Plant Circular RNA Database

Detail information of GLYMA_16G031600_circ_g.1

			
						 General Information
					
						CircRNA Name
						GLYMA_16G031600_circ_g.1
					
						ID in PlantcircBase
						gma_circ_004244
					
						Alias
						Gm16circRNA2255
					
						Organism
						
							Glycine max						
					
						Position
						
							chr16: 2977574-2979344  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Tophat, CIRI
					
						Parent gene
						
							GLYMA_16G031600						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							GLYMA_16G031600_circ_ag.1 						
					
						Support reads
						NA
					
						Tissues
						stem
					
						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  
						
							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
						KRH06574:2
KRH06573:2
KRH06572:2
KRH06575:2
KRH06576:2

General Information
CircRNA Name	GLYMA_16G031600_circ_g.1
ID in PlantcircBase	gma_circ_004244
Alias	Gm16circRNA2255
Organism	Glycine max
Position	chr16: 2977574-2979344 JBrowse»
Reference genome	v2.0.38
Type	e-circRNA
Identification method	Tophat, CIRI
Parent gene	GLYMA_16G031600
Parent gene annotation	hypothetical protein
Parent gene strand	+
Alternative splicing	GLYMA_16G031600_circ_ag.1
Support reads	NA
Tissues	stem
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	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	KRH06574:2 KRH06573:2 KRH06572:2 KRH06575:2 KRH06576:2

			
						 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  
						
							AGACAAGTTGCTAGGAGTTCAATTAAAGAGCGGGTACTCAGATGTCATGCCATTGGAAATTGAT
CTCAAGTCTACCATACGGAAGGCATTTCTAGCAGAGcttttggagtatgcacgaagtgaatcat
atcttattctccgcgatagcccagtacaaaagatatggcatggctcactgtcgatcccagactc
gtgcttca

									
								

					

						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
						
							CTTTTGGAGTATGCACGAAGTGAATCATATCTTATTCTCCGCGATAGCCCAGTACAAAAGATAT
GGCATGGCTCACTGTCGATCCCAGACTCGTGCTTCAGTAACTTGGGCACCTTGATTGTTGGCGG
CTGCCAATTTTTATCCGATGCAGTGCTACCCTTCAATTTACTTCCTTTATTACCTAAATTGGAA
GAATTGGAAGTTAAAAACTGTGAATATGTGAAAACCATATTTGATGTGAAGTATATAACCCAAG
ACAGAAAAATGACAACTATGGGAGCAACCAGCATCCCCCTCCCTTTTCCCCTTAAGAAATTGAC
TTTATCGGAGCTGCCAAATCTGGAGAATGTTTGGAATGAACATCCTCATAGAATTCCAAGGATG
CAACTTTTACAAGAAGTATATGTTGACAATTGTAAACGCCTTGCTAGTGTGTTTCCCACATCGG
TAGCCAAAGATCTTCTGAAACTTGAAAATCTAGTTGTGAAACACTGTGAGGGGTTGATGGCAGT
TGTTGCAGAGCATAATGCAGATCCAAAAGGAACAAATCTAGAGCTAACGTTCCCCAGTGTGAAG
TCATTGACGCTATGGGATTTGCCGAAGTTCAACTATAATGGTATATATTGCATTCATGATGCAA
CAAAAATAATTGAGGTTCGAACTTTATTCTCATTGATTCTTACTCATGTCATTTTACTTTATCA
TATATCGTGTGTTAAAGTTGCTCAAATCTTTATAAACAATCTCCTAGCAACCATATAAGATTTT
TCATTATTTTCTTCTCCAAAGAACTACTACAAAAACTCCCTATCTCATTTATATATATGGTTTT
TAAGTAAACTTTTTTCTTTTAAATTGACTTGTGTGCACCTTTTTTATTTTTTAAATAGTTAATT
GTCATCAATTATCAGACATCTTTTAGCGTTGTAGTTCATTATTTCAATTATATATAAAAGAGCT
GGATCTATAACTGCCCTAACCAACCTGTGTTTGCTTGGTTATTGGTTTCTCTTCATAGCTTACA
CCCAACTTACAACATCTAACACTCGGTCAAAACGAACTCAAGATGATTTTGCATGGAGAAATTC
AGGGGAACCATTTAAACAAGTTAAAAGTTCTAACTCTGTGCTTTCATGTTGAGTCCGATGTATT
TCCACATGGATTTCTACAACCGGTGCCTAATATAGAGGAGCTTGTGGTGTGTGATGGATCCTTC
AAGGAGATTTTCTGCCTTCAAAGTCCTAATGTGGATGATACTACTCTCCTATCACAACTGAAAG
TGTTACGCTTGGAGTCCCTTCCAGAGCTCGTTTCCATTGGGTCACTAAATTTGGTACCATGCAC
AATGTCTTTCTCCAATCTGACAAAGTTGAAAGTAAAAAGTTGCAATAGCCTGCTATGTTTGTTC
ACATCCTCAACAGCCAAAAATTTAGCTCAACTCCAAAATATGGAGATAGAATTTTGTGAATCAA
TTAAAGAGATAGTGTCTAAGGAGGGGGATGAATCACATGAGGATGAGATAACATTTCCGCAGCT
CAATTGTTTGGTACTTAAAGACTTACCAGATCTCAGAAGCTTCTACGAAGGGAGTTTAAGTTTC
CCATCTTTGGAGAAATTGTCAGTAATCAAATGCCACGGGATGGAAACTTTATGTCCGGGTACCC
TAAAAGCAGACAAGTTGCTAGGAGTTCAATTAAAGAGCGGGTACTCAGATGTCATGCCATTGGA
AATTGATCTCAAGTCTACCATACGGAAGGCATTTCTAGCAGAG
						
