Plant Circular RNA Database

Detail information of Solyc12g021170.1_circ_g.1

			
						 General Information
					
						CircRNA Name
						Solyc12g021170.1_circ_g.1
					
						ID in PlantcircBase
						sly_circ_003585
					
						Alias
						12:14513455|14517797
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr12: 14513455-14517797  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc12g021170.1						
					
						Parent gene annotation
						
							Electron transfer flavoprotein-ubiquinone oxidoreductase, mitoch
ondrial
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/6
					
						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
						Solyc12g021170.1.1:4

General Information
CircRNA Name	Solyc12g021170.1_circ_g.1
ID in PlantcircBase	sly_circ_003585
Alias	12:14513455\|14517797
Organism	Solanum lycopersicum
Position	chr12: 14513455-14517797 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc12g021170.1
Parent gene annotation	Electron transfer flavoprotein-ubiquinone oxidoreductase, mitoch ondrial
Parent gene strand	+
Alternative splicing	NA
Support reads	3/6
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	Solyc12g021170.1.1:4

			
						 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  
						
							ACCGTTGACCTTTTTATCCTGTCAGAAATTAATCAAGAAGTACAACTTGAGAGAGAAAGGGCAG
GGGCAACATCAAACCTATGCTTTAGGAATCAAAGAGtttgggtcagttggtacgttggttgggg
cagaaagctgaacagctaggagttgaaatatacccaggttttgctgctagtgaggtattagcct
cactattc

									
								

					

