Plant Circular RNA Database

Detail information of Os06g0492000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0492000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_030929
					
						Alias
						Os_ciR1071, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 17005323-17006095  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ, CIRI-long
					
						Parent gene
						
							Os06g0492000						
					
						Parent gene annotation
						
							Similar to Phosphatidylinositol synthase. (Os06t0492000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0492000_circ_g.1 						
					
						Support reads
						21/4/4
					
						Tissues
						root/root/shoot, root, seed, 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
						Os06t0492000-01:5

General Information
CircRNA Name	Os06g0492000_circ_g.2
ID in PlantcircBase	osa_circ_030929
Alias	Os_ciR1071,
Organism	Oryza sativa
Position	chr6: 17005323-17006095 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ, CIRI-long
Parent gene	Os06g0492000
Parent gene annotation	Similar to Phosphatidylinositol synthase. (Os06t0492000-01)
Parent gene strand	-
Alternative splicing	Os06g0492000_circ_g.1
Support reads	21/4/4
Tissues	root/root/shoot, root, seed, 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	Os06t0492000-01:5

			
						 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  
						
							AGTTAAAACACTCGCCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAG
CAAAAGCAATGAAGTTTATGATGATCCTAAAATATCctatacatttgaaaccaatggcttgtaa
tatccaacccaagcagcatcaaaaaaactaagccaggtctgcaaagaaacttgcaaatacagtt
tgcatcag

									
								

					

						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: 286
Transcript exons: 17005323-17005388,17005475-17005519,17005614-17005653,17
005878-17005927,17006011-17006095
CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG
GTCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGCTAACCCTATCTGTTACCATGTC
CAGCACAGCTCCAAATGTTGATGCTTGGTTAAACTTTCATGCAAACCAACCATCCAATCCATCG
CAGAAAAAGCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAGCAAAAG
CAATGAAGTTTATGATGATCCTAAAATATC

Transcript length: 290
Transcript exons: 17005323-17005388,17005475-17005519,17005614-17005653,17
005878-17005927,17006007-17006095
CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG
GTCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGCTAACCCTATCTGTTACCATGTC
CAGCACAGCTCCAAATGTTGATGCTTGGTTAAACTTTCATGCAAACCAACCATCCAATCCATCG
CAGAAAAAGTCGCCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAGCA
AAAGCAATGAAGTTTATGATGATCCTAAAATATC
						
					

						Genomic sequence
						
							CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG
GTCTGCAAAGAAACTTGCAAATACAGTTTGCATCAGGTATCTAGATCGAAGGTACAACAATTGA
AGTATTTTCTGCTTTCATTTATACCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGC
TAACCCTGAGGAGGAGCAATTTGAACAGTGAAATTATTTCAGGCTGCAGAATGTATTCACCTTG
CATATACAGAGTTCAATGATTTATTCGAGGAGTACCTATCTGTTACCATGTCCAGCACAGCTCC
AAATGTTGATGCTGATACATAGAATAACATTAACTGATCAGATAATGAGTAAAGATAAACCAAG
ATTTAACTGTTGAGCAGACAATAGTTTTTTAGAAGTTCATATAATTTACTCTTCATAAAATATC
TAGTGCTATAAAGTCTCAAGGCACAAGGGAAAAAATTAGAAATAATATTCTCTGCAGAATGACA
AACTACATGAAGACTTTGAACACATAAGAAATGCTTCTATTACCTTGGTTAAACTTTCATGCAA
ACCAACCATCCAATCCATCGCAGAAAAAGCTGATAGATCTTGATGATGTTAAATTCATAGATAT
ACAAATTGCACAAGGCAAGTAGTGTGTGGATAAAGTTAAAACACTCGCCTGAAGAAGTATAAGA
TAGCAAAGAGCACCCTGTTGGAATAACATACAGCAAAAGCAATGAAGTTTATGATGATCCTAAA
ATATC
						
					

			
		

Sequences
Splice junction sequence	AGTTAAAACACTCGCCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAG CAAAAGCAATGAAGTTTATGATGATCCTAAAATATCctatacatttgaaaccaatggcttgtaa tatccaacccaagcagcatcaaaaaaactaagccaggtctgcaaagaaacttgcaaatacagtt tgcatcag
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: 286 Transcript exons: 17005323-17005388,17005475-17005519,17005614-17005653,17 005878-17005927,17006011-17006095 CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG GTCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGCTAACCCTATCTGTTACCATGTC CAGCACAGCTCCAAATGTTGATGCTTGGTTAAACTTTCATGCAAACCAACCATCCAATCCATCG CAGAAAAAGCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAGCAAAAG CAATGAAGTTTATGATGATCCTAAAATATC Transcript length: 290 Transcript exons: 17005323-17005388,17005475-17005519,17005614-17005653,17 005878-17005927,17006007-17006095 CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG GTCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGCTAACCCTATCTGTTACCATGTC CAGCACAGCTCCAAATGTTGATGCTTGGTTAAACTTTCATGCAAACCAACCATCCAATCCATCG CAGAAAAAGTCGCCTGAAGAAGTATAAGATAGCAAAGAGCACCCTGTTGGAATAACATACAGCA AAAGCAATGAAGTTTATGATGATCCTAAAATATC
Genomic sequence	CTATACATTTGAAACCAATGGCTTGTAATATCCAACCCAAGCAGCATCAAAAAAACTAAGCCAG GTCTGCAAAGAAACTTGCAAATACAGTTTGCATCAGGTATCTAGATCGAAGGTACAACAATTGA AGTATTTTCTGCTTTCATTTATACCTGTAAAGTTGGGAGAGAAGTGCCAATAAACAGGCAGTGC TAACCCTGAGGAGGAGCAATTTGAACAGTGAAATTATTTCAGGCTGCAGAATGTATTCACCTTG CATATACAGAGTTCAATGATTTATTCGAGGAGTACCTATCTGTTACCATGTCCAGCACAGCTCC AAATGTTGATGCTGATACATAGAATAACATTAACTGATCAGATAATGAGTAAAGATAAACCAAG ATTTAACTGTTGAGCAGACAATAGTTTTTTAGAAGTTCATATAATTTACTCTTCATAAAATATC TAGTGCTATAAAGTCTCAAGGCACAAGGGAAAAAATTAGAAATAATATTCTCTGCAGAATGACA AACTACATGAAGACTTTGAACACATAAGAAATGCTTCTATTACCTTGGTTAAACTTTCATGCAA ACCAACCATCCAATCCATCGCAGAAAAAGCTGATAGATCTTGATGATGTTAAATTCATAGATAT ACAAATTGCACAAGGCAAGTAGTGTGTGGATAAAGTTAAAACACTCGCCTGAAGAAGTATAAGA TAGCAAAGAGCACCCTGTTGGAATAACATACAGCAAAAGCAATGAAGTTTATGATGATCCTAAA ATATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.255674601

Conservation Information
Conserved circRNAs	NA
PMCS	0.255674601

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17006069-17005378(+)
17005629-17006088(-)
						
						Potential amino acid sequence
						
							MKFMMILKYPIHLKPMACNIQPKQHQKN*(+)
MVTDRVSTACLLALLSQLYRPGLVFLMLLGLDITSHWFQMYRIF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17006069-17005378(+) 17005629-17006088(-)
Potential amino acid sequence	MKFMMILKYPIHLKPMACNIQPKQHQKN(+) MVTDRVSTACLLALLSQLYRPGLVFLMLLGLDITSHWFQMYRIF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017; this study

circRNA

Detail information of Os06g0492000_circ_g.2

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