Plant Circular RNA Database

Detail information of Solyc02g062950.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc02g062950.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_000621
					
						Alias
						2:29471606|29474766
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr2: 34893756-34896916  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc02g062950.2						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Solyc02g062950.2_circ_g.1 						
					
						Support reads
						6/3
					
						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  
						
							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
						Solyc02g062950.2.1:9

General Information
CircRNA Name	Solyc02g062950.2_circ_g.2
ID in PlantcircBase	sly_circ_000621
Alias	2:29471606\|29474766
Organism	Solanum lycopersicum
Position	chr2: 34893756-34896916 JBrowse»
Reference genome	SL2.50.38
Type	ue-circRNA
Identification method	CIRI
Parent gene	Solyc02g062950.2
Parent gene annotation	protein_coding
Parent gene strand	-
Alternative splicing	Solyc02g062950.2_circ_g.1
Support reads	6/3
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	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	Solyc02g062950.2.1:9

			
						 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  
						
							CTCTTCCCCAGCTCCCATTAGGTGTCGAATCAATAGTCAAGTGTCAGCGTTTGTTTGATTACTT
CAGAAGATCAAGTGCTCATTTAAAAGCAAGATGTACctgcttgcgtaatctcgacctccgagct
gattctctattagactgctttctcttttgccttttaagttcacgttcatcctattaagaagggt
tgtaaagt

									
								

					

