Plant Circular RNA Database

Detail information of GLYMA_16G045000_circ_ag.1

			
						 General Information
					
						CircRNA Name
						GLYMA_16G045000_circ_ag.1
					
						ID in PlantcircBase
						gma_circ_007304
					
						Alias
						gma-circRNA2283
					
						Organism
						
							Glycine max						
					
						Position
						
							chr16: 4273910-4278213  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							GLYMA_16G045000_circ_g.1 GLYMA_16G045000_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						flower bud
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	GLYMA_16G045000_circ_ag.1
ID in PlantcircBase	gma_circ_007304
Alias	gma-circRNA2283
Organism	Glycine max
Position	chr16: 4273910-4278213 JBrowse»
Reference genome	v2.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	GLYMA_16G045000_circ_g.1 GLYMA_16G045000_circ_g.2
Support reads	NA
Tissues	flower bud
Exon boundary	NA-NA "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	NA

			
						 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  
						
							TAAAAAGCAGTGACTGTGCCAGCTGAATCGCCAGGAACCATCTTTATGTTCATGCTGAAGTGAC
CAAACAAGTATGACCCTTTGGACTGGAAGCCAGTACcagtgtacttgtcaagatgaagctgaat
gtcagaaccaccattgaaatatttgatgtgatcaaaggcccatgtgggcacgtagtttcggcca
aattgtac

									
								

					

