Plant Circular RNA Database

Detail information of Solyc08g080520.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc08g080520.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_002710
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr8: 63801024-63803144  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc08g080520.2						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Solyc08g080520.2_circ_g.1 						
					
						Support reads
						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  
						
							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
						Solyc08g080520.2.1:5

General Information
CircRNA Name	Solyc08g080520.2_circ_g.2
ID in PlantcircBase	sly_circ_002710
Alias	NA
Organism	Solanum lycopersicum
Position	chr8: 63801024-63803144 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc08g080520.2
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Solyc08g080520.2_circ_g.1
Support reads	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	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	Solyc08g080520.2.1:5

			
						 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  
						
							CTTTAAAATAGTCTTGTCTTAATCACAGGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCA
GCTTCAGCTGTAGAAGTATTTAGAATCATAGAGGAGctgatgctcaatgcttcaaatgaaatca
ttgatagcaaagtcagaatgtatgttgagaggtctgccgaagctgcttgcaagagggtatggta
tctattgg

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 591
Transcript exons: 63801024-63801107,63801187-63801372,63801454-63801609,63
802568-63802660,63803073-63803144
CTGATGCTCAATGCTTCAAATGAAATCATTGATAGCAAAGTCAGAATGTATGTTGAGAGGTCTG
CCGAAGCTGCTTGCAAGAGGGTTACTGATGCAATAAATACTGGATCTAAAGTAGATAAGAAACA
TCCTTTGGCTTTACTTGCAAGTGAATTGAAGTCAATTGCTGAGAGACAGCTGACTGTATACCAT
CCAGTCCTGAGGCTTTGGTATGCTGAAGCTGGAGTAGTTTCAGCTTCAATATTGCACAGGTTTT
ATGGTGAAAGACTGGACCCATTTCTCAAAAATATATCTTGCCTCTCGGAAGATGTGAAGCAGGT
GCTTGCTGCAGCTATTCTGTTGGAGAATTATCTAATTGAACTCCATTCATCAGAACAAGTAAAA
AAGGGGGTGCATTCTCCATTGATGTTTGATTTTGAGCGTGAGATTGGAGAAATCGCAAGGCCAA
TTATTCTTGATTGGGTGATTGCTCAGCATGAGAGGATACTTGAATGGACTGGACGTGCTGCTGA
TCTTGAGGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCAGCTTCAGCTGTAGAAGTATTT
AGAATCATAGAGGAG
						
					

