Plant Circular RNA Database

Detail information of GLYMA_13G104300_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_13G104300_circ_g.1
					
						ID in PlantcircBase
						gma_circ_009084
					
						Alias
						circRNA2967
					
						Organism
						
							Glycine max						
					
						Position
						
							chr13: 21899280-21899522  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI, CIRCexplorer
					
						Parent gene
						
							GLYMA_13G104300						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						pod
					
						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
						KRH19165:1
KRH19160:1
KRH19171:1
KRH19164:1
KRH19163:1
KRH19158:1
KRH19159:1
KRH19162:1
KRH19172:1
KRH19166:1
KRH19168:1
KRH19173:1
KRH19174:1
KRH19161:1
KRH19169:1
KRH19167:1
KRH19175:1
KRH19170:1

General Information
CircRNA Name	GLYMA_13G104300_circ_g.1
ID in PlantcircBase	gma_circ_009084
Alias	circRNA2967
Organism	Glycine max
Position	chr13: 21899280-21899522 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	CIRI, CIRCexplorer
Parent gene	GLYMA_13G104300
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	pod
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	KRH19165:1 KRH19160:1 KRH19171:1 KRH19164:1 KRH19163:1 KRH19158:1 KRH19159:1 KRH19162:1 KRH19172:1 KRH19166:1 KRH19168:1 KRH19173:1 KRH19174:1 KRH19161:1 KRH19169:1 KRH19167:1 KRH19175:1 KRH19170:1

			
						 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  
						
							CTCGGACTTGGAGATTTGGATGGTTCAATGTCTTTAATCTTCTGAGGGGATGGAGCTGTTGTAG
AAGGTGGAAATGTCTTTGGAGGCTTATAGAATGGTCctggagcagttggtgtagagaaaggagg
cctaacagtaggcgcttccctttgaggtggacttgttttaacaggtggtggcttgttcccttga
actgctga

						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
						
							CTGGAGCAGTTGGTGTAGAGAAAGGAGGCCTAACAGTAGGCGCTTCCCTTTGAGGTGGACTTGT
TTTAACAGGTGGTGGCTTGTTCCCTTGAACTGCTGATGGCAAGGGAACAACCGCATATGGTGGT
GATAATGCTATGGTGCTCGGACTTGGAGATTTGGATGGTTCAATGTCTTTAATCTTCTGAGGGG
ATGGAGCTGTTGTAGAAGGTGGAAATGTCTTTGGAGGCTTATAGAATGGTC

Sequences
Splice junction sequence	CTCGGACTTGGAGATTTGGATGGTTCAATGTCTTTAATCTTCTGAGGGGATGGAGCTGTTGTAG AAGGTGGAAATGTCTTTGGAGGCTTATAGAATGGTCctggagcagttggtgtagagaaaggagg cctaacagtaggcgcttccctttgaggtggacttgttttaacaggtggtggcttgttcccttga actgctga
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	CTGGAGCAGTTGGTGTAGAGAAAGGAGGCCTAACAGTAGGCGCTTCCCTTTGAGGTGGACTTGT TTTAACAGGTGGTGGCTTGTTCCCTTGAACTGCTGATGGCAAGGGAACAACCGCATATGGTGGT GATAATGCTATGGTGCTCGGACTTGGAGATTTGGATGGTTCAATGTCTTTAATCTTCTGAGGGG ATGGAGCTGTTGTAGAAGGTGGAAATGTCTTTGGAGGCTTATAGAATGGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.301561934

Conservation Information
Conserved circRNAs	NA
PMCS	0.301561934

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21899401-21899417(-)
						
						Potential amino acid sequence
						
							MRLFPCHQQFKGTSHHLLKQVHLKGKRLLLGLLSLHQLLQDHSISLQRHFHLLQQLHPLRRLKT
LNHPNLQVRAP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21899401-21899417(-)
Potential amino acid sequence	MRLFPCHQQFKGTSHHLLKQVHLKGKRLLLGLLSLHQLLQDHSISLQRHFHLLQQLHPLRRLKT LNHPNLQVRAP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021a

circRNA

Detail information of GLYMA_13G104300_circ_g.1

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