						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
						
							CAGTGTACTTGTCAAGATGAAGCTGAATGTCAGAACCACCATTGAAATATTTGATGTGATCAAA
GGCCCATGTGGGCACGTAGTTTCGGCCAAATTGTACATCCACTGGCCTGCGTGGGTTGGCACAG
AGTGCTGCAGAGGCCAGTGATGCCAAAATCACACACACCGTCCACATAGAAGAAGAAGAACCCA
TTTTTTCTGTGTGCCTCAGTTTGTGAAATCTAGTGGCTAATGCAGGGTATTTATAAGCACTAGA
CCCTGCCCTAAAACCCTTGTTCCTCTCTCTTTCCCTCTCTACTCTGTATCCTTTTAAATATAAT
TTAAATTTATGTAAATACATGGTGCATCATTTGAAAAAAAAAAATCAATTTTATAGTATAATGA
TTAACAATATATTTAAGATTTGTTTTTTATATCAGGGTGAGAGAGGGGTTATATCAGGATGAGA
GAGTTGGGGGAGGACAGAGAATCCTGCATTTTGCTTTAGTTAGGATTTAGTGTTGGAAACAACT
AATATTGAGACACTATTACGCGTTTATTTTAATTGACTGCTAGCTAATCTGCCTAATCATCAAT
CATTTTCATATTAGAGAATTGTTATTTATTTACAATAATAATACATTTTCGCATGCATTTTAGG
CTATTTTTTAGATCACTTCGAATAATTGTTTCCCGACACTTGATGATTATTTACTCCAATTATA
ATTTTTTTTATTATATTTAACATAATTTTTAATGGGAAAAATATTGAGATAAGATTTAGAGACA
AAAATGAATGATGAGGTTTTTGGTACAGAAATAAATGATCAGTTTTTTTTTTAACCATAGGGGA
TAATGGTTTACATGGAAGAGCCAATTATTCTTTGTAAGTTAATTATGAATGTCTTAATACTCAT
TGCATATCATAGTGTCAATTATTAATGTCTAAATACTCATTGTAAGTTTCTTTTATTCGCTATT
GCTTTAGATTTACATTTACATTTTTTTTTTCTTCTTAAAATTGAACACATGTAGGTTCTTTAGT
ACCTTCATTATTTGAGCTTTCATTATTTTACCTTGGAAAAAAAAGTGCTTCCTCTTCTTGCTTA
ATTCTACCTTACTGTGTTTAAGATAGTTTGTAATTAGCATCATATGTGCTATATTTAAAGTCAA
CATTTTTTTGTATGTTTTTTCTTGTGATTACTTAGTTTCTTCATATCTCTATTTACTATATATC
CATACAATTTATACAAATTGATGTTAACAACTTGTGTTTGTGTTTTAATTTTCTTGTTTTGAGA
GAAATTTTCACTATTCTAATAATTTACTATGTTAGCACAAACACTCATCATGTATTCCGTATTC
CCACTTTACTTTAGAAATTCAATATGTTGAAGTTCTTCCTTTAATTTATTTAGAGCCAAATAAA
TATAAACAACAATCATAATAGGAAAAGTAAAAGAGAGATAATAGGATTATAATATAGGACTAGA
AATTAAGTAAGTTGACTCCTAACATATATATTCACCATGATTGTAATATGCACAATGATGATGA
TCTAGAAGCATTTAAAAAACTTAAATTTTGATATATTTCAATCCTGACATTTAAATTAACCCAT
TTAACTGATGTTAAATATAGTGGAGTTAAAAGATTAAGATAATAATAAAAAAATCAAATAGTGA
GAACTAAGTGGAAGAGCAAACATACTAATTATAAATTTAATATGTGACAAAAAAATTCCTCTAA
ATTTTAATGTTCTTTCACATTATTATCTACAAAAAAGTGTAGAAAATCCTATTCACAATTGACC
ATCTCTTTTAAGGATGACAAGTAATCGAAAATAATAACTAATTCCTAATCTAGCCTATACTTTT
TCAAAAAGTAGTTTAAATACTTGTATCTCTATAAAAAAAATAAAAGAGTCCTGAGTATATCATT
TAGTGTCTCAATTTTTTTGAAAACCTAATATACAAGTATACAATATCGGAAGTATTATTATTAA
AGTTTAATGTTCATGCAAAAGTGTAAAACAGTTTTATATCGTCATTCAATCATAAATTATCATT
TAAATTACTTTAAGATAATTATTTTAAAAGTCAACAAACTTATCATACATGATAAATTGTGATT
