Plant Circular RNA Database

Detail information of GLYMA_20G248000_circ_g.2

			
						 General Information
					
						CircRNA Name
						GLYMA_20G248000_circ_g.2
					
						ID in PlantcircBase
						gma_circ_007832
					
						Alias
						gma-circRNA2834
					
						Organism
						
							Glycine max						
					
						Position
						
							chr20: 47739184-47741408  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_20G248000						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							GLYMA_20G248000_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						flower bud
					
						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
						KRG93101:4
KRG93106:4
KRG93097:4
KRG93098:4
KRG93107:4
KRG93096:4
KRG93102:4
KRG93105:4
KRG93104:4
KRG93103:4
KRG93099:4
KRG93100:4

General Information
CircRNA Name	GLYMA_20G248000_circ_g.2
ID in PlantcircBase	gma_circ_007832
Alias	gma-circRNA2834
Organism	Glycine max
Position	chr20: 47739184-47741408 JBrowse»
Reference genome	v2.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	GLYMA_20G248000
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	GLYMA_20G248000_circ_g.1
Support reads	NA
Tissues	flower bud
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	KRG93101:4 KRG93106:4 KRG93097:4 KRG93098:4 KRG93107:4 KRG93096:4 KRG93102:4 KRG93105:4 KRG93104:4 KRG93103:4 KRG93099:4 KRG93100:4

			
						 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  
						
							TTATGAAGAGCTTCAGCCTCCCTAATTTTCATCTCTGGTGCTTCCATGGATTCTTCATAGGATT
CGGTAGAGTTTCCATGGCTTTGAAGTAAAGCTAAAGtttatcaaaccagccaggtcatccacag
acagggtgcattccttgcataacccatcagttattaggtcctctggggtttcagttccacgtat
agcaatta

									
								

					

						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
						
							TTTATCAAACCAGCCAGGTCATCCACAGACAGGGTGCATTCCTTGCATAACCCATCAGTTATTA
GGTCCTCTGGGGTTTCAGTTCCACGTATAGCAATTACCACAGATTGAAGTTGATGTAGAACCAC
AATAAAATATGCAGCTTCACACTTGACCTGGAATGGGTATCAAAAAGAACTTTATAAATAATTA
AATATAAATTAAGCCAGTATAATATAAAAACAGAATATTCATGATATCATACATAAATTAAGTT