						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
						
							TTTGGGTCAGTTGGTACGTTGGTTGGGGCAGAAAGCTGAACAGCTAGGAGTTGAAATATACCCA
GGTTTTGCTGCTAGTGAGGTATTAGCCTCACTATTCTGGATTATTTCATTATTTTTTTTTTGAT
ATTTCCTTGCTAAGCTAGAAACATTTCAGATTTTATGCAACGAACACAACGAGGTTACTGGTAT
TGCTACTAATGATATGGGAGTGGCTAAGGATGGTTCCAGAAAAGAGAACTACCAGCATGGTGTT
GCACTGAAGGGCAAGTTCTGTTACTCATTTTTTTCCTTGTTTATTTTCTGCAAAGAAGTTCTCC
AAATTTACATTCTGTCCACAGTTACTGCAGTTTTTAGATGACTATCTAATGGAAGTTACAAATC
TCCCTTTATTTTAACATCAACTATCCCCAGTAACAATTTTGATCTGTGAGTTGACTCTATAATT
CAAGTAAATTGAATATAATCATTAATGTTATTTGTGCCCTATAAGATTATAGAGGGAGTTAATC
AAATATCTCAGTACTTACATTACAACACCCCAGTTCAGTTTAATTGTTCCAGAAGTTTGTGGTG
AGTATTTGTGTGTGCTGTGGAAACTAATTGCCAACAATACCAAACTGGAACATCAGTTCAATCA
GTATCAGTTGGAACATGATGCTATTCATATGGAGCTTTATAGGGCAGAAAGGTAACTCAGATGG
TAAAATCAACCACAACAACACCATACCCAGTATAGTCCACTAAAGTAGGATCTGTGGAGGGTAG
AATGTAATCAACATGTTCCACACAAATGATATCATCCACACATATTATCCATCACTTATGAACA
TAATTAAGCATGTATTAAGGTTAAACAAATTAAAGTTTTGTAGGGAGCAATATTCTCCCACTTA
GGAACAGTCATCCTCAAATACTTTGCTTTGGCATAGGTGAGGATATCTTGTTTCCGTGTCCTCT
AATTTCCTAGTTTACTCTTTTTTGATGAAGTAACATGTCGTATTGCTGGCATCAAGAAGATGCA
AAGATTACAAAAAGTGATGTTAGCTCCAAAGAGAAAAAGTTCTATAAGCATCGGAGCTAACCAA
AAGCAAAAGTAGGCTGTTAAGCTAGCTCACAGAGCCAATGAAATCTACAAAAGAAACAACATCA
TTTACAGGAGCATTATTACTGCAACTAAAAAGCTGTAGTAGACACCTAGCCTTAATTACTGAGT
TAGGAGTTGAAATCCATCAAAACATCTTCTATTCCTTTCTGTCCACACTCCAGATAATACAACT
TGGGATCATTTGCTTGATGATCTTGACACCTTTGCCGACTTTCCAAAAGTTTCAACTTTTAACA
GCTTCCTTGATACTCTGGGGTTGTGTCCAATTGAGACCAAATACTGATAGGAACATGTGCCAGA
GGATAGCAGCCACTGGGCAATGCAAAAAAAGATGGTTGATAGATTTCAAGTTAAGCACACATAA
CATCCATTCACAAGCTGAAGTTTCTTCTACATAGATTGGCTTGAGTCAGGATGGCCCCTTTTAG
TGCTGTCCATGTGAAACAACTTACTTTTGGGGGTAATTTTGTTCTCCAAATTAACTTCCAGGCT
AATAACTCATTCCGTGAGCACATCTGGTGATAGCCTGCCTTTACACTGTATGTACCCTCCCTGG
AACTGCCCCATGTCCTTCTGTCAGAGCTTTGGCTATCAACTGTACAACTATTTGATCTTTCCAA
CAGATCAAATACATCATATAGCTCCCAATCTTCCATATTCCTCCTAAATTAAACATCCCATGTG
CTGCCTGATCTAATTTCCTCCACCATGGAATTGGGGTTACTGGCTAATAGAAAAAGAGATGGGT
ACATGACTTGCAAAGTGGAGTCACCAAGCCAGTTCTCTATCTAGAATTTCACCTTAGAACCACT
GCCAATCTTGAAAAAGATGTCTTGCTAGAAATAATCCAAGTTTTTAATGTGCTTCCAAGGACCC
ACTCCATGTGAGGCTCTAGCTCTCCCAGTGCTCCAATTGTCCTGATGGCCATACTTGGCTCTCA
CAACTGGACCCTCTTGCCCATACCTTCATAACCATTTCAGTAGCAGACATTTGTTGTGCTTAGC