GGATGATTATGTAAAACGTTTTACACTCATACATAACGTTTATTTTCTCTTATTAGTATGGAAT
GAAATAGATCATCATAAAAAGTTCACCCATAAACATAAATATTGAATCTCTCCCTCGTTTGGAT
ATTAGTAAACCTAAAACAAAGTTCATATAATGATCCAAGATTCACTATGTTTTAAGAGAGGGTT
ATATAAATCATTAGGGGACTAATTATAAGATTGGTTGGATAATAAAAGAAAAATGAAAAGAGAA
AAAGAACATGAATTCAATTTTCCTGTTAATAAACAACTAATAATTAATCATTAATATTTGCTGA
TTAAAAAAATATTAAGATGAACTTTAGGTTTAACTTGTCTACAAGTTACACATCTATCATAAAA
TCTCTGGACATTTTATTTCACATTGACAAATAAGTTTTATTAGAATATTGTTATATCTCCAAAA
TCTCCTCTCTCTCTAAGTCAAGAGTAACAGTTTCTCTTTAATTGCACCGGTTTTGTCATTTTAA
TTTATCCATTTTGATTCTTTCTTTCATGAATCAATTGAAGTAAACCCAGCGTTTTTATTAATCT
AAATGGATATTCACTTTATACTAAAAGGAGCAAATTAAAATAACGAGGAATTAATTAATGGACC
TCGAGATCGGAAATAGATGCAGCAACTAGCTGTTGTTGTTACCATTAAGGAATAGAACATGCAC
TGAGTATAATTTTAAGAATTCAATATTGGATTGGTGGTGCCAAGGCTAAGATTAAGAATGAGTA
AAGTAGAATTACACAACATATATAATTTTATTATAGAGGCTCTGCTCTGTATTCAAACCTCACT
CCTCAATTACACAGCTCAAACAATACAATGATAATAAATAATGGTAGGAATAAAGTATATGGTA
AATGATGAATCAATAATACAATAAGAAACTTATGGTAGCAACCATAAACATAGTACTACATGTG
AATTTAAATGTCACGGTTTCTTCTACATTCAGGTGGAAGCTGAGGGTAGCGGCTTCTGTCAGTG
CAGTAGTTGTAGATGGTGTATTTCCTGCGCACCCACCTGAGCCATCTCCATTGAGAAGCATCAA
GATCATGATACTGTGCTTGATCCCACCACCTCTTGCCTTGTGTAGCACAGAACTTTGCATTCAC
TGAAGCTTCACACCCATCAACGTGGAACCCTTTGTATTCTGCTATGAAGGGTGCTTTGGACCAA
TCTGTTTTCTCCAAACCACCCCTTGTGGCCCAGTCATCAGCATTCCACAAGCTGTTGTACACCT
TCATGGGTTGGTCAAAGGGGAACTTCACTCCCAAGCCCTTTAGGTTTTTGAACACCCTTATTGG
GATGTTATCCACTAGGAACCTGTGTGCAAACCACAATTTGATTTATTATGATGTTATTTTTTTG
GTTGATAACAATAATAAAATTTAGATAAGGTGAACCTCAATATTCATCAGGATCAAAACAGGAC
TTTAAGCTCAACCAACCTTTACAAAGATACTTATAAATTATTTAATAATAAGATTCTTAAAATT
GACAATGAGATTTCAACTCACGTTCTTGTGGAATTTGAGTACAACCCTTATCAACTCTATCACT
TTTGTTAGTTTATTATGTTATTAAGCATAGTATAGTACTCATTGACAAGATGTGGGGTTTTGAG
GGGACTACTTACACAATTTGATACATGTTCCACAGCACAGAGTATCTGTGGTATGCTTTTGTGG
GATCAAACCAGAGAAAGATTCTTTGCTCTCTGTCACCCTTGCCTCCGGTGAACACATTTGTTTG
CAAAATGTAAGGTTGTCCTGTTCTGTTCCCCAAGAACTCAAAATCTATCTCATCGTGCTCCGCA
TTTTGAGAAGATAACTATAGGATTCCAATCATAGCAAATAAACAAGGTTGAAGCAAAAATTTGA
AAACTAGTATATATAATTTAATTAGAATATTATTAATAGTATAAAGTTTTTATACTATTGTCTA
ATTATGAATTGTCGCCTGTGATAAAATTGATCACTTTTGTAATAATTATTTAAAAAAATTATAT
TTAGAGTATGCAATGTATTAAAATAGAAAGAAATTGTGCATACATAAAAAGCAGTGACTGTGCC
AGCTGAATCGCCAGGAACCATCTTTATGTTCATGCTGAAGTGACCAAACAAGTATGACCCTTTG
GACTGGAAGCCAGTAC
						