					

			
		

Sequences
Splice junction sequence	AGACAAGTTGCTAGGAGTTCAATTAAAGAGCGGGTACTCAGATGTCATGCCATTGGAAATTGAT CTCAAGTCTACCATACGGAAGGCATTTCTAGCAGAGcttttggagtatgcacgaagtgaatcat atcttattctccgcgatagcccagtacaaaagatatggcatggctcactgtcgatcccagactc gtgcttca
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	CTTTTGGAGTATGCACGAAGTGAATCATATCTTATTCTCCGCGATAGCCCAGTACAAAAGATAT GGCATGGCTCACTGTCGATCCCAGACTCGTGCTTCAGTAACTTGGGCACCTTGATTGTTGGCGG CTGCCAATTTTTATCCGATGCAGTGCTACCCTTCAATTTACTTCCTTTATTACCTAAATTGGAA GAATTGGAAGTTAAAAACTGTGAATATGTGAAAACCATATTTGATGTGAAGTATATAACCCAAG ACAGAAAAATGACAACTATGGGAGCAACCAGCATCCCCCTCCCTTTTCCCCTTAAGAAATTGAC TTTATCGGAGCTGCCAAATCTGGAGAATGTTTGGAATGAACATCCTCATAGAATTCCAAGGATG CAACTTTTACAAGAAGTATATGTTGACAATTGTAAACGCCTTGCTAGTGTGTTTCCCACATCGG TAGCCAAAGATCTTCTGAAACTTGAAAATCTAGTTGTGAAACACTGTGAGGGGTTGATGGCAGT TGTTGCAGAGCATAATGCAGATCCAAAAGGAACAAATCTAGAGCTAACGTTCCCCAGTGTGAAG TCATTGACGCTATGGGATTTGCCGAAGTTCAACTATAATGGTATATATTGCATTCATGATGCAA CAAAAATAATTGAGGTTCGAACTTTATTCTCATTGATTCTTACTCATGTCATTTTACTTTATCA TATATCGTGTGTTAAAGTTGCTCAAATCTTTATAAACAATCTCCTAGCAACCATATAAGATTTT TCATTATTTTCTTCTCCAAAGAACTACTACAAAAACTCCCTATCTCATTTATATATATGGTTTT TAAGTAAACTTTTTTCTTTTAAATTGACTTGTGTGCACCTTTTTTATTTTTTAAATAGTTAATT GTCATCAATTATCAGACATCTTTTAGCGTTGTAGTTCATTATTTCAATTATATATAAAAGAGCT GGATCTATAACTGCCCTAACCAACCTGTGTTTGCTTGGTTATTGGTTTCTCTTCATAGCTTACA CCCAACTTACAACATCTAACACTCGGTCAAAACGAACTCAAGATGATTTTGCATGGAGAAATTC AGGGGAACCATTTAAACAAGTTAAAAGTTCTAACTCTGTGCTTTCATGTTGAGTCCGATGTATT TCCACATGGATTTCTACAACCGGTGCCTAATATAGAGGAGCTTGTGGTGTGTGATGGATCCTTC AAGGAGATTTTCTGCCTTCAAAGTCCTAATGTGGATGATACTACTCTCCTATCACAACTGAAAG TGTTACGCTTGGAGTCCCTTCCAGAGCTCGTTTCCATTGGGTCACTAAATTTGGTACCATGCAC AATGTCTTTCTCCAATCTGACAAAGTTGAAAGTAAAAAGTTGCAATAGCCTGCTATGTTTGTTC ACATCCTCAACAGCCAAAAATTTAGCTCAACTCCAAAATATGGAGATAGAATTTTGTGAATCAA TTAAAGAGATAGTGTCTAAGGAGGGGGATGAATCACATGAGGATGAGATAACATTTCCGCAGCT CAATTGTTTGGTACTTAAAGACTTACCAGATCTCAGAAGCTTCTACGAAGGGAGTTTAAGTTTC CCATCTTTGGAGAAATTGTCAGTAATCAAATGCCACGGGATGGAAACTTTATGTCCGGGTACCC TAAAAGCAGACAAGTTGCTAGGAGTTCAATTAAAGAGCGGGTACTCAGATGTCATGCCATTGGA AATTGATCTCAAGTCTACCATACGGAAGGCATTTCTAGCAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.072281141

