADPDYSNRLLDRAIQVFEFADKYRGPYSSSLH
AAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRDYIKRNEVVLGASEAINEFGWDNKHAGINV
LISKVDLTGGYYDAGDNVKFGFPMAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKAT
ATPNTVYVQVGDAFRDHSCWERPEDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIVFRDADP
DYSNRLLDRAIQVFEFADKYRGPYSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRD
YIKRNEVVLGASEAINEFGWDNKHAGINVLISK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8184116-8183249(-)
Potential amino acid sequence	MAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKATATPNTVYVQVGDAFRDHSCWERP EDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIVFRDADPDYSNRLLDRAIQVFEFADKYRGP YSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRDYIKRNEVVLGASEAINEFGWDNK HAGINVLISKVDLTGGYYDAGDNVKFGFPMAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATD YLMKATATPNTVYVQVGDAFRDHSCWERPEDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIV FRDADPDYSNRLLDRAIQVFEFADKYRGPYSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASR RREYRDYIKRNEVVLGASEAINEFGWDNKHAGINVLISKVDLTGGYYDAGDNVKFGFPMAFTAT LMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKATATPNTVYVQVGDAFRDHSCWERPEDMDTP RTVYKVDPSHPGSDVAAETAAALAAASIVFRDADPDYSNRLLDRAIQVFEFADKYRGPYSSSLH AAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRDYIKRNEVVLGASEAINEFGWDNKHAGINV LISKVDLTGGYYDAGDNVKFGFPMAFTATLMSWGLIDFGRSFGAHAAEAREAVRWATDYLMKAT ATPNTVYVQVGDAFRDHSCWERPEDMDTPRTVYKVDPSHPGSDVAAETAAALAAASIVFRDADP DYSNRLLDRAIQVFEFADKYRGPYSSSLHAAVCPCYCDYSGYKDELLWGAAWLHKASRRREYRD YIKRNEVVLGASEAINEFGWDNKHAGINVLISK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0257050_circ_g.1

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