TATTATCCTCTTAAGTTGGATAGAACTGAGTTTCCCCACATTTTAAAATTAAAAAATTATGATC
ATTTGGAATCAAAATACCAGGACATATATGGTTATATACAGATTAGTCCAAATGTAAAAAAGGT
GGCAGACAGTCAATTTGCATGATATGGGAAAGTAGCCCCCTGAACAAACCAAAATATAGACAAG
TTTATAAATATTTCTATCCTTACCAGTTCATTTGTTATGTTCATATTTATCAAATTAGTATATT
AAAAAATAAAAATCCACTTTTCAAAGAAACAGTGAATTCTATAGATGAGGTATCACAAGCCTAA
TGAGCAAGCTTTTCTTAAATTAAGATTGCAAAAGAAGATGAAGTCTGCTCTGAAAAGCCACACT
CAAACATATTTATTTTACAAACTTAGAGAGATTAGAGGAGCAATCATTTTCTCATAAACTATTT
ACTAGATATTTAGATGTAAGAAAGATAAATTACAAAAAATAAAAACATATACTATATCCTGCTT
AGCACACGCACACAAAAGAGCACGCTGGCTTCAATATCTATTAAGGGAAACAGCCTTACAAGTT
ACAAAGAGCATGGGCTAAATACCAAATAGAAGCCATAATTTGCTCAACCCCAATGTCTTCCCTT
CCTTGATTTTAACAAAAAAAAAAAAAAAAAACTTAAGGCTAAACAAAAGAATCATACTATTGCT
GGTTAGTGACATCTTCCTTTTGTTTATTATGAGTGTAGTTTGTTATTGATGACATGCTCCCTTC
AATAAAATTTAAACATAAATGGTGGCAACATCTTTTTAGTCCTCCAAATTCAAAGTTGTTTTTT
TAGTCCTTGAAATCCTCAAAATACTATTTTTAGTCCTTCTGCACAGCACGAGTCAAACATGGAA
TAAAAAATTCGCAATTTGTGACAATTTTTTACCCCCAAAATCTAATTTTCTATTTTATATTTTA
AAGTACACTTCTGGTGGTTAAAAACTATCATAATCAAGTCAGTAACCCCTCTTCATTTGTGTGA
AACTTAGTGAGCTTTTATACAGCATTTTATTATTTTGCATTTTTGTATGGTAAACCTGTGTCTC
CTATGACCAAAGCATTGTAGAGAACATTTGGATATTTAAATTTTCTAACCTGGCTGACTCGCCC
ATGTCTAAGCGCTTCTGGAGGCAAATTGACGTACTTTAGAAAGGCTGCAGCATGACCTCGCCAC
CAGTTATCACCATCCAGTACAGGTCGTCTAAGAAGATGTGAAATAGGAACATAAATCATATTGT
GCATAGATTTACTAAACCAAAATAGTACAAAATAATAAGTTTTCTTTTCTTAAGATGAAAGAAA
TATCAACACAGAGAAGAAAAAAGTTACAAAGATGGGGGAAAGTCCAAAAGTATCATTTTAGAGA
CACTGACTGGAAAGGAAAAAGTGGAGGATCAATCAAACCAGAGACAGTAGAGCCCTCCAAGCAT
GTAGCATATCTTGAATAAGCAATATACAAATTGGAGTTTATAGATCATTTCAAAGTTAACAAGT
ATCAAGACCTCCTTGACCACAAAGGTGTAATTAATATTCAACCAAATAACACGCAAATTAAAAG
GTTCAGGCCACTGAGAAAGTGAGAATTCAATTAAACAGGCCATAAAATTGAATATCCAACAAAA
TGCCACCTGTTTCGTGTCCAAGGAGACAAAATCCCTTGTCTATACAGCCATGCACAAGGAAATA
CAAATGGATTTCGTCCAACATCAAGCAATGGACCCTGCATCATTGAATGCAAGATAAATGGTCA
AAGCAAGTTAGTAAAAACAAAACATTAATTTGGAATAAGTTTATGATAGTAATACCGTGTACGC
AGCTTCAGCAAATTTATGAAGAGCTTCAGCCTCCCTAATTTTCATCTCTGGTGCTTCCATGGAT
TCTTCATAGGATTCGGTAGAGTTTCCATGGCTTTGAAGTAAAGCTAAAG
						
					

			
		

Sequences
Splice junction sequence	TTATGAAGAGCTTCAGCCTCCCTAATTTTCATCTCTGGTGCTTCCATGGATTCTTCATAGGATT CGGTAGAGTTTCCATGGCTTTGAAGTAAAGCTAAAGtttatcaaaccagccaggtcatccacag acagggtgcattccttgcataacccatcagttattaggtcctctggggtttcagttccacgtat agcaatta
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	TTTATCAAACCAGCCAGGTCATCCACAGACAGGGTGCATTCCTTGCATAACCCATCAGTTATTA GGTCCTCTGGGGTTTCAGTTCCACGTATAGCAATTACCACAGATTGAAGTTGATGTAGAACCAC AATAAAATATGCAGCTTCACACTTGACCTGGAATGGGTATCAAAAAGAACTTTATAAATAATTA AATATAAATTAAGCCAGTATAATATAAAAACAGAATATTCATGATATCATACATAAATTAAGTT TATTATCCTCTTAAGTTGGATAGAACTGAGTTTCCCCACATTTTAAAATTAAAAAATTATGATC ATTTGGAATCAAAATACCAGGACATATATGGTTATATACAGATTAGTCCAAATGTAAAAAAGGT GGCAGACAGTCAATTTGCATGATATGGGAAAGTAGCCCCCTGAACAAACCAAAATATAGACAAG TTTATAAATATTTCTATCCTTACCAGTTCATTTGTTATGTTCATATTTATCAAATTAGTATATT AAAAAATAAAAATCCACTTTTCAAAGAAACAGTGAATTCTATAGATGAGGTATCACAAGCCTAA TGAGCAAGCTTTTCTTAAATTAAGATTGCAAAAGAAGATGAAGTCTGCTCTGAAAAGCCACACT CAAACATATTTATTTTACAAACTTAGAGAGATTAGAGGAGCAATCATTTTCTCATAAACTATTT ACTAGATATTTAGATGTAAGAAAGATAAATTACAAAAAATAAAAACATATACTATATCCTGCTT AGCACACGCACACAAAAGAGCACGCTGGCTTCAATATCTATTAAGGGAAACAGCCTTACAAGTT ACAAAGAGCATGGGCTAAATACCAAATAGAAGCCATAATTTGCTCAACCCCAATGTCTTCCCTT CCTTGATTTTAACAAAAAAAAAAAAAAAAAACTTAAGGCTAAACAAAAGAATCATACTATTGCT GGTTAGTGACATCTTCCTTTTGTTTATTATGAGTGTAGTTTGTTATTGATGACATGCTCCCTTC AATAAAATTTAAACATAAATGGTGGCAACATCTTTTTAGTCCTCCAAATTCAAAGTTGTTTTTT TAGTCCTTGAAATCCTCAAAATACTATTTTTAGTCCTTCTGCACAGCACGAGTCAAACATGGAA TAAAAAATTCGCAATTTGTGACAATTTTTTACCCCCAAAATCTAATTTTCTATTTTATATTTTA AAGTACACTTCTGGTGGTTAAAAACTATCATAATCAAGTCAGTAACCCCTCTTCATTTGTGTGA AACTTAGTGAGCTTTTATACAGCATTTTATTATTTTGCATTTTTGTATGGTAAACCTGTGTCTC CTATGACCAAAGCATTGTAGAGAACATTTGGATATTTAAATTTTCTAACCTGGCTGACTCGCCC ATGTCTAAGCGCTTCTGGAGGCAAATTGACGTACTTTAGAAAGGCTGCAGCATGACCTCGCCAC CAGTTATCACCATCCAGTACAGGTCGTCTAAGAAGATGTGAAATAGGAACATAAATCATATTGT GCATAGATTTACTAAACCAAAATAGTACAAAATAATAAGTTTTCTTTTCTTAAGATGAAAGAAA TATCAACACAGAGAAGAAAAAAGTTACAAAGATGGGGGAAAGTCCAAAAGTATCATTTTAGAGA CACTGACTGGAAAGGAAAAAGTGGAGGATCAATCAAACCAGAGACAGTAGAGCCCTCCAAGCAT GTAGCATATCTTGAATAAGCAATATACAAATTGGAGTTTATAGATCATTTCAAAGTTAACAAGT ATCAAGACCTCCTTGACCACAAAGGTGTAATTAATATTCAACCAAATAACACGCAAATTAAAAG GTTCAGGCCACTGAGAAAGTGAGAATTCAATTAAACAGGCCATAAAATTGAATATCCAACAAAA TGCCACCTGTTTCGTGTCCAAGGAGACAAAATCCCTTGTCTATACAGCCATGCACAAGGAAATA CAAATGGATTTCGTCCAACATCAAGCAATGGACCCTGCATCATTGAATGCAAGATAAATGGTCA AAGCAAGTTAGTAAAAACAAAACATTAATTTGGAATAAGTTTATGATAGTAATACCGTGTACGC AGCTTCAGCAAATTTATGAAGAGCTTCAGCCTCCCTAATTTTCATCTCTGGTGCTTCCATGGAT TCTTCATAGGATTCGGTAGAGTTTCCATGGCTTTGAAGTAAAGCTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.184437307

Conservation Information
Conserved circRNAs	NA
PMCS	0.184437307

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							47741357-47741365(-)
						
						Potential amino acid sequence
						
							MEAPEMKIREAEALHKFAEAAYTGPLLDVGRNPFVFPCAWLYRQGILSPWTRNRRPVLDGDNWW
RGHAAAFLKYVNLPPEALRHGRVSQVKCEAAYFIVVLHQLQSVVIAIRGTETPEDLITDGLCKE
CTLSVDDLAGLINFSFTSKPWKLYRIL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	47741357-47741365(-)
Potential amino acid sequence	MEAPEMKIREAEALHKFAEAAYTGPLLDVGRNPFVFPCAWLYRQGILSPWTRNRRPVLDGDNWW RGHAAAFLKYVNLPPEALRHGRVSQVKCEAAYFIVVLHQLQSVVIAIRGTETPEDLITDGLCKE CTLSVDDLAGLINFSFTSKPWKLYRIL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_20G248000_circ_g.2

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