Plant Circular RNA Database

Detail information of Solyc04g009430.2_circ_g.1

			
						 General Information
					
						CircRNA Name
						Solyc04g009430.2_circ_g.1
					
						ID in PlantcircBase
						sly_circ_001282
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr4: 2846825-2851092  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI; find_circ
					
						Parent gene
						
							Solyc04g009430.2						
					
						Parent gene annotation
						
							NAD-dependent protein deacylase SRT2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-No							"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
						Solyc04g009430.2.1:7

General Information
CircRNA Name	Solyc04g009430.2_circ_g.1
ID in PlantcircBase	sly_circ_001282
Alias	NA
Organism	Solanum lycopersicum
Position	chr4: 2846825-2851092 JBrowse»
Reference genome	SL2.50.38
Type	ue-circRNA
Identification method	CIRI; find_circ
Parent gene	Solyc04g009430.2
Parent gene annotation	NAD-dependent protein deacylase SRT2
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf
Exon boundary	Yes-No "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	Solyc04g009430.2.1:7

			
						 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  
						
							ACTGTTAATTAATAGCATCCCAGATTCTTTTTCATCAGTTGCTGCAAATGGATTGTACACTTGG
TCGGAACGTGCTAGTTCGCCCTGCATCTCACGTGTGcccaaacggagcttatagtacgggtttc
aaaccaattacccatcaggtgatttgaaggcatgtgctatgattctgggttccattaaagtgtc
attattca

									
								

					