Conservation Information
Conserved circRNAs	NA
PMCS	0.072281141

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							2977839-2979341(+)
2977865-2979265(-)
						
					

						Potential amino acid sequence
						
							MTTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAK
DLLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKI
IELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVC
DGSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSL
LCLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEG
SLSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAELLE
YARSESYLILRDSPVQKIWHGSLSIPDSCFSNLGTLIVGGCQFLSDAVLPFNLLPLLPKLEELE
VKNCEYVKTIFDVKYITQDRKMTTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLL
QEVYVDNCKRLASVFPTSVAKDLLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLT
LWDLPKFNYNGIYCIHDATKIIELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVE
SDVFPHGFLQPVPNIEELVVCDGSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNL
VPCTMSFSNLTKLKVKSCNSLLCLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEIT
FPQLNCLVLKDLPDLRSFYEGSLSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDV
MPLEIDLKSTIRKAFLAELLEYARSESYLILRDSPVQKIWHGSLSIPDSCFSNLGTLIVGGCQF
LSDAVLPFNLLPLLPKLEELEVKNCEYVKTIFDVKYITQDRKMTTMGATSIPLPFPLKKLTLSE
LPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAKDLLKLENLVVKHCEGLMAVVAE
HNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKIIELTPNLQHLTLGQNELKMILH
GEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVCDGSFKEIFCLQSPNVDDTTLLS
QLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSLLCLFTSSTAKNLAQLQNMEIEF
CESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEGSLSFPSLEKLSVIKCHGMETLC
PGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAELLEYARSESYLILRDSPVQKIWHGS
LSIPDSCFSNLGTLIVGGCQFLSDAVLPFNLLPLLPKLEELEVKNCEYVKTIFDVKYITQDRKM
TTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAKD
LLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKII
ELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVCD
GSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSLL
CLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEGS
LSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAE(+)
MLVAPIVVIFLSWVIYFTSNMVFTYSQFLTSNSSNLGNKGSKLKGSTASDKNWQPPTIKVPKLL
KHESGIDSEPCHIFCTGLSRRIRYDSLRAYSKSSARNAFRMVDLRSISNGMTSEYPLFN*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	2977839-2979341(+) 2977865-2979265(-)
Potential amino acid sequence	MTTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAK DLLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKI IELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVC DGSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSL LCLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEG SLSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAELLE YARSESYLILRDSPVQKIWHGSLSIPDSCFSNLGTLIVGGCQFLSDAVLPFNLLPLLPKLEELE VKNCEYVKTIFDVKYITQDRKMTTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLL QEVYVDNCKRLASVFPTSVAKDLLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLT LWDLPKFNYNGIYCIHDATKIIELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVE SDVFPHGFLQPVPNIEELVVCDGSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNL VPCTMSFSNLTKLKVKSCNSLLCLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEIT FPQLNCLVLKDLPDLRSFYEGSLSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDV MPLEIDLKSTIRKAFLAELLEYARSESYLILRDSPVQKIWHGSLSIPDSCFSNLGTLIVGGCQF LSDAVLPFNLLPLLPKLEELEVKNCEYVKTIFDVKYITQDRKMTTMGATSIPLPFPLKKLTLSE LPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAKDLLKLENLVVKHCEGLMAVVAE HNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKIIELTPNLQHLTLGQNELKMILH GEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVCDGSFKEIFCLQSPNVDDTTLLS QLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSLLCLFTSSTAKNLAQLQNMEIEF CESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEGSLSFPSLEKLSVIKCHGMETLC PGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAELLEYARSESYLILRDSPVQKIWHGS LSIPDSCFSNLGTLIVGGCQFLSDAVLPFNLLPLLPKLEELEVKNCEYVKTIFDVKYITQDRKM TTMGATSIPLPFPLKKLTLSELPNLENVWNEHPHRIPRMQLLQEVYVDNCKRLASVFPTSVAKD LLKLENLVVKHCEGLMAVVAEHNADPKGTNLELTFPSVKSLTLWDLPKFNYNGIYCIHDATKII ELTPNLQHLTLGQNELKMILHGEIQGNHLNKLKVLTLCFHVESDVFPHGFLQPVPNIEELVVCD GSFKEIFCLQSPNVDDTTLLSQLKVLRLESLPELVSIGSLNLVPCTMSFSNLTKLKVKSCNSLL CLFTSSTAKNLAQLQNMEIEFCESIKEIVSKEGDESHEDEITFPQLNCLVLKDLPDLRSFYEGS LSFPSLEKLSVIKCHGMETLCPGTLKADKLLGVQLKSGYSDVMPLEIDLKSTIRKAFLAE(+) MLVAPIVVIFLSWVIYFTSNMVFTYSQFLTSNSSNLGNKGSKLKGSTASDKNWQPPTIKVPKLL KHESGIDSEPCHIFCTGLSRRIRYDSLRAYSKSSARNAFRMVDLRSISNGMTSEYPLFN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017a

circRNA

Detail information of GLYMA_16G031600_circ_g.1

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