Plant Circular RNA Database

Detail information of Os01g0655400_circ_g.21

			
						 General Information
					
						CircRNA Name
						Os01g0655400_circ_g.21
					
						ID in PlantcircBase
						osa_circ_003001
					
						Alias
						Os01circ18550/Os_ciR2643
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 26602395-26602515  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os01g0655400						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os01t0655400-01);Hypothetical c
onserved gene. (Os01t0655400-02);Hypothetical conserved gene. (O
s01t0655400-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0655400_circ_g.1 Os01g0655400_circ_g.2 Os01g0655400_circ_g.3 Os01g0655400_circ_g.4 Os01g0655400_circ_g.5 Os01g0655400_circ_g.6 Os01g0655400_circ_g.7 Os01g0655400_circ_g.8 Os01g0655400_circ_g.9 Os01g0655400_circ_g.10 Os01g0655400_circ_g.11 Os01g0655400_circ_g.12 Os01g0655400_circ_g.13 Os01g0655400_circ_g.14 Os01g0655400_circ_g.15 Os01g0655400_circ_g.16 Os01g0655400_circ_g.17 Os01g0655400_circ_g.18 Os01g0655400_circ_g.19 Os01g0655400_circ_g.20 Os01g0655400_circ_g.22 Os01g0655400_circ_g.23 Os01g0655400_circ_g.24 Os01g0655400_circ_g.25 Os01g0655400_circ_g.26 Os01g0655400_circ_g.27 Os01g0655400_circ_g.28 Os01g0655400_circ_g.29 Os01g0655400_circ_g.30 Os01g0655400_circ_g.31 Os01g0655400_circ_g.32 Os01g0655400_circ_g.33 Os01g0655400_circ_g.34 Os01g0655400_circ_g.35 Os01g0655400_circ_g.36 Os01g0655400_circ_g.37 Os01g0655400_circ_g.38 Os01g0655400_circ_g.39 Os01g0655400_circ_g.40 Os01g0655400_circ_g.41 Os01g0655400_circ_g.42 Os01g0655400_circ_g.43 Os01g0655400_circ_g.44 Os01g0655400_circ_g.45 Os01g0655400_circ_g.46 Os01g0655400_circ_g.47 Os01g0655400_circ_g.48 Os01g0655400_circ_g.49 Os01g0655400_circ_g.50 Os01g0655400_circ_g.51 Os01g0655400_circ_g.52 Os01g0655400_circ_g.53 Os01g0655400_circ_g.54 Os01g0655400_circ_g.55 Os01g0655400_circ_g.56 Os01g0655400_circ_g.57 Os01g0655400_circ_g.58 Os01g0655400_circ_g.59 Os01g0655400_circ_g.60 Os01g0655400_circ_g.61 Os01g0655400_circ_g.62 						
					
						Support reads
						4/5
					
						Tissues
						leaf/root
					
						Exon boundary  
						
							No-No							"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
						Os01t0655400-03:1
Os01t0655400-01:1

General Information
CircRNA Name	Os01g0655400_circ_g.21
ID in PlantcircBase	osa_circ_003001
Alias	Os01circ18550/Os_ciR2643
Organism	Oryza sativa
Position	chr1: 26602395-26602515 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os01g0655400
Parent gene annotation	Conserved hypothetical protein. (Os01t0655400-01);Hypothetical c onserved gene. (Os01t0655400-02);Hypothetical conserved gene. (O s01t0655400-03)
Parent gene strand	-
Alternative splicing	Os01g0655400_circ_g.1 Os01g0655400_circ_g.2 Os01g0655400_circ_g.3 Os01g0655400_circ_g.4 Os01g0655400_circ_g.5 Os01g0655400_circ_g.6 Os01g0655400_circ_g.7 Os01g0655400_circ_g.8 Os01g0655400_circ_g.9 Os01g0655400_circ_g.10 Os01g0655400_circ_g.11 Os01g0655400_circ_g.12 Os01g0655400_circ_g.13 Os01g0655400_circ_g.14 Os01g0655400_circ_g.15 Os01g0655400_circ_g.16 Os01g0655400_circ_g.17 Os01g0655400_circ_g.18 Os01g0655400_circ_g.19 Os01g0655400_circ_g.20 Os01g0655400_circ_g.22 Os01g0655400_circ_g.23 Os01g0655400_circ_g.24 Os01g0655400_circ_g.25 Os01g0655400_circ_g.26 Os01g0655400_circ_g.27 Os01g0655400_circ_g.28 Os01g0655400_circ_g.29 Os01g0655400_circ_g.30 Os01g0655400_circ_g.31 Os01g0655400_circ_g.32 Os01g0655400_circ_g.33 Os01g0655400_circ_g.34 Os01g0655400_circ_g.35 Os01g0655400_circ_g.36 Os01g0655400_circ_g.37 Os01g0655400_circ_g.38 Os01g0655400_circ_g.39 Os01g0655400_circ_g.40 Os01g0655400_circ_g.41 Os01g0655400_circ_g.42 Os01g0655400_circ_g.43 Os01g0655400_circ_g.44 Os01g0655400_circ_g.45 Os01g0655400_circ_g.46 Os01g0655400_circ_g.47 Os01g0655400_circ_g.48 Os01g0655400_circ_g.49 Os01g0655400_circ_g.50 Os01g0655400_circ_g.51 Os01g0655400_circ_g.52 Os01g0655400_circ_g.53 Os01g0655400_circ_g.54 Os01g0655400_circ_g.55 Os01g0655400_circ_g.56 Os01g0655400_circ_g.57 Os01g0655400_circ_g.58 Os01g0655400_circ_g.59 Os01g0655400_circ_g.60 Os01g0655400_circ_g.61 Os01g0655400_circ_g.62
Support reads	4/5
Tissues	leaf/root
Exon boundary	No-No "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	Os01t0655400-03:1 Os01t0655400-01:1

			
						 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  
						
							TAAATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGATttgc
aacatccagctcaaggctagatgcgttcacctcaccatccccagggttatcatcaat

						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: 121
Transcript exons: 26602395-26602515
TTGCAACATCCAGCTCAAGGCTAGATGCGTTCACCTCACCATCCCCAGGGTTATCATCAATTAA
ATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGAT
						
						Genomic sequence
						
							TTGCAACATCCAGCTCAAGGCTAGATGCGTTCACCTCACCATCCCCAGGGTTATCATCAATTAA
ATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGAT

Sequences
Splice junction sequence	TAAATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGATttgc aacatccagctcaaggctagatgcgttcacctcaccatccccagggttatcatcaat
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: 121 Transcript exons: 26602395-26602515 TTGCAACATCCAGCTCAAGGCTAGATGCGTTCACCTCACCATCCCCAGGGTTATCATCAATTAA ATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGAT
Genomic sequence	TTGCAACATCCAGCTCAAGGCTAGATGCGTTCACCTCACCATCCCCAGGGTTATCATCAATTAA ATTATCAGTCTCTCCTTCCATACCTTTCTCAATGCCTGCATGCATGCCGGAGACGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.552986806

Conservation Information
Conserved circRNAs	NA
PMCS	0.552986806

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os01g0655400_circ_g.21

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