						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
						
							CCCAAACGGAGCTTATAGTACGGGTTTCAAACCAATTACCCATCAGGTGATTTGAAGGCATGTG
CTATGATTCTGGGTTCCATTAAAGTGTCATTATTCATTTATAAATACCATTTCTTGCATATTTG
AAAGAGGAAAAAGAATGTATTAGTCTACTACGGATTTAGTTCTGTTCATCTCTAGACCTATATA
TTTCTTGTAGACAATAAATCCTACATGAATTTAGTTGTGGTCATCTCCAGAAATATATACATGA
TACAACAACAGTCCCAAATAAATCAGGATTGACTTATGAATACTCATGATTCTCTATTTAAGCT
CAAATCATGTCATCATCATACCCAAAAAGTACTTTAAAAAATAAGTTAGACCTATTCCCAACTA
GTAGATCTCATCTATATGGATCTTTTCCTTCTGCTGTGTCCTATCTTTAGCTAAGTGTGCTTTG
ATTCCCAGAAATTGTAGGTCTTTCGAGACAACTTCCTTATTGTGATTCCTACCTCTTCCTCGTT
AACACGTTCACTCACCATAGTTGCATTTGCACATCTATGAACAAGATGTACTGGTTGCAGCTGT
AGGTCGATGCAGAGCATGACCAAACATCTCAGGCAACCTTCTCCCGTTTTATCCTCAATGCATA
CTACTTGCACTGTCTGGCAAATTTGATCATTTCTTAATCTTATCCATCCTTCGGGCTATCACAT
TATACCCTAGTAGCACTTCTCCATTTCAACCATTTAGTGCTAATTCCCGGAGTAATATCTAGAT
ATGCAAACTGATTGTACTTTGGCACCACCACCCCGTGTAGTCTCACCTCAACTTCGCTCTTCTC
ATGCTGACTAAACTTGCATGCGTGTCAATTATTCCACTAGTTAGTTGCTACCTCTTGCCAGAAC
AGGTACCGACTCTATGTTGCTCAGATTCTCCATAAATGATGTTGCAGCCGTGTTGGATCCTTCA
AAATGTACTACTTTTGAAGGATCCGACATGCACCCGTAGACATTTTTTGAAGATCCAAGGAACA
TAGGCCATGCCATAACTCTATCACTAATGCTTAGGCAGATAGGAAGTAATCACCTAGTGATTTT
TCCTTTTTTAGGATTTGAATTGGTCTCCCAAAGTTACAATCCCGCTTCATTTTCTGCTAAACCA
CATTCTTAGGTGCTAGAAAAAGCTCCGTTTTCATTAAAATTTACAGAGTCAGCTTTTGCTTACT
GCCTACATTCTAACTGTCTGATTTATATATCCAATTGTAGGAGTTTCTACGATCAATCAAGGCT
CGAAGGCGTTATTGGGCACGGAGCTATGCTGGCTGGCGACGTTTCACTGCTGCTCAACCTAGTA
CAGGTCATATAGCTCTATCATCTCTTGAGAAAGCAGGCCATATAAGTTTTATGATTACACAGAA
TGTGGACAGGTAGTTGGCTCATCTTTTCATTTCTTCGTTGATTTTATGAGCCTTTTGACACTAA
TTTTATACTCTTCCTCTCAGGCTGCATCACCGAGCTGGAAGCAATCCTCTTGAATTGCATGGGA
CTGTCTACATTGTTGCCTGTACAAATTGTGGTTTTTCTCTACCTCGAGATCTATTTCAAGATCA
AGTGAAGGCTCATAATCCCAAGGTTATCTTTATTCAGTTATTCTGTTAATTGAGTTTGAAATCA
CTGCCTAATTATTGATTTGAGTTATGTTGATTTGACTTCATGAAAGATGACATAGAAATCTATT
TCAGCACTGTTCCACAAGGCACTAGTCTATATGTATGTCCAAGTCCTATAGAACTATTAACACC
GACGATGCTTTCCCTATACATGTCTAGCTATAAGAGGAGGGACATTTTGGTGCATAGAATGTTA
CTGATTCCATTGTCACCTCTATTTACCACAAAAGGATTTCATTGTCACACAACCATCTGCCTTA
CCCTCGGGCCTTGACACATCAGTTCCTCCCCTACCCCAAACCTTCCTTCTTTGGCCTGCAATCC
TGTACCTGTTACAGGCTTACAGCAATTGCTTTTCCTTGTCATCCATCATCTCATCTTAAAGAGT
TCTGTATCTACATACAACTGTGTTACCTTGTTTATGCAGAAAACTGTCATTCATTGATATTGGA
