Plant Circular RNA Database

Detail information of GLYMA_14G050500_circ_g.29

			
						 General Information
					
						CircRNA Name
						GLYMA_14G050500_circ_g.29
					
						ID in PlantcircBase
						gma_circ_003794
					
						Alias
						Gm14ciRNA2052
					
						Organism
						
							Glycine max						
					
						Position
						
							chr14: 3959680-3959717  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_14G050500						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							GLYMA_14G050500_circ_g.1 GLYMA_14G050500_circ_g.2 GLYMA_14G050500_circ_g.3 GLYMA_14G050500_circ_g.4 GLYMA_14G050500_circ_g.5 GLYMA_14G050500_circ_g.6 GLYMA_14G050500_circ_g.7 GLYMA_14G050500_circ_g.8 GLYMA_14G050500_circ_g.9 GLYMA_14G050500_circ_g.10 GLYMA_14G050500_circ_g.11 GLYMA_14G050500_circ_g.12 GLYMA_14G050500_circ_g.13 GLYMA_14G050500_circ_g.14 GLYMA_14G050500_circ_g.15 GLYMA_14G050500_circ_g.16 GLYMA_14G050500_circ_g.17 GLYMA_14G050500_circ_g.18 GLYMA_14G050500_circ_g.19 GLYMA_14G050500_circ_g.20 GLYMA_14G050500_circ_g.21 GLYMA_14G050500_circ_g.22 GLYMA_14G050500_circ_g.23 GLYMA_14G050500_circ_g.24 GLYMA_14G050500_circ_g.25 GLYMA_14G050500_circ_g.26 GLYMA_14G050500_circ_g.27 GLYMA_14G050500_circ_g.28 GLYMA_14G050500_circ_g.30 GLYMA_14G050500_circ_g.31 GLYMA_14G050500_circ_g.32 GLYMA_14G050500_circ_g.33 GLYMA_14G050500_circ_g.34 GLYMA_14G050500_circ_g.35 GLYMA_14G050500_circ_g.36 GLYMA_14G050500_circ_g.37 GLYMA_14G050500_circ_g.38 GLYMA_14G050500_circ_g.39 GLYMA_14G050500_circ_g.40 GLYMA_14G050500_circ_g.41 GLYMA_14G050500_circ_g.42 GLYMA_14G050500_circ_g.43 GLYMA_14G050500_circ_g.44 GLYMA_14G050500_circ_g.45 GLYMA_14G050500_circ_g.46 GLYMA_14G050500_circ_g.47 GLYMA_14G050500_circ_g.48 GLYMA_14G050500_circ_g.49 GLYMA_14G050500_circ_g.50 GLYMA_14G050500_circ_g.51 GLYMA_14G050500_circ_g.52 GLYMA_14G050500_circ_g.53 GLYMA_14G050500_circ_g.54 GLYMA_14G050500_circ_g.55 GLYMA_14G050500_circ_g.56 GLYMA_14G050500_circ_g.57 GLYMA_14G050500_circ_g.58 						
					
						Support reads
						NA
					
						Tissues
						root, stem
					
						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  
						
							GT-GT							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
						KRH14819:1

General Information
CircRNA Name	GLYMA_14G050500_circ_g.29
ID in PlantcircBase	gma_circ_003794
Alias	Gm14ciRNA2052
Organism	Glycine max
Position	chr14: 3959680-3959717 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_14G050500
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	GLYMA_14G050500_circ_g.1 GLYMA_14G050500_circ_g.2 GLYMA_14G050500_circ_g.3 GLYMA_14G050500_circ_g.4 GLYMA_14G050500_circ_g.5 GLYMA_14G050500_circ_g.6 GLYMA_14G050500_circ_g.7 GLYMA_14G050500_circ_g.8 GLYMA_14G050500_circ_g.9 GLYMA_14G050500_circ_g.10 GLYMA_14G050500_circ_g.11 GLYMA_14G050500_circ_g.12 GLYMA_14G050500_circ_g.13 GLYMA_14G050500_circ_g.14 GLYMA_14G050500_circ_g.15 GLYMA_14G050500_circ_g.16 GLYMA_14G050500_circ_g.17 GLYMA_14G050500_circ_g.18 GLYMA_14G050500_circ_g.19 GLYMA_14G050500_circ_g.20 GLYMA_14G050500_circ_g.21 GLYMA_14G050500_circ_g.22 GLYMA_14G050500_circ_g.23 GLYMA_14G050500_circ_g.24 GLYMA_14G050500_circ_g.25 GLYMA_14G050500_circ_g.26 GLYMA_14G050500_circ_g.27 GLYMA_14G050500_circ_g.28 GLYMA_14G050500_circ_g.30 GLYMA_14G050500_circ_g.31 GLYMA_14G050500_circ_g.32 GLYMA_14G050500_circ_g.33 GLYMA_14G050500_circ_g.34 GLYMA_14G050500_circ_g.35 GLYMA_14G050500_circ_g.36 GLYMA_14G050500_circ_g.37 GLYMA_14G050500_circ_g.38 GLYMA_14G050500_circ_g.39 GLYMA_14G050500_circ_g.40 GLYMA_14G050500_circ_g.41 GLYMA_14G050500_circ_g.42 GLYMA_14G050500_circ_g.43 GLYMA_14G050500_circ_g.44 GLYMA_14G050500_circ_g.45 GLYMA_14G050500_circ_g.46 GLYMA_14G050500_circ_g.47 GLYMA_14G050500_circ_g.48 GLYMA_14G050500_circ_g.49 GLYMA_14G050500_circ_g.50 GLYMA_14G050500_circ_g.51 GLYMA_14G050500_circ_g.52 GLYMA_14G050500_circ_g.53 GLYMA_14G050500_circ_g.54 GLYMA_14G050500_circ_g.55 GLYMA_14G050500_circ_g.56 GLYMA_14G050500_circ_g.57 GLYMA_14G050500_circ_g.58
Support reads	NA
Tissues	root, stem
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	GT-GT 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	KRH14819:1

			
						 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  
						
							CCACTGTCAGGAGCCGGAGgctgcagcctgttatccct

						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
						
							GCTGCAGCCTGTTATCCCTCCACTGTCAGGAGCCGGAG

Sequences
Splice junction sequence	CCACTGTCAGGAGCCGGAGgctgcagcctgttatccct
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	GCTGCAGCCTGTTATCCCTCCACTGTCAGGAGCCGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.363507675

Conservation Information
Conserved circRNAs	NA
PMCS	0.363507675

			
						 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
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_14G050500_circ_g.29

Address

Any questions?

Supported by