					

			
		

Sequences
Splice junction sequence	TAAAAAGCAGTGACTGTGCCAGCTGAATCGCCAGGAACCATCTTTATGTTCATGCTGAAGTGAC CAAACAAGTATGACCCTTTGGACTGGAAGCCAGTACcagtgtacttgtcaagatgaagctgaat gtcagaaccaccattgaaatatttgatgtgatcaaaggcccatgtgggcacgtagtttcggcca aattgtac
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	CAGTGTACTTGTCAAGATGAAGCTGAATGTCAGAACCACCATTGAAATATTTGATGTGATCAAA GGCCCATGTGGGCACGTAGTTTCGGCCAAATTGTACATCCACTGGCCTGCGTGGGTTGGCACAG AGTGCTGCAGAGGCCAGTGATGCCAAAATCACACACACCGTCCACATAGAAGAAGAAGAACCCA TTTTTTCTGTGTGCCTCAGTTTGTGAAATCTAGTGGCTAATGCAGGGTATTTATAAGCACTAGA CCCTGCCCTAAAACCCTTGTTCCTCTCTCTTTCCCTCTCTACTCTGTATCCTTTTAAATATAAT TTAAATTTATGTAAATACATGGTGCATCATTTGAAAAAAAAAAATCAATTTTATAGTATAATGA TTAACAATATATTTAAGATTTGTTTTTTATATCAGGGTGAGAGAGGGGTTATATCAGGATGAGA GAGTTGGGGGAGGACAGAGAATCCTGCATTTTGCTTTAGTTAGGATTTAGTGTTGGAAACAACT AATATTGAGACACTATTACGCGTTTATTTTAATTGACTGCTAGCTAATCTGCCTAATCATCAAT CATTTTCATATTAGAGAATTGTTATTTATTTACAATAATAATACATTTTCGCATGCATTTTAGG CTATTTTTTAGATCACTTCGAATAATTGTTTCCCGACACTTGATGATTATTTACTCCAATTATA ATTTTTTTTATTATATTTAACATAATTTTTAATGGGAAAAATATTGAGATAAGATTTAGAGACA AAAATGAATGATGAGGTTTTTGGTACAGAAATAAATGATCAGTTTTTTTTTTAACCATAGGGGA TAATGGTTTACATGGAAGAGCCAATTATTCTTTGTAAGTTAATTATGAATGTCTTAATACTCAT TGCATATCATAGTGTCAATTATTAATGTCTAAATACTCATTGTAAGTTTCTTTTATTCGCTATT GCTTTAGATTTACATTTACATTTTTTTTTTCTTCTTAAAATTGAACACATGTAGGTTCTTTAGT ACCTTCATTATTTGAGCTTTCATTATTTTACCTTGGAAAAAAAAGTGCTTCCTCTTCTTGCTTA ATTCTACCTTACTGTGTTTAAGATAGTTTGTAATTAGCATCATATGTGCTATATTTAAAGTCAA CATTTTTTTGTATGTTTTTTCTTGTGATTACTTAGTTTCTTCATATCTCTATTTACTATATATC CATACAATTTATACAAATTGATGTTAACAACTTGTGTTTGTGTTTTAATTTTCTTGTTTTGAGA GAAATTTTCACTATTCTAATAATTTACTATGTTAGCACAAACACTCATCATGTATTCCGTATTC CCACTTTACTTTAGAAATTCAATATGTTGAAGTTCTTCCTTTAATTTATTTAGAGCCAAATAAA TATAAACAACAATCATAATAGGAAAAGTAAAAGAGAGATAATAGGATTATAATATAGGACTAGA AATTAAGTAAGTTGACTCCTAACATATATATTCACCATGATTGTAATATGCACAATGATGATGA TCTAGAAGCATTTAAAAAACTTAAATTTTGATATATTTCAATCCTGACATTTAAATTAACCCAT TTAACTGATGTTAAATATAGTGGAGTTAAAAGATTAAGATAATAATAAAAAAATCAAATAGTGA GAACTAAGTGGAAGAGCAAACATACTAATTATAAATTTAATATGTGACAAAAAAATTCCTCTAA ATTTTAATGTTCTTTCACATTATTATCTACAAAAAAGTGTAGAAAATCCTATTCACAATTGACC ATCTCTTTTAAGGATGACAAGTAATCGAAAATAATAACTAATTCCTAATCTAGCCTATACTTTT TCAAAAAGTAGTTTAAATACTTGTATCTCTATAAAAAAAATAAAAGAGTCCTGAGTATATCATT TAGTGTCTCAATTTTTTTGAAAACCTAATATACAAGTATACAATATCGGAAGTATTATTATTAA AGTTTAATGTTCATGCAAAAGTGTAAAACAGTTTTATATCGTCATTCAATCATAAATTATCATT TAAATTACTTTAAGATAATTATTTTAAAAGTCAACAAACTTATCATACATGATAAATTGTGATT GGATGATTATGTAAAACGTTTTACACTCATACATAACGTTTATTTTCTCTTATTAGTATGGAAT GAAATAGATCATCATAAAAAGTTCACCCATAAACATAAATATTGAATCTCTCCCTCGTTTGGAT ATTAGTAAACCTAAAACAAAGTTCATATAATGATCCAAGATTCACTATGTTTTAAGAGAGGGTT