Plant Circular RNA Database

Detail information of Solyc02g094320.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc02g094320.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_000870
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr2: 54884223-54885833  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc02g094320.2						
					
						Parent gene annotation
						
							Actin-related protein 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Solyc02g094320.2_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						fruit
					
						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
						Solyc02g094320.2.1:4

General Information
CircRNA Name	Solyc02g094320.2_circ_g.2
ID in PlantcircBase	sly_circ_000870
Alias	NA
Organism	Solanum lycopersicum
Position	chr2: 54884223-54885833 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc02g094320.2
Parent gene annotation	Actin-related protein 2
Parent gene strand	+
Alternative splicing	Solyc02g094320.2_circ_g.1
Support reads	2
Tissues	fruit
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	Solyc02g094320.2.1:4

			
						 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  
						
							ATGTTTTCTGCAATAGAAATTGCGCTTACGAATAGAAGATCCACCCAGAAGAAAGCATATGGTG
TATCTCGGTGGTGCAGTTCTGGCCGGAATTATGAAGgatcttattgatgttgaaggtgatggca
tggctgacatggtatttcgctgcattcaggagatggatattgacaacaggatgatggtacttca
actttgaa

									
								

					

						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
						
							GATCTTATTGATGTTGAAGGTGATGGCATGGCTGACATGGTATTTCGCTGCATTCAGGAGATGG
ATATTGACAACAGGATGATGGTACTTCAACTTTGAAATTTCTTCTGTATTCTTTGCCATAGTGT
TGTCATTTGCCATCCATCATATGTTTAAATTTTCACTTGCAGCTCTACCAGCATATTGTTTTGA
GTGGTGGAAGTACCATGTATCCTGGCTTACCTAGTCGGTAACTTACTCAAAATACTCTTCCTTA
TTATAAAGCTTTGAGAACTTGGAGCTGAGTAGTGCAATTGTGCGTGGTTGATTCTAAATGCTAC
ATTATTGTCATACAGACTAGGAAGTTTTAACGGGTGTGACAGTTTGCTTTGAGTTTATGAACCA
AAGTATATCCTTGAATTATTTTTTCCTCAGGACTAATGTTTAATCAATCTGGCAGAGAAATTTG
AACTGTAAAACTGTTATGCTATAACTTTGATAACACTCTTTTATTGTGCGAAGAACTCTAATTC
ACCTCCCTGTGGATTTTGAATTTTATGATTCTCCTCTTACGGTATCAAAATTTTGCTGATTCCC
TCCTCCTGGTAGCAGTCAGCTTTGGTATATCTGACTGATGACTTATTCCTCATAGTTGTTCTAT
TTTTCTCCTGCTCATAAGTACCCTTCTGAAATTGTTAGTATCATAACGACCATGAAATGCATGA
AGGCATATCTAAAAATGCAAATCAACGTGAAATATATATTCATTTTCACTACATACTATTTTAA
CTCTCATCTTGTTACGTATCATAAATTAGAGTATGAAATTCTATTCGAGAGGATATGAGTATTG
TTTAGAAATGTGCTATATTAGGAAATTTAGGTATACACTTTAATGCATGAAGAATTTCTGTTAA
GAATATCCGTGAGCTGTCATCAAGAAGGACTTTCATCTCTTTGTGATTTATTCCTTTGAACTTT
ACTTTTGCAGTTAACATTTCTTTTGGTTTACTGTGGGAATATAAGGAACGAAACTCTTTCTTAC
CCACCTCATGACCACACTCATCATATTCTTGTTTCCTTTAATAACAGCTATTTTCCCTTCTTTT
TAAACATTGACAGCCTTGAGAAAGAAATTTTGGACCGCTATCTTGATGTTGTTCTGAAGGGGAA
CAAAGATGGTTTGAAGGTACTGTGTGACTCTTATTTGTTCTTTTCACAATTTCTTGAGGTTTTT
GGTTTATGAATAAGGTTTATGCAACTAAGTTGCATTTATTCAAATAGTCTTACCCACAAACCAC
AATAAAATACCTCAATCTCACTGGTAGCTGCAGCTTATGGTGATTTCGGCTCTATATGAGGTCA
AGTCAATCAAGAGATGGAGATAAGAAAGTAGTTGGAAAAGTACGAGTAGGGTTTAACATATCTA
GGGAGTTGGATTGCATTGCCTACAATTGCTGTCTTTTATGATGCATTTCTTGGTTTTCTTTAAG
TTGTTGAAATTTTCTCTATTTTTGAAAATTTTATTTTATATGTTTTCTGCAATAGAAATTGCGC
TTACGAATAGAAGATCCACCCAGAAGAAAGCATATGGTGTATCTCGGTGGTGCAGTTCTGGCCG
GAATTATGAAG
						
					

			
		