CAAGTCTCTTATCCCCAGTCCGCCCTGTATTTTTTGATGAATTACAGTAAGGCCATTCCACCAG
GGGGAATTTGTGGCCTGTTTCCTTCCCAGAGGAAGGATCTTCCCAGTTTGTCAAGTTTTTGAAG
GACTTTGCTCGGCATTGGAAAAAGAGATATAATGCAAGTATGAATACTGTCAAGGACGCTGTTG
ATTAGAGTCACTCTTCCCCACAGTGAAAGATATTGAATTTGCCAAGCAGCCAGTTTTTTCTCCA
CTTTTTCAGTTGCTCCACTCCATACTTCCTCTGACTAGTATTTGGCTTGCAGAGGCAATCCTAG
ATATATTGTAGGCAACGTGCCAATGCCACAACACATTATGCCAGCTAAATTACTCCGGGTAGGC
ACCTCATTCACTGGAGACAACATGCTTTTTAGCATATAAATATATGGGACCTGAAATAATAAAA
ATAAGAAGGGATAGATCAAGATAATGCTGCTAAAATTTCTCTGCCCACAGAATATTTGTGTGTC
ATCTTCATACAAAAGGTGAGACACTGATATAGAGGCTCCAATGCTGCTAGTGATGCTAAGCCAA
CAACCTCGTTTGTTTTGAATTTGTGAACTTGCCTATCAAGTATACCAACATACGAACTTAAGTT
CTCAAAAAAAAAACAAAAATTGTATGCCACAGGAACTTCTTCATATGATGGTTTCTCATCAAGT
TCCATAGTCTATGATCGAACAACACATGAAGGATCACTCCCAGAGTTTCATAGGATAGATGCAA
GGAGGTTTGATTACAACTCTGGTAGCAAGGCAGGTTGATAGGTCATGTTTCAATCTGTGTGAGA
ATTTCATATAACCCAATGAACCTCAAATCAAGTTACCATTCTTACCAAACCTCATTACCTTTTT
CATCGGTGAAATCTTCAAAAAACATATAGTTGTCAACCATGAACTCGACCTCTCGGTGCCTCTT
GTCCAATGGCAAACAGGAATTTTCACAACTTTCTGCTATTCTAAGACTCTTAATCATGTCTAAC
TTTCTCCAAGGATTCTTGTACAAGATCTGAGCCAAGAAGTTTGGCTTCCGACTGTTCAAAATAT
CCAAAAGAAGATATATACTGACACCCATATGATAATTCGAATGGCGCCATTTTGATGCTCCCTT
ATAGATATTGTTATAAGCAAGCTCTATTAATCCGGAGATGCTCATCCTAATTGCTACCGAAGTC
GATGGCACATGCCCATGCATATCCTCAAGTGGTTGAGTAGGTCTTTCAGTTTTCATGTCGGTCT
AAGGGTGATAAACGTGCTCAAGTTTACTTGTGTTCCAAAATCCGCTCGAAAGGGTTATTAAAGA
AAATGATCTTGGGCCTAACTCATTCCCAAAAGCTTGCTCATGAGAGGAGGATTTCCCAGGACCA
TTAAAGCGAATCAGACAACACATCCCTTTAATAACCGATGTGGGACTCAACCGCGATTACCAGA
AGGGTGTGGTGAACTGCACTTCTGTATGATATAATCGACATTGGATTACCAGTCATGCATCCTG
ATTATTTCCCTGAGATATAATTGTTCATATTGAGCTGTAGTGTTACACAACTCTCTTTCACTGT
CCCGCCTCACCTTTTTGGCCTTGGTGAGGATCACGTTTCACGCGTTACTTGCGTTATATCATGA
AACTGTCCAGGCCAAGAATGACCTTTGTGCAACAGCTATACGATGCACAAGTATGGTGTGAATC
GCCTGAGAATGATTTTCATATCAGAACTCTATAATCTTCCCACTTTAGCTACAATACCACTTCA
ATACATTCCAAAAATCATTCACACAACACATGTATCTTTATCTCAACAATATTTACAGTAACAT
ATGGTATCTTCCACATATATTATTCATCATTTAACATGTAACTAAGCATGTATTAAGCCCAAAC
AAATTAAAAAGTTTGAGGGACGCTACACCATTTGGCTCATTACCCGTACTTCCTAGTTTACTAA
CCCCTGTTTTCTATGATGGTGTGTAGGGCGTGTTACTCTCCTGGCAGAAGGATGTAGAGGATCT
TTATCAGAGGTATGCAGAAGGTTTATTCTTTCGTCTCTATCAACTATTTTTATGTCCTATACAT
CATTTGAAGTTCAGCACCGACCGTTGACCTTTTTATCCTGTCAGAAATTAATCAAGAAGTACAA
CTTGAGAGAGAAAGGGCAGGGGCAACATCAAACCTATGCTTTAGGAATCAAAGAG
						