ATATAAATCATTAGGGGACTAATTATAAGATTGGTTGGATAATAAAAGAAAAATGAAAAGAGAA AAAGAACATGAATTCAATTTTCCTGTTAATAAACAACTAATAATTAATCATTAATATTTGCTGA TTAAAAAAATATTAAGATGAACTTTAGGTTTAACTTGTCTACAAGTTACACATCTATCATAAAA TCTCTGGACATTTTATTTCACATTGACAAATAAGTTTTATTAGAATATTGTTATATCTCCAAAA TCTCCTCTCTCTCTAAGTCAAGAGTAACAGTTTCTCTTTAATTGCACCGGTTTTGTCATTTTAA TTTATCCATTTTGATTCTTTCTTTCATGAATCAATTGAAGTAAACCCAGCGTTTTTATTAATCT AAATGGATATTCACTTTATACTAAAAGGAGCAAATTAAAATAACGAGGAATTAATTAATGGACC TCGAGATCGGAAATAGATGCAGCAACTAGCTGTTGTTGTTACCATTAAGGAATAGAACATGCAC TGAGTATAATTTTAAGAATTCAATATTGGATTGGTGGTGCCAAGGCTAAGATTAAGAATGAGTA AAGTAGAATTACACAACATATATAATTTTATTATAGAGGCTCTGCTCTGTATTCAAACCTCACT CCTCAATTACACAGCTCAAACAATACAATGATAATAAATAATGGTAGGAATAAAGTATATGGTA AATGATGAATCAATAATACAATAAGAAACTTATGGTAGCAACCATAAACATAGTACTACATGTG AATTTAAATGTCACGGTTTCTTCTACATTCAGGTGGAAGCTGAGGGTAGCGGCTTCTGTCAGTG CAGTAGTTGTAGATGGTGTATTTCCTGCGCACCCACCTGAGCCATCTCCATTGAGAAGCATCAA GATCATGATACTGTGCTTGATCCCACCACCTCTTGCCTTGTGTAGCACAGAACTTTGCATTCAC TGAAGCTTCACACCCATCAACGTGGAACCCTTTGTATTCTGCTATGAAGGGTGCTTTGGACCAA TCTGTTTTCTCCAAACCACCCCTTGTGGCCCAGTCATCAGCATTCCACAAGCTGTTGTACACCT TCATGGGTTGGTCAAAGGGGAACTTCACTCCCAAGCCCTTTAGGTTTTTGAACACCCTTATTGG GATGTTATCCACTAGGAACCTGTGTGCAAACCACAATTTGATTTATTATGATGTTATTTTTTTG GTTGATAACAATAATAAAATTTAGATAAGGTGAACCTCAATATTCATCAGGATCAAAACAGGAC TTTAAGCTCAACCAACCTTTACAAAGATACTTATAAATTATTTAATAATAAGATTCTTAAAATT GACAATGAGATTTCAACTCACGTTCTTGTGGAATTTGAGTACAACCCTTATCAACTCTATCACT TTTGTTAGTTTATTATGTTATTAAGCATAGTATAGTACTCATTGACAAGATGTGGGGTTTTGAG GGGACTACTTACACAATTTGATACATGTTCCACAGCACAGAGTATCTGTGGTATGCTTTTGTGG GATCAAACCAGAGAAAGATTCTTTGCTCTCTGTCACCCTTGCCTCCGGTGAACACATTTGTTTG CAAAATGTAAGGTTGTCCTGTTCTGTTCCCCAAGAACTCAAAATCTATCTCATCGTGCTCCGCA TTTTGAGAAGATAACTATAGGATTCCAATCATAGCAAATAAACAAGGTTGAAGCAAAAATTTGA AAACTAGTATATATAATTTAATTAGAATATTATTAATAGTATAAAGTTTTTATACTATTGTCTA ATTATGAATTGTCGCCTGTGATAAAATTGATCACTTTTGTAATAATTATTTAAAAAAATTATAT TTAGAGTATGCAATGTATTAAAATAGAAAGAAATTGTGCATACATAAAAAGCAGTGACTGTGCC AGCTGAATCGCCAGGAACCATCTTTATGTTCATGCTGAAGTGACCAAACAAGTATGACCCTTTG GACTGGAAGCCAGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.010261766

Conservation Information
Conserved circRNAs	NA
PMCS	1.010261766

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							gma-miR1533 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						cytoplasmic male sterility

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	gma-miR1533
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	cytoplasmic male sterility

			
						 Other Information
					
						References
						Chen et al., 2018

circRNA

Detail information of GLYMA_16G045000_circ_ag.1

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