Sequences
Splice junction sequence	ATGTTTTCTGCAATAGAAATTGCGCTTACGAATAGAAGATCCACCCAGAAGAAAGCATATGGTG TATCTCGGTGGTGCAGTTCTGGCCGGAATTATGAAGgatcttattgatgttgaaggtgatggca tggctgacatggtatttcgctgcattcaggagatggatattgacaacaggatgatggtacttca actttgaa
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	GATCTTATTGATGTTGAAGGTGATGGCATGGCTGACATGGTATTTCGCTGCATTCAGGAGATGG ATATTGACAACAGGATGATGGTACTTCAACTTTGAAATTTCTTCTGTATTCTTTGCCATAGTGT TGTCATTTGCCATCCATCATATGTTTAAATTTTCACTTGCAGCTCTACCAGCATATTGTTTTGA GTGGTGGAAGTACCATGTATCCTGGCTTACCTAGTCGGTAACTTACTCAAAATACTCTTCCTTA TTATAAAGCTTTGAGAACTTGGAGCTGAGTAGTGCAATTGTGCGTGGTTGATTCTAAATGCTAC ATTATTGTCATACAGACTAGGAAGTTTTAACGGGTGTGACAGTTTGCTTTGAGTTTATGAACCA AAGTATATCCTTGAATTATTTTTTCCTCAGGACTAATGTTTAATCAATCTGGCAGAGAAATTTG AACTGTAAAACTGTTATGCTATAACTTTGATAACACTCTTTTATTGTGCGAAGAACTCTAATTC ACCTCCCTGTGGATTTTGAATTTTATGATTCTCCTCTTACGGTATCAAAATTTTGCTGATTCCC TCCTCCTGGTAGCAGTCAGCTTTGGTATATCTGACTGATGACTTATTCCTCATAGTTGTTCTAT TTTTCTCCTGCTCATAAGTACCCTTCTGAAATTGTTAGTATCATAACGACCATGAAATGCATGA AGGCATATCTAAAAATGCAAATCAACGTGAAATATATATTCATTTTCACTACATACTATTTTAA CTCTCATCTTGTTACGTATCATAAATTAGAGTATGAAATTCTATTCGAGAGGATATGAGTATTG TTTAGAAATGTGCTATATTAGGAAATTTAGGTATACACTTTAATGCATGAAGAATTTCTGTTAA GAATATCCGTGAGCTGTCATCAAGAAGGACTTTCATCTCTTTGTGATTTATTCCTTTGAACTTT ACTTTTGCAGTTAACATTTCTTTTGGTTTACTGTGGGAATATAAGGAACGAAACTCTTTCTTAC CCACCTCATGACCACACTCATCATATTCTTGTTTCCTTTAATAACAGCTATTTTCCCTTCTTTT TAAACATTGACAGCCTTGAGAAAGAAATTTTGGACCGCTATCTTGATGTTGTTCTGAAGGGGAA CAAAGATGGTTTGAAGGTACTGTGTGACTCTTATTTGTTCTTTTCACAATTTCTTGAGGTTTTT GGTTTATGAATAAGGTTTATGCAACTAAGTTGCATTTATTCAAATAGTCTTACCCACAAACCAC AATAAAATACCTCAATCTCACTGGTAGCTGCAGCTTATGGTGATTTCGGCTCTATATGAGGTCA AGTCAATCAAGAGATGGAGATAAGAAAGTAGTTGGAAAAGTACGAGTAGGGTTTAACATATCTA GGGAGTTGGATTGCATTGCCTACAATTGCTGTCTTTTATGATGCATTTCTTGGTTTTCTTTAAG TTGTTGAAATTTTCTCTATTTTTGAAAATTTTATTTTATATGTTTTCTGCAATAGAAATTGCGC TTACGAATAGAAGATCCACCCAGAAGAAAGCATATGGTGTATCTCGGTGGTGCAGTTCTGGCCG GAATTATGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.189068943

Conservation Information
Conserved circRNAs	NA
PMCS	0.189068943

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							54884251-54885830(+)
54884406-54885761(-)
54884277-54885350(-)
						
						Potential amino acid sequence
						
							MADMVFRCIQEMDIDNRMMLYQHIVLSGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLR
LRIEDPPRRKHMVYLGGAVLAGIMKDLIDVEGDGMADMVFRCIQEMDIDNRMMLYQHIVLSGGS
TMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLRLRIEDPPRRKHMVYLGGAVLAGIMKDLIDV
EGDGMADMVFRCIQEMDIDNRMMLYQHIVLSGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGL
KKLRLRIEDPPRRKHMVYLGGAVLAGIMKDLIDVEGDGMADMVFRCIQEMDIDNRMMLYQHIVL
SGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLRLRIEDPPRRKHMVYLGGAVLAGIMK(
+)
MLVEHHPVVNIHLLNAAKYHVSHAITFNINKILHNSGQNCTTEIHHMLSSGWIFYS*(-)
MQRNTMSAMPSPSTSIRSFIIPARTAPPRYTICFLLGGSSIRKRNFFKPSLFPFRTTSR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	54884251-54885830(+) 54884406-54885761(-) 54884277-54885350(-)
Potential amino acid sequence	MADMVFRCIQEMDIDNRMMLYQHIVLSGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLR LRIEDPPRRKHMVYLGGAVLAGIMKDLIDVEGDGMADMVFRCIQEMDIDNRMMLYQHIVLSGGS TMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLRLRIEDPPRRKHMVYLGGAVLAGIMKDLIDV EGDGMADMVFRCIQEMDIDNRMMLYQHIVLSGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGL KKLRLRIEDPPRRKHMVYLGGAVLAGIMKDLIDVEGDGMADMVFRCIQEMDIDNRMMLYQHIVL SGGSTMYPGLPSRLEKEILDRYLDVVLKGNKDGLKKLRLRIEDPPRRKHMVYLGGAVLAGIMK( +) MLVEHHPVVNIHLLNAAKYHVSHAITFNINKILHNSGQNCTTEIHHMLSSGWIFYS(-) MQRNTMSAMPSPSTSIRSFIIPARTAPPRYTICFLLGGSSIRKRNFFKPSLFPFRTTSR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016

circRNA

Detail information of Solyc02g094320.2_circ_g.2

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