CTGCAATAAGGGTCTATTCAGTTTGGATGATAACACAGCATATGTTAAGATTTGGATTAACAAA
TATTAAGTACTAAATTAGCTGCCTAACTACCATGTTCAGTTATGACATCATATATGTCTTCTTG
TGTATAGCAAGCATTGGTTTTCGATGGTTTATTTGGCAACATTATTAGAATTTAACAGCTAGCC
CTTGATTATGGTGTATGAGATATAATCTAAGGGGTATTACAATAGCCAACCCAAAATCTGTAAA
CTGGAATAACAACAAATCATGTTCTCTTCTTGATCAACCTAATGTATTCACTGTTTTGTTCTGT
TGGCATAAACTGAACTGGAAATATTATAGTACTGCAGTGGGCAGAAGCTATTGAAAATTTGGAC
TATGACAGTCGATCAGACAAGAGTTTTGGAATGAAACAAAGGCCTGATGGGGATATTGAGATTG
ATGAGAAGTTCTGGGAAGAGGATTTCTACATTCCTGAATGTCAGAGCTGCCAAGGAGTTCTGAA
ACCTGATGTAAGTGATTTTTAATTTATCAGATGAACTAGTTATATAAACTTGGAGCAGCTTCTC
TTTTCTCTTGCTTTATGTTTTTTCATTTCCTAGAGGTTAAAATTGGCCTAGGAAGAATTGAGTA
AGATGATTCCTTTGTTATCACGAATATGTCCAAGAGTAATCTTGAATTGAAGAACGAGCCTTTC
GCCGGGGTGAATAAGAATAGCCAATAGGTACAGATGACTTTCAAATTTCTGCCATGTGCCATAA
TTATACACATAATAAGTCTGCTGATTTATAATGAAAATTGTATGGACTTATTACATATATCTAT
TCTTGCTCCGTTCTAATTATTGCTCCGGATCTAGAAAGAAGGTTGGATCTTGCAATGCAAAACC
ATTGGGAACTTATTTTCGATTTCGCTGTAGGATATCAAAACTCTATACGTTCTATGTTTTTTTT
AATAGTTAGTTCAAAGTTTATGCTATTTATTACAGTACCTAGTCAGTGGTATACTTTTAACTTC
TAAAAGTTCATTAAAAAGAAAAAAGACACAAATTCACCTTTACTAGTAATTTTATATAATGACT
CCACGAGGTAGTGGTAAGGTCTGCGTACACTCTACCTCTCCAGATCCCACTTAGTGGGTATTAC
ATTGGGTATGTTGTTGTATTCGATCAATCATTGTTCCTCTGAATTTTAGATCATATAGACAGTA
GTGTACTGGTATAAGTCACTAAAATATGGTACATTACAGGTTGTCTTCTTTGGGGATAATGTCC
CCAAATCTAGGGCAGATGCTGCTATGGAAGCTGCAAAGGGATGTGATGCCTTCCTTGTACTTGG
TTCATCTTTGATGACCATGTCCGCCTTCCGGCTTATCAAGTGAGAATTTGCTTCTCTCCCATTT
TAATCAAAAGAAAATCTGGTCTACTTGGTTACTCTTAACTTGTTTGCTCATTCGGTTCTTGTCT
AAGTGCATCATTGATGAATTGGTCTTATATCAGCATAGGATTTTTTTCACAAGGATTGCAATTG
CATGACCCGAGATTTCATTTCTGAGAGTGGTCCCTTCTGATTCACTTACTCTTTCTCCGAAAAT
AGTTCCAGATGGTTCTGGAAACGTAACATTACTTCTCTCTTTGCATATACCTGTTAGATTATCA
CATCATAATTTCTTGGTTTCCTTCTTTTTGTTGGTTTTTATTTCCTTCTCTCCCTTTTGGATAA
CTTATATCAACAACATGAGAATAAATCCTTGCAACAGAGCTGCACGTGAGGCAGGTGCTGCTAC
TGCAATTATAAATATTGGTGCTACACGAGCTGACGATATTGTACCTTTGAAAATTAGTGCTCGA
GTTGGAGAGGTTAGTGCTTTGTATGGAACACCAGAAGTTCTAGTTTCCGTTATAGTCATCCTCG
CATTCTATTTTTACAGCTTTTCTTGCTGCAACGTTCCTGGAACCTTAACTTATACAATTATATG
ATGCAGATACTTCCAAGATTGCTCAATGTTGGATCATTAAGTATCCCTGCTCCCTAGTTCCTGA
TTCAGAGAACTGTTAATTAATAGCATCCCAGATTCTTTTTCATCAGTTGCTGCAAATGGATTGT
ACACTTGGTCGGAACGTGCTAGTTCGCCCTGCATCTCACGTGTG
						
					

			
		

Sequences
Splice junction sequence	ACTGTTAATTAATAGCATCCCAGATTCTTTTTCATCAGTTGCTGCAAATGGATTGTACACTTGG TCGGAACGTGCTAGTTCGCCCTGCATCTCACGTGTGcccaaacggagcttatagtacgggtttc aaaccaattacccatcaggtgatttgaaggcatgtgctatgattctgggttccattaaagtgtc attattca
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	CCCAAACGGAGCTTATAGTACGGGTTTCAAACCAATTACCCATCAGGTGATTTGAAGGCATGTG CTATGATTCTGGGTTCCATTAAAGTGTCATTATTCATTTATAAATACCATTTCTTGCATATTTG AAAGAGGAAAAAGAATGTATTAGTCTACTACGGATTTAGTTCTGTTCATCTCTAGACCTATATA TTTCTTGTAGACAATAAATCCTACATGAATTTAGTTGTGGTCATCTCCAGAAATATATACATGA TACAACAACAGTCCCAAATAAATCAGGATTGACTTATGAATACTCATGATTCTCTATTTAAGCT CAAATCATGTCATCATCATACCCAAAAAGTACTTTAAAAAATAAGTTAGACCTATTCCCAACTA GTAGATCTCATCTATATGGATCTTTTCCTTCTGCTGTGTCCTATCTTTAGCTAAGTGTGCTTTG ATTCCCAGAAATTGTAGGTCTTTCGAGACAACTTCCTTATTGTGATTCCTACCTCTTCCTCGTT AACACGTTCACTCACCATAGTTGCATTTGCACATCTATGAACAAGATGTACTGGTTGCAGCTGT AGGTCGATGCAGAGCATGACCAAACATCTCAGGCAACCTTCTCCCGTTTTATCCTCAATGCATA CTACTTGCACTGTCTGGCAAATTTGATCATTTCTTAATCTTATCCATCCTTCGGGCTATCACAT TATACCCTAGTAGCACTTCTCCATTTCAACCATTTAGTGCTAATTCCCGGAGTAATATCTAGAT ATGCAAACTGATTGTACTTTGGCACCACCACCCCGTGTAGTCTCACCTCAACTTCGCTCTTCTC ATGCTGACTAAACTTGCATGCGTGTCAATTATTCCACTAGTTAGTTGCTACCTCTTGCCAGAAC AGGTACCGACTCTATGTTGCTCAGATTCTCCATAAATGATGTTGCAGCCGTGTTGGATCCTTCA AAATGTACTACTTTTGAAGGATCCGACATGCACCCGTAGACATTTTTTGAAGATCCAAGGAACA TAGGCCATGCCATAACTCTATCACTAATGCTTAGGCAGATAGGAAGTAATCACCTAGTGATTTT TCCTTTTTTAGGATTTGAATTGGTCTCCCAAAGTTACAATCCCGCTTCATTTTCTGCTAAACCA CATTCTTAGGTGCTAGAAAAAGCTCCGTTTTCATTAAAATTTACAGAGTCAGCTTTTGCTTACT GCCTACATTCTAACTGTCTGATTTATATATCCAATTGTAGGAGTTTCTACGATCAATCAAGGCT CGAAGGCGTTATTGGGCACGGAGCTATGCTGGCTGGCGACGTTTCACTGCTGCTCAACCTAGTA CAGGTCATATAGCTCTATCATCTCTTGAGAAAGCAGGCCATATAAGTTTTATGATTACACAGAA TGTGGACAGGTAGTTGGCTCATCTTTTCATTTCTTCGTTGATTTTATGAGCCTTTTGACACTAA TTTTATACTCTTCCTCTCAGGCTGCATCACCGAGCTGGAAGCAATCCTCTTGAATTGCATGGGA CTGTCTACATTGTTGCCTGTACAAATTGTGGTTTTTCTCTACCTCGAGATCTATTTCAAGATCA AGTGAAGGCTCATAATCCCAAGGTTATCTTTATTCAGTTATTCTGTTAATTGAGTTTGAAATCA CTGCCTAATTATTGATTTGAGTTATGTTGATTTGACTTCATGAAAGATGACATAGAAATCTATT TCAGCACTGTTCCACAAGGCACTAGTCTATATGTATGTCCAAGTCCTATAGAACTATTAACACC GACGATGCTTTCCCTATACATGTCTAGCTATAAGAGGAGGGACATTTTGGTGCATAGAATGTTA CTGATTCCATTGTCACCTCTATTTACCACAAAAGGATTTCATTGTCACACAACCATCTGCCTTA CCCTCGGGCCTTGACACATCAGTTCCTCCCCTACCCCAAACCTTCCTTCTTTGGCCTGCAATCC TGTACCTGTTACAGGCTTACAGCAATTGCTTTTCCTTGTCATCCATCATCTCATCTTAAAGAGT TCTGTATCTACATACAACTGTGTTACCTTGTTTATGCAGAAAACTGTCATTCATTGATATTGGA CTGCAATAAGGGTCTATTCAGTTTGGATGATAACACAGCATATGTTAAGATTTGGATTAACAAA