						Genomic sequence
						
							CTGATGCTCAATGCTTCAAATGAAATCATTGATAGCAAAGTCAGAATGTATGTTGAGAGGTCTG
CCGAAGCTGCTTGCAAGAGGGTATGGTATCTATTGGCTCCACAAATGTAGTATAGGAATACCTG
ATTTTGAAAAGTTTGACATATTAGCTTGATCTCAGGTTACTGATGCAATAAATACTGGATCTAA
AGTAGATAAGAAACATCCTTTGGCTTTACTTGCAAGTGAATTGAAGTCAATTGCTGAGAGACAG
CTGACTGTATACCATCCAGTCCTGAGGCTTTGGTATGCTGAAGCTGGAGTAGTTTCAGCTTCAA
TATTGCACAGGTTTTATGGTGAAAGACTGGTCAGTTTGCAGTGATAGATATTAATATCCAGCAC
CTTCTTGGTTATTCCTTTGAGTCAAATTTTTTCTGCTGCTGTGTAGGACCCATTTCTCAAAAAT
ATATCTTGCCTCTCGGAAGATGTGAAGCAGGTGCTTGCTGCAGCTATTCTGTTGGAGAATTATC
TAATTGAACTCCATTCATCAGAACAAGTAAAAAAGGGGGTGCATTCTCCATTGATGTTTGATTT
TGAGCGTGAGGTAAACTTACAATGGAAAGCTATCATACTGCGAAATTGTCTAATGAGCTTATTC
ATTTTTTGAAGCTTTCCTGGCTACGGATGCCACACATAATCTTTTTGTTTTTATGCTTTCGTTA
GAGTAGATGGGGTTTCTTTTTCCTACTCTTTCCTGAAAATTCCTTCAAAATGAAATGGAAAATA
TGGTTAATTTATTTCTCCTACTTGGTTGAGTTTTTTTTTTTTTCAGTCCATAGCATTTGTGGAA
AGTAGTATTTAGTGTTGCAAAAGATGTGTCTAAATCTGGGCATGCAGGCTATGCATTTTACCTT
GCTCAAGAGGCCAGGCACCTTGGCACTAAAACTTGCGCCTTGGTGGCTATGTGGTATGTCACTA
GAAAATAGATTTTGTTGGCGAAGTGATATATCAACTGCAAAGGAAATGTTATGGATGAGTATGT
AAGTGGTTAGTCACCTAATCATAATTAACAATGTTAAATTATACCTTTGTATCTGAAGTGAAAA
AGCTAAAAAATGGTTCTGAACTTGATTAATACCGGTTTTACAAAATATTTCAGTTTTCTTGACT
ATATAATTTTGCTGTTGTTTGTAGTTATTCTGCATTACATAGTTATTTTTTAATTTCTGCTTCA
TTAGCACCTACGTATTAAAGCTTGCACTTTTTGCTTAAATTGAAGCACTCACTTCCTTAGAAAA
ACTTGGCGCTTTATTTTTTGTTCAACTATACTCCCATGTTCTGCTTATCTAGCATGAGTTACAG
CAGAACTTGAATTTTCTGCTGTCCTACATGAAATGGTTAAATGGATGAAAAGAGACAAAATAAT
GTTTAAGAGCATGTATGGTATTGATAAACAATCATACTTCTCCAGCTGTGTTGTAAGTAGTTAT
CATTTAAATATCTTTCACTTTATGAAACTCTAATTAGAGGTATTATGTTGCTTTCATTTTCTTG
GTTGCAAGATTGGAGAAATCGCAAGGCCAATTATTCTTGATTGGGTGATTGCTCAGCATGAGAG
GATACTTGAATGGACTGGACGTGCTGCTGATCTTGAGGTTCTCTTTTAGAAGCTTCTATTTAGT
TGTGACATATGTAATTGTAAAATTCCTAATGCTAAATAAGATGAAGTCATGATAATGGTGTTTG
CTTCCTGCCTTTTGTCAGAATAATCAACTTGCTGGTTGAACTGTACATTGGTTTTTCTTTCTTT
ATCCTAGGTCCTTTTTAGTAATTATGCAAAGAATTCATCCCATTAGCAAATATTTATAAGCGCT
TAAACTGAACATAGGTGTATCTTTCATCTGAACTTATGTTTAGTCATTGTGCTCATATCTCTCT
CCTTTAGATATTGCTACTATCTTCTGGTCTGAAATAGCAGTTACAGTTCTGTTGTTTTTGACAA
TTTGTTTCTTCCTAGCAAATCTGGGATGTTGTTTGAGCTTTAAAATAGTCTTGTCTTAATCACA
GGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCAGCTTCAGCTGTAGAAGTATTTAGAATC
ATAGAGGAG
						
					

			
		