						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
						
							CTGCTTGCGTAATCTCGACCTCCGAGCTGATTCTCTATTAGACTGCTTTCTCTTTTGCCTTTTA
AGTTCACGTTCATCCTATTAAGAAGGGTTGTAAAGTACTTATCAACAAAAAGAAATACAGTGAT
GATTTTTGTAAGGGTACAATCTCATTATTGACAGTATACAATATACATATTGAGAAACAAAGAA
CAATAACAACAACAATGATCACATTTTAAAATGTGTAGAAATTCCTTTAGATTCCCAAAAAGTT
TACTTTAGATACATCAAATAGCTCTGAATCTCAATCTAGCATAACGTAAAGACACGAAGATATT
TTTATTTTTTTATGACAAGGTCGCAACCGCTATCCTTTGGATGCACATAGGGTAAAACCCCCGC
TCCTATGCAATAGCTCACAAACCACACAAGAGAGTAACCCACACTAAGCAAGTCCTGTGCGACG
AGCTCAACCCAAAAGGCAAATCCCTTACTTTTGTTGGCAACGGATTTCCAACTTGAGACTTCCA
ACCTGGGGGTCCCAAGCCCAAACCACTGGGCCACCCTAAAGGGTAAAGACACAAAGATATATAG
CTTCGAAAATATGGAACCATACTAAAGAATTATTGACGTAAGGAATTTGAAACCAAGTTCAGTT
TTCATGCGACCAAATTTCAAGCCTTAAACCTTATTCAGGTTATAGTTTTTTTTTTTTTAATTTA
ATTTAAGAGCATGAAGGGGAGCCTTAGAGTAAATGGTAAAGTTGTTGTCGACCAGGATGTTACG
GGTTTAAGCCGTGGAAACGATCTCTAGTTGAAATGTGGGGTAAGGCACTGTACAATATACCCTT
GTGGTTTGGCCCTTTTCTGGACCCACGCATAGCATGAGCTTTAGTGCACTGGGCTGCCCTTTTT
TTCAATTTAAGAGCATATATTTTGGCAAATTTGATCCTACAAACTGGAAATTTTCCACATAAAG
AACGAACTGATTGTTTCATTGAAGTTCTGAAGAATATTAGTATATGTTTCACTAGTATAACTGC
TGAAAGCACTTTTGATCAGTTAACTAGCCATCAACTATTTCAGGACCAACCAAAACACCAGAAG
AATAAAAACCCAAACCTAAGCTCCTCTTCATATCTCGTTCACGGTTTGGTTCTTTCTCTATCTC
AGTTGCAATATCTTAGTTTCCTGAACCATCAGTTTTGTTAAATAGTCTCCGTGGTTACATGTAA
GATGCCTATAAATAGGTTTGTCATGTATTTCCTTATTATCAACACATGTCACATTTTCTCACAA
TTTAACATTTTGTTCAATGAAAATGAATTCTGAATGTCAAGATACACCAGAAACAATGAGTCTT
ATTGAACACAATCTTCAAATATCCCTAATGACCATCTGGCAAGAAGAAGAGTAAGTACATTTTG
TGCTTTTTACTCCACAGGTGGTTAGAGGAATAATTATGACAAGAAATTGGCAGTATCACCAAAG
CACACAAAGTAGCATGATCAACTCTGCATTCATTTGTTTCATAAAATTCAATAAACAGCAGAAA
ACAAAACTACCTGAATCCATTCACGTCCCATCCCAGGAGCTGGCGAGACACCAGATTGATTTGA
TCGCATTTTGATCATTCCGGGACCGCCAGAAGGTGCGTTCCACAAATCCATCCCAATATTCAGA
TTAGGTGCGGGCATAGCGACTGGATTCCCTGTTGCAGGATTGGTCTGAGCATTGGCTCCTAATT
GAAAATTACAGACCAATTAAATAAAACGAATAAGGCATAATCAAGAAGCAGACAAGTGAAACAA
GTTACCATTAGCAAGCATTAGATCAAAGCTTCTATTTTTGTCAGCAGAAAATTCCTATAATGAT
AAAACAAGAAATGTTAGTCTTAGCTAGCAATTGATAGGGAACCGACACAACAGCAGTATACTCA
AGTAAGCTATGACATTCTTGAGTTAATCAGAAAGCATACATGGTTATCATTTTCATCATTTTCG
TCTGATGAACCTTCACTTCCGCTTTCAGCACTATTCAAGAGAATATAGTAAGTCAGATGCACAA
AAGACCACATCCAAAAATTGATCAATTGATGGAAAGTAAGATTAAAATAGGAGTCTAGATACAA
ATTTGAACACCAAATCCACATCAAAATACCTTCTTGTGGCACCACCATCATTTCCAGAACCTGA
GGCCGCTTTCCCACTTTCTCCTGCCTTGCCACCTGAACATCCCTTCAATTTTTTGCTTGTATTC
TGGTCCTTACCATCTGGTGCCTTACTATCTGATTCTGGATTTGCCTGCAGTGTGTTTGGAGTCT
GCCGAAAGGGCATAAAAAAATTAGTAAATAGAGGCTTTTAAAGAAATTTATTTACAGAAAAACT
ATACGCAGGTGACTCTCTTTCATCAGCTTCCAAATTGATAGTAACCAAAAGGATTAATTACCAT
AGGCATATTAGGATGAGCATAAACTCCAGCAGGAGGATATAAAGCAGGATATGGGACTGGGGCT
CCATAAGGAGGCATAAGCGGATGCTGAAACATCAAGCAATAAAGAGTTAGTACATTAAAATGTT
CTCAGCTTTATACTTCATATGGTAAAAAAGTTGCAATGTGCCGCAAAAAAGGAGTACGTTAATT
AGTGAATGCAAAAATAACCACCTGGGCTCCCCACATGTACGGGTGGGGAGTGGGAGAACCAACA
GTTGAGGGAAAGAAGGGAGGTGTAGCTCCAGCACCATAATAAGCCTAAACAGGAAAGTTAGTGC
TTAAGATTAAAACATTCATCATCTTATATTATGAAGAATATTGATACGTAGAACCTGACAATGA
TTAATCACAATAAAATTCATCACCAACCTGCATAGAAGACCAATCAGGATATGAAGGTGTTGCT
TGTGTTTCCTGAAAATCAAACAAATAGAGAACTCGTGAATAGCGAGCCACAATACAGAGAGTTT
AAAAGAGAGCAACACTAAAAACTTATATAAGCACTTATTGCGGGTAGACGTATGGAAAAAAAAT
AAATGGAAAATGACCTGAGTCGAAGTAACTTTCGAAGGCTTTGCAGGGGTGCTCTCTTCCCCAG
CTCCCATTAGGTGTCGAATCAATAGTCAAGTGTCAGCGTTTGTTTGATTACTTCAGAAGATCAA
GTGCTCATTTAAAAGCAAGATGTAC
						
					

			
		