TATTAAGTACTAAATTAGCTGCCTAACTACCATGTTCAGTTATGACATCATATATGTCTTCTTG TGTATAGCAAGCATTGGTTTTCGATGGTTTATTTGGCAACATTATTAGAATTTAACAGCTAGCC CTTGATTATGGTGTATGAGATATAATCTAAGGGGTATTACAATAGCCAACCCAAAATCTGTAAA CTGGAATAACAACAAATCATGTTCTCTTCTTGATCAACCTAATGTATTCACTGTTTTGTTCTGT TGGCATAAACTGAACTGGAAATATTATAGTACTGCAGTGGGCAGAAGCTATTGAAAATTTGGAC TATGACAGTCGATCAGACAAGAGTTTTGGAATGAAACAAAGGCCTGATGGGGATATTGAGATTG ATGAGAAGTTCTGGGAAGAGGATTTCTACATTCCTGAATGTCAGAGCTGCCAAGGAGTTCTGAA ACCTGATGTAAGTGATTTTTAATTTATCAGATGAACTAGTTATATAAACTTGGAGCAGCTTCTC TTTTCTCTTGCTTTATGTTTTTTCATTTCCTAGAGGTTAAAATTGGCCTAGGAAGAATTGAGTA AGATGATTCCTTTGTTATCACGAATATGTCCAAGAGTAATCTTGAATTGAAGAACGAGCCTTTC GCCGGGGTGAATAAGAATAGCCAATAGGTACAGATGACTTTCAAATTTCTGCCATGTGCCATAA TTATACACATAATAAGTCTGCTGATTTATAATGAAAATTGTATGGACTTATTACATATATCTAT TCTTGCTCCGTTCTAATTATTGCTCCGGATCTAGAAAGAAGGTTGGATCTTGCAATGCAAAACC ATTGGGAACTTATTTTCGATTTCGCTGTAGGATATCAAAACTCTATACGTTCTATGTTTTTTTT AATAGTTAGTTCAAAGTTTATGCTATTTATTACAGTACCTAGTCAGTGGTATACTTTTAACTTC TAAAAGTTCATTAAAAAGAAAAAAGACACAAATTCACCTTTACTAGTAATTTTATATAATGACT CCACGAGGTAGTGGTAAGGTCTGCGTACACTCTACCTCTCCAGATCCCACTTAGTGGGTATTAC ATTGGGTATGTTGTTGTATTCGATCAATCATTGTTCCTCTGAATTTTAGATCATATAGACAGTA GTGTACTGGTATAAGTCACTAAAATATGGTACATTACAGGTTGTCTTCTTTGGGGATAATGTCC CCAAATCTAGGGCAGATGCTGCTATGGAAGCTGCAAAGGGATGTGATGCCTTCCTTGTACTTGG TTCATCTTTGATGACCATGTCCGCCTTCCGGCTTATCAAGTGAGAATTTGCTTCTCTCCCATTT TAATCAAAAGAAAATCTGGTCTACTTGGTTACTCTTAACTTGTTTGCTCATTCGGTTCTTGTCT AAGTGCATCATTGATGAATTGGTCTTATATCAGCATAGGATTTTTTTCACAAGGATTGCAATTG CATGACCCGAGATTTCATTTCTGAGAGTGGTCCCTTCTGATTCACTTACTCTTTCTCCGAAAAT AGTTCCAGATGGTTCTGGAAACGTAACATTACTTCTCTCTTTGCATATACCTGTTAGATTATCA CATCATAATTTCTTGGTTTCCTTCTTTTTGTTGGTTTTTATTTCCTTCTCTCCCTTTTGGATAA CTTATATCAACAACATGAGAATAAATCCTTGCAACAGAGCTGCACGTGAGGCAGGTGCTGCTAC TGCAATTATAAATATTGGTGCTACACGAGCTGACGATATTGTACCTTTGAAAATTAGTGCTCGA GTTGGAGAGGTTAGTGCTTTGTATGGAACACCAGAAGTTCTAGTTTCCGTTATAGTCATCCTCG CATTCTATTTTTACAGCTTTTCTTGCTGCAACGTTCCTGGAACCTTAACTTATACAATTATATG ATGCAGATACTTCCAAGATTGCTCAATGTTGGATCATTAAGTATCCCTGCTCCCTAGTTCCTGA TTCAGAGAACTGTTAATTAATAGCATCCCAGATTCTTTTTCATCAGTTGCTGCAAATGGATTGT ACACTTGGTCGGAACGTGCTAGTTCGCCCTGCATCTCACGTGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.158118754

Conservation Information
Conserved circRNAs	NA
PMCS	0.158118754

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

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

			
						 Other Information
					
						References
						Yang et al., 2020

circRNA

Detail information of Solyc04g009430.2_circ_g.1

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