Sequences
Splice junction sequence	CTTTAAAATAGTCTTGTCTTAATCACAGGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCA GCTTCAGCTGTAGAAGTATTTAGAATCATAGAGGAGctgatgctcaatgcttcaaatgaaatca ttgatagcaaagtcagaatgtatgttgagaggtctgccgaagctgcttgcaagagggtatggta tctattgg
Assembled circRNA sequence	Yes 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	Transcript length: 591 Transcript exons: 63801024-63801107,63801187-63801372,63801454-63801609,63 802568-63802660,63803073-63803144 CTGATGCTCAATGCTTCAAATGAAATCATTGATAGCAAAGTCAGAATGTATGTTGAGAGGTCTG CCGAAGCTGCTTGCAAGAGGGTTACTGATGCAATAAATACTGGATCTAAAGTAGATAAGAAACA TCCTTTGGCTTTACTTGCAAGTGAATTGAAGTCAATTGCTGAGAGACAGCTGACTGTATACCAT CCAGTCCTGAGGCTTTGGTATGCTGAAGCTGGAGTAGTTTCAGCTTCAATATTGCACAGGTTTT ATGGTGAAAGACTGGACCCATTTCTCAAAAATATATCTTGCCTCTCGGAAGATGTGAAGCAGGT GCTTGCTGCAGCTATTCTGTTGGAGAATTATCTAATTGAACTCCATTCATCAGAACAAGTAAAA AAGGGGGTGCATTCTCCATTGATGTTTGATTTTGAGCGTGAGATTGGAGAAATCGCAAGGCCAA TTATTCTTGATTGGGTGATTGCTCAGCATGAGAGGATACTTGAATGGACTGGACGTGCTGCTGA TCTTGAGGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCAGCTTCAGCTGTAGAAGTATTT AGAATCATAGAGGAG
Genomic sequence	CTGATGCTCAATGCTTCAAATGAAATCATTGATAGCAAAGTCAGAATGTATGTTGAGAGGTCTG CCGAAGCTGCTTGCAAGAGGGTATGGTATCTATTGGCTCCACAAATGTAGTATAGGAATACCTG ATTTTGAAAAGTTTGACATATTAGCTTGATCTCAGGTTACTGATGCAATAAATACTGGATCTAA AGTAGATAAGAAACATCCTTTGGCTTTACTTGCAAGTGAATTGAAGTCAATTGCTGAGAGACAG CTGACTGTATACCATCCAGTCCTGAGGCTTTGGTATGCTGAAGCTGGAGTAGTTTCAGCTTCAA TATTGCACAGGTTTTATGGTGAAAGACTGGTCAGTTTGCAGTGATAGATATTAATATCCAGCAC CTTCTTGGTTATTCCTTTGAGTCAAATTTTTTCTGCTGCTGTGTAGGACCCATTTCTCAAAAAT ATATCTTGCCTCTCGGAAGATGTGAAGCAGGTGCTTGCTGCAGCTATTCTGTTGGAGAATTATC TAATTGAACTCCATTCATCAGAACAAGTAAAAAAGGGGGTGCATTCTCCATTGATGTTTGATTT TGAGCGTGAGGTAAACTTACAATGGAAAGCTATCATACTGCGAAATTGTCTAATGAGCTTATTC ATTTTTTGAAGCTTTCCTGGCTACGGATGCCACACATAATCTTTTTGTTTTTATGCTTTCGTTA GAGTAGATGGGGTTTCTTTTTCCTACTCTTTCCTGAAAATTCCTTCAAAATGAAATGGAAAATA TGGTTAATTTATTTCTCCTACTTGGTTGAGTTTTTTTTTTTTTCAGTCCATAGCATTTGTGGAA AGTAGTATTTAGTGTTGCAAAAGATGTGTCTAAATCTGGGCATGCAGGCTATGCATTTTACCTT GCTCAAGAGGCCAGGCACCTTGGCACTAAAACTTGCGCCTTGGTGGCTATGTGGTATGTCACTA GAAAATAGATTTTGTTGGCGAAGTGATATATCAACTGCAAAGGAAATGTTATGGATGAGTATGT AAGTGGTTAGTCACCTAATCATAATTAACAATGTTAAATTATACCTTTGTATCTGAAGTGAAAA AGCTAAAAAATGGTTCTGAACTTGATTAATACCGGTTTTACAAAATATTTCAGTTTTCTTGACT ATATAATTTTGCTGTTGTTTGTAGTTATTCTGCATTACATAGTTATTTTTTAATTTCTGCTTCA TTAGCACCTACGTATTAAAGCTTGCACTTTTTGCTTAAATTGAAGCACTCACTTCCTTAGAAAA ACTTGGCGCTTTATTTTTTGTTCAACTATACTCCCATGTTCTGCTTATCTAGCATGAGTTACAG CAGAACTTGAATTTTCTGCTGTCCTACATGAAATGGTTAAATGGATGAAAAGAGACAAAATAAT GTTTAAGAGCATGTATGGTATTGATAAACAATCATACTTCTCCAGCTGTGTTGTAAGTAGTTAT CATTTAAATATCTTTCACTTTATGAAACTCTAATTAGAGGTATTATGTTGCTTTCATTTTCTTG GTTGCAAGATTGGAGAAATCGCAAGGCCAATTATTCTTGATTGGGTGATTGCTCAGCATGAGAG GATACTTGAATGGACTGGACGTGCTGCTGATCTTGAGGTTCTCTTTTAGAAGCTTCTATTTAGT TGTGACATATGTAATTGTAAAATTCCTAATGCTAAATAAGATGAAGTCATGATAATGGTGTTTG CTTCCTGCCTTTTGTCAGAATAATCAACTTGCTGGTTGAACTGTACATTGGTTTTTCTTTCTTT ATCCTAGGTCCTTTTTAGTAATTATGCAAAGAATTCATCCCATTAGCAAATATTTATAAGCGCT TAAACTGAACATAGGTGTATCