Plant Circular RNA Database

Detail information of GLYMA_10G251900_circ_g.3

			
						 General Information
					
						CircRNA Name
						GLYMA_10G251900_circ_g.3
					
						ID in PlantcircBase
						gma_circ_008847
					
						Alias
						novel_circ_000197
					
						Organism
						
							Glycine max						
					
						Position
						
							chr10: 47990057-47990284  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_10G251900						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_10G251900_circ_g.2 GLYMA_10G251900_circ_g.4 						
					
						Support reads
						NA
					
						Tissues
						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  
						
							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
						KRH35592:1
KRH35590:1
KRH35589:1
KRH35591:1

General Information
CircRNA Name	GLYMA_10G251900_circ_g.3
ID in PlantcircBase	gma_circ_008847
Alias	novel_circ_000197
Organism	Glycine max
Position	chr10: 47990057-47990284 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	GLYMA_10G251900
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_10G251900_circ_g.2 GLYMA_10G251900_circ_g.4
Support reads	NA
Tissues	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	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	KRH35592:1 KRH35590:1 KRH35589:1 KRH35591:1

			
						 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  
						
							CGTTGTCAATGGTGTCAGAGCTTTCGACCTCTAGGGTTATGGTTTTGCCAGTGAGAGTCTTGAC
GAAGATCTGCATGCCACCACGGAGACGAAGGACAAGgtgaagggttgattccttctggatgttg
tagtcggcgagggtgcgcccgtcctcaagttgctttccggcgaagatgagacgttgctggtctg
gggggatt

						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
						
							GTGAAGGGTTGATTCCTTCTGGATGTTGTAGTCGGCGAGGGTGCGCCCGTCCTCAAGTTGCTTT
CCGGCGAAGATGAGACGTTGCTGGTCTGGGGGGATTCCCTCCTTGTCCTGGATCTTGGCCTTGA
CGTTGTCAATGGTGTCAGAGCTTTCGACCTCTAGGGTTATGGTTTTGCCAGTGAGAGTCTTGAC
GAAGATCTGCATGCCACCACGGAGACGAAGGACAAG

Sequences
Splice junction sequence	CGTTGTCAATGGTGTCAGAGCTTTCGACCTCTAGGGTTATGGTTTTGCCAGTGAGAGTCTTGAC GAAGATCTGCATGCCACCACGGAGACGAAGGACAAGgtgaagggttgattccttctggatgttg tagtcggcgagggtgcgcccgtcctcaagttgctttccggcgaagatgagacgttgctggtctg gggggatt
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	GTGAAGGGTTGATTCCTTCTGGATGTTGTAGTCGGCGAGGGTGCGCCCGTCCTCAAGTTGCTTT CCGGCGAAGATGAGACGTTGCTGGTCTGGGGGGATTCCCTCCTTGTCCTGGATCTTGGCCTTGA CGTTGTCAATGGTGTCAGAGCTTTCGACCTCTAGGGTTATGGTTTTGCCAGTGAGAGTCTTGAC GAAGATCTGCATGCCACCACGGAGACGAAGGACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_013225* osa_circ_013224* osa_circ_013229* zma_circ_004739 
osa_circ_013230* zma_circ_004734 ghi_circ_001112* zma_circ_004701 
zma_circ_004669 zma_circ_004736 ath_circ_039519 zma_circ_004703 
zma_circ_004687 zma_circ_004741 zma_circ_004705 zma_circ_004656 
zma_circ_004737 zma_circ_004747 zma_circ_004690 zma_circ_008314 
zma_circ_004749 zma_circ_004723 						
					
						PMCS
						1.818976901

Conservation Information
Conserved circRNAs	osa_circ_013225* osa_circ_013224* osa_circ_013229* zma_circ_004739 osa_circ_013230* zma_circ_004734 ghi_circ_001112* zma_circ_004701 zma_circ_004669 zma_circ_004736 ath_circ_039519 zma_circ_004703 zma_circ_004687 zma_circ_004741 zma_circ_004705 zma_circ_004656 zma_circ_004737 zma_circ_004747 zma_circ_004690 zma_circ_008314 zma_circ_004749 zma_circ_004723
PMCS	1.818976901

			
						 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
						lv et al., 2020

circRNA

Detail information of GLYMA_10G251900_circ_g.3

Address

Any questions?

Supported by