					

			
		

Sequences
Splice junction sequence	ACCGTTGACCTTTTTATCCTGTCAGAAATTAATCAAGAAGTACAACTTGAGAGAGAAAGGGCAG GGGCAACATCAAACCTATGCTTTAGGAATCAAAGAGtttgggtcagttggtacgttggttgggg cagaaagctgaacagctaggagttgaaatatacccaggttttgctgctagtgaggtattagcct cactattc
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	TTTGGGTCAGTTGGTACGTTGGTTGGGGCAGAAAGCTGAACAGCTAGGAGTTGAAATATACCCA GGTTTTGCTGCTAGTGAGGTATTAGCCTCACTATTCTGGATTATTTCATTATTTTTTTTTTGAT ATTTCCTTGCTAAGCTAGAAACATTTCAGATTTTATGCAACGAACACAACGAGGTTACTGGTAT TGCTACTAATGATATGGGAGTGGCTAAGGATGGTTCCAGAAAAGAGAACTACCAGCATGGTGTT GCACTGAAGGGCAAGTTCTGTTACTCATTTTTTTCCTTGTTTATTTTCTGCAAAGAAGTTCTCC AAATTTACATTCTGTCCACAGTTACTGCAGTTTTTAGATGACTATCTAATGGAAGTTACAAATC TCCCTTTATTTTAACATCAACTATCCCCAGTAACAATTTTGATCTGTGAGTTGACTCTATAATT CAAGTAAATTGAATATAATCATTAATGTTATTTGTGCCCTATAAGATTATAGAGGGAGTTAATC AAATATCTCAGTACTTACATTACAACACCCCAGTTCAGTTTAATTGTTCCAGAAGTTTGTGGTG AGTATTTGTGTGTGCTGTGGAAACTAATTGCCAACAATACCAAACTGGAACATCAGTTCAATCA GTATCAGTTGGAACATGATGCTATTCATATGGAGCTTTATAGGGCAGAAAGGTAACTCAGATGG TAAAATCAACCACAACAACACCATACCCAGTATAGTCCACTAAAGTAGGATCTGTGGAGGGTAG AATGTAATCAACATGTTCCACACAAATGATATCATCCACACATATTATCCATCACTTATGAACA TAATTAAGCATGTATTAAGGTTAAACAAATTAAAGTTTTGTAGGGAGCAATATTCTCCCACTTA GGAACAGTCATCCTCAAATACTTTGCTTTGGCATAGGTGAGGATATCTTGTTTCCGTGTCCTCT AATTTCCTAGTTTACTCTTTTTTGATGAAGTAACATGTCGTATTGCTGGCATCAAGAAGATGCA AAGATTACAAAAAGTGATGTTAGCTCCAAAGAGAAAAAGTTCTATAAGCATCGGAGCTAACCAA AAGCAAAAGTAGGCTGTTAAGCTAGCTCACAGAGCCAATGAAATCTACAAAAGAAACAACATCA TTTACAGGAGCATTATTACTGCAACTAAAAAGCTGTAGTAGACACCTAGCCTTAATTACTGAGT TAGGAGTTGAAATCCATCAAAACATCTTCTATTCCTTTCTGTCCACACTCCAGATAATACAACT TGGGATCATTTGCTTGATGATCTTGACACCTTTGCCGACTTTCCAAAAGTTTCAACTTTTAACA GCTTCCTTGATACTCTGGGGTTGTGTCCAATTGAGACCAAATACTGATAGGAACATGTGCCAGA GGATAGCAGCCACTGGGCAATGCAAAAAAAGATGGTTGATAGATTTCAAGTTAAGCACACATAA CATCCATTCACAAGCTGAAGTTTCTTCTACATAGATTGGCTTGAGTCAGGATGGCCCCTTTTAG TGCTGTCCATGTGAAACAACTTACTTTTGGGGGTAATTTTGTTCTCCAAATTAACTTCCAGGCT AATAACTCATTCCGTGAGCACATCTGGTGATAGCCTGCCTTTACACTGTATGTACCCTCCCTGG AACTGCCCCATGTCCTTCTGTCAGAGCTTTGGCTATCAACTGTACAACTATTTGATCTTTCCAA CAGATCAAATACATCATATAGCTCCCAATCTTCCATATTCCTCCTAAATTAAACATCCCATGTG CTGCCTGATCTAATTTCCTCCACCATGGAATTGGGGTTACTGGCTAATAGAAAAAGAGATGGGT ACATGACTTGCAAAGTGGAGTCACCAAGCCAGTTCTCTATCTAGAATTTCACCTTAGAACCACT GCCAATCTTGAAAAAGATGTCTTGCTAGAAATAATCCAAGTTTTTAATGTGCTTCCAAGGACCC ACTCCATGTGAGGCTCTAGCTCTCCCAGTGCTCCAATTGTCCTGATGGCCATACTTGGCTCTCA CAACTGGACCCTCTTGCCCATACCTTCATAACCATTTCAGTAGCAGACATTTGTTGTGCTTAGC CAAGTCTCTTATCCCCAGTCCGCCCTGTATTTTTTGATGAATTACAGTAAGGCCATTCCACCAG GGGGAATTTGTGGCCTGTTTCCTTCCCAGAGGAAGGATCTTCCCAGTTTGTCAAGTTTTTGAAG GACTTTGCTCGGCATTGGAAAAAGAGATATAATGCAAGTATGAATACTGTCAAGGACGCTGTTG ATTAGAGTCACTCTTCCCCACAGTGAAAGATATTGAATTTGCCAAGCAGCCAGTTTTTTCTCCA CTTTTTCAGTTGCTCCACTCCATACTTCCTCTGACTAGTATTTGGCTTGCAGAGGCAATCCTAG