Sequences
Splice junction sequence	CTCTTCCCCAGCTCCCATTAGGTGTCGAATCAATAGTCAAGTGTCAGCGTTTGTTTGATTACTT CAGAAGATCAAGTGCTCATTTAAAAGCAAGATGTACctgcttgcgtaatctcgacctccgagct gattctctattagactgctttctcttttgccttttaagttcacgttcatcctattaagaagggt tgtaaagt
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	CTGCTTGCGTAATCTCGACCTCCGAGCTGATTCTCTATTAGACTGCTTTCTCTTTTGCCTTTTA AGTTCACGTTCATCCTATTAAGAAGGGTTGTAAAGTACTTATCAACAAAAAGAAATACAGTGAT GATTTTTGTAAGGGTACAATCTCATTATTGACAGTATACAATATACATATTGAGAAACAAAGAA CAATAACAACAACAATGATCACATTTTAAAATGTGTAGAAATTCCTTTAGATTCCCAAAAAGTT TACTTTAGATACATCAAATAGCTCTGAATCTCAATCTAGCATAACGTAAAGACACGAAGATATT TTTATTTTTTTATGACAAGGTCGCAACCGCTATCCTTTGGATGCACATAGGGTAAAACCCCCGC TCCTATGCAATAGCTCACAAACCACACAAGAGAGTAACCCACACTAAGCAAGTCCTGTGCGACG AGCTCAACCCAAAAGGCAAATCCCTTACTTTTGTTGGCAACGGATTTCCAACTTGAGACTTCCA ACCTGGGGGTCCCAAGCCCAAACCACTGGGCCACCCTAAAGGGTAAAGACACAAAGATATATAG CTTCGAAAATATGGAACCATACTAAAGAATTATTGACGTAAGGAATTTGAAACCAAGTTCAGTT TTCATGCGACCAAATTTCAAGCCTTAAACCTTATTCAGGTTATAGTTTTTTTTTTTTTAATTTA ATTTAAGAGCATGAAGGGGAGCCTTAGAGTAAATGGTAAAGTTGTTGTCGACCAGGATGTTACG GGTTTAAGCCGTGGAAACGATCTCTAGTTGAAATGTGGGGTAAGGCACTGTACAATATACCCTT GTGGTTTGGCCCTTTTCTGGACCCACGCATAGCATGAGCTTTAGTGCACTGGGCTGCCCTTTTT TTCAATTTAAGAGCATATATTTTGGCAAATTTGATCCTACAAACTGGAAATTTTCCACATAAAG AACGAACTGATTGTTTCATTGAAGTTCTGAAGAATATTAGTATATGTTTCACTAGTATAACTGC TGAAAGCACTTTTGATCAGTTAACTAGCCATCAACTATTTCAGGACCAACCAAAACACCAGAAG AATAAAAACCCAAACCTAAGCTCCTCTTCATATCTCGTTCACGGTTTGGTTCTTTCTCTATCTC AGTTGCAATATCTTAGTTTCCTGAACCATCAGTTTTGTTAAATAGTCTCCGTGGTTACATGTAA GATGCCTATAAATAGGTTTGTCATGTATTTCCTTATTATCAACACATGTCACATTTTCTCACAA TTTAACATTTTGTTCAATGAAAATGAATTCTGAATGTCAAGATACACCAGAAACAATGAGTCTT ATTGAACACAATCTTCAAATATCCCTAATGACCATCTGGCAAGAAGAAGAGTAAGTACATTTTG TGCTTTTTACTCCACAGGTGGTTAGAGGAATAATTATGACAAGAAATTGGCAGTATCACCAAAG CACACAAAGTAGCATGATCAACTCTGCATTCATTTGTTTCATAAAATTCAATAAACAGCAGAAA ACAAAACTACCTGAATCCATTCACGTCCCATCCCAGGAGCTGGCGAGACACCAGATTGATTTGA TCGCATTTTGATCATTCCGGGACCGCCAGAAGGTGCGTTCCACAAATCCATCCCAATATTCAGA TTAGGTGCGGGCATAGCGACTGGATTCCCTGTTGCAGGATTGGTCTGAGCATTGGCTCCTAATT GAAAATTACAGACCAATTAAATAAAACGAATAAGGCATAATCAAGAAGCAGACAAGTGAAACAA GTTACCATTAGCAAGCATTAGATCAAAGCTTCTATTTTTGTCAGCAGAAAATTCCTATAATGAT AAAACAAGAAATGTTAGTCTTAGCTAGCAATTGATAGGGAACCGACACAACAGCAGTATACTCA AGTAAGCTATGACATTCTTGAGTTAATCAGAAAGCATACATGGTTATCATTTTCATCATTTTCG TCTGATGAACCTTCACTTCCGCTTTCAGCACTATTCAAGAGAATATAGTAAGTCAGATGCACAA AAGACCACATCCAAAAATTGATCAATTGATGGAAAGTAAGATTAAAATAGGAGTCTAGATACAA ATTTGAACACCAAATCCACATCAAAATACCTTCTTGTGGCACCACCATCATTTCCAGAACCTGA GGCCGCTTTCCCACTTTCTCCTGCCTTGCCACCTGAACATCCCTTCAATTTTTTGCTTGTATTC TGGTCCTTACCATCTGGTGCCTTACTATCTGATTCTGGATTTGCCTGCAGTGTGTTTGGAGTCT GCCGAAAGGGCATAAAAAAATTAGTAAATAGAGGCTTTTAAAGAAATTTATTTACAGAAAAACT ATACGCAGGTGACTCTCTTTCATCAGCTTCCAAATTGATAGTAACCAAAAGGATTAATTACCAT AGGCATATTAGGATGAGCATAAACTCCAGCAGGAGGATATAAAGCAGGATATGGGACTGGGGCT CCATAAGGAGGCATAAGCGGATGCTGAAACATCAAGCAATAAAGAGTTAGTACATTAAAATGTT CTCAGCTTTATACTTCATATGGTAAAAAAGTTGCAATGTGCCGCAAAAAAGGAGTACGTTAATT AGTGAATGCAAAAATAACCACCTGGGCTCCCCACATGTACGGGTGGGGAGTGGGAGAACCAACA GTTGAGGGAAAGAAGGGAGGTGTAGCTCCAGCACCATAATAAGCCTAAACAGGAAAGTTAGTGC TTAAGATTAAAACATTCATCATCTTATATTATGAAGAATATTGATACGTAGAACCTGACAATGA TTAATCACAATAAAATTCATCACCAACCTGCATAGAAGACCAATCAGGATATGAAGGTGTTGCT TGTGTTTCCTGAAAATCAAACAAATAGAGAACTCGTGAATAGCGAGCCACAATACAGAGAGTTT AAAAGAGAGCAACACTAAAAACTTATATAAGCACTTATTGCGGGTAGACGTATGGAAAAAAAAT AAATGGAAAATGACCTGAGTCGAAGTAACTTTCGAAGGCTTTGCAGGGGTGCTCTCTTCCCCAG CTCCCATTAGGTGTCGAATCAATAGTCAAGTGTCAGCGTTTGTTTGATTACTTCAGAAGATCAA GTGCTCATTTAAAAGCAAGATGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.177599818