ATATATTGTAGGCAACGTGCCAATGCCACAACACATTATGCCAGCTAAATTACTCCGGGTAGGC ACCTCATTCACTGGAGACAACATGCTTTTTAGCATATAAATATATGGGACCTGAAATAATAAAA ATAAGAAGGGATAGATCAAGATAATGCTGCTAAAATTTCTCTGCCCACAGAATATTTGTGTGTC ATCTTCATACAAAAGGTGAGACACTGATATAGAGGCTCCAATGCTGCTAGTGATGCTAAGCCAA CAACCTCGTTTGTTTTGAATTTGTGAACTTGCCTATCAAGTATACCAACATACGAACTTAAGTT CTCAAAAAAAAAACAAAAATTGTATGCCACAGGAACTTCTTCATATGATGGTTTCTCATCAAGT TCCATAGTCTATGATCGAACAACACATGAAGGATCACTCCCAGAGTTTCATAGGATAGATGCAA GGAGGTTTGATTACAACTCTGGTAGCAAGGCAGGTTGATAGGTCATGTTTCAATCTGTGTGAGA ATTTCATATAACCCAATGAACCTCAAATCAAGTTACCATTCTTACCAAACCTCATTACCTTTTT CATCGGTGAAATCTTCAAAAAACATATAGTTGTCAACCATGAACTCGACCTCTCGGTGCCTCTT GTCCAATGGCAAACAGGAATTTTCACAACTTTCTGCTATTCTAAGACTCTTAATCATGTCTAAC TTTCTCCAAGGATTCTTGTACAAGATCTGAGCCAAGAAGTTTGGCTTCCGACTGTTCAAAATAT CCAAAAGAAGATATATACTGACACCCATATGATAATTCGAATGGCGCCATTTTGATGCTCCCTT ATAGATATTGTTATAAGCAAGCTCTATTAATCCGGAGATGCTCATCCTAATTGCTACCGAAGTC GATGGCACATGCCCATGCATATCCTCAAGTGGTTGAGTAGGTCTTTCAGTTTTCATGTCGGTCT AAGGGTGATAAACGTGCTCAAGTTTACTTGTGTTCCAAAATCCGCTCGAAAGGGTTATTAAAGA AAATGATCTTGGGCCTAACTCATTCCCAAAAGCTTGCTCATGAGAGGAGGATTTCCCAGGACCA TTAAAGCGAATCAGACAACACATCCCTTTAATAACCGATGTGGGACTCAACCGCGATTACCAGA AGGGTGTGGTGAACTGCACTTCTGTATGATATAATCGACATTGGATTACCAGTCATGCATCCTG ATTATTTCCCTGAGATATAATTGTTCATATTGAGCTGTAGTGTTACACAACTCTCTTTCACTGT CCCGCCTCACCTTTTTGGCCTTGGTGAGGATCACGTTTCACGCGTTACTTGCGTTATATCATGA AACTGTCCAGGCCAAGAATGACCTTTGTGCAACAGCTATACGATGCACAAGTATGGTGTGAATC GCCTGAGAATGATTTTCATATCAGAACTCTATAATCTTCCCACTTTAGCTACAATACCACTTCA ATACATTCCAAAAATCATTCACACAACACATGTATCTTTATCTCAACAATATTTACAGTAACAT ATGGTATCTTCCACATATATTATTCATCATTTAACATGTAACTAAGCATGTATTAAGCCCAAAC AAATTAAAAAGTTTGAGGGACGCTACACCATTTGGCTCATTACCCGTACTTCCTAGTTTACTAA CCCCTGTTTTCTATGATGGTGTGTAGGGCGTGTTACTCTCCTGGCAGAAGGATGTAGAGGATCT TTATCAGAGGTATGCAGAAGGTTTATTCTTTCGTCTCTATCAACTATTTTTATGTCCTATACAT CATTTGAAGTTCAGCACCGACCGTTGACCTTTTTATCCTGTCAGAAATTAATCAAGAAGTACAA CTTGAGAGAGAAAGGGCAGGGGCAACATCAAACCTATGCTTTAGGAATCAAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.16790521

Conservation Information
Conserved circRNAs	NA
PMCS	0.16790521

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14513661-14513490(+)
						
						Potential amino acid sequence
						
							MGVAKDGSRKENYQHGVALKGRVTLLAEGCRGSLSEKLIKKYNLREKGQGQHQTYALGIKEFGS
VGTLVGAES*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						fruit ripening

Functional Information
Coding potential	Y
Potential coding position	14513661-14513490(+)
Potential amino acid sequence	MGVAKDGSRKENYQHGVALKGRVTLLAEGCRGSLSEKLIKKYNLREKGQGQHQTYALGIKEFGS VGTLVGAES*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	fruit ripening

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

circRNA

Detail information of Solyc12g021170.1_circ_g.1

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