Conservation Information
Conserved circRNAs	NA
PMCS	0.177599818

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34896836-34896898(-)
34893834-34896882(-)
						
						Potential amino acid sequence
						
							MGAGEESTPAKPSKVTSTQETQATPSYPDWSSMQAYYGAGATPPFFPSTVGSPTPHPYMWGAQH
PLMPPYGAPVPYPALYPPAGVYAHPNMPMTPNTLQANPESDSKAPDGKDQNTSKKLKGCSGGKA
GESGKAASGSGNDGGATRSAESGSEGSSDENDENDNHEFSADKNRSFDLMLANGANAQTNPATG
NPVAMPAPNLNIGMDLWNAPSGGPGMIKMRSNQSGVSPAPGMGREWIQDERELKRQKRKQSNRE
SARRSRLRKQVHLAFK*(-)
MNVNLKGKRESSLIENQLGGRDYASRYILLLNEHLIF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34896836-34896898(-) 34893834-34896882(-)
Potential amino acid sequence	MGAGEESTPAKPSKVTSTQETQATPSYPDWSSMQAYYGAGATPPFFPSTVGSPTPHPYMWGAQH PLMPPYGAPVPYPALYPPAGVYAHPNMPMTPNTLQANPESDSKAPDGKDQNTSKKLKGCSGGKA GESGKAASGSGNDGGATRSAESGSEGSSDENDENDNHEFSADKNRSFDLMLANGANAQTNPATG NPVAMPAPNLNIGMDLWNAPSGGPGMIKMRSNQSGVSPAPGMGREWIQDERELKRQKRKQSNRE SARRSRLRKQVHLAFK(-) MNVNLKGKRESSLIENQLGGRDYASRYILLLNEHLIF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016; Yin et al., 2018

circRNA

Detail information of Solyc02g062950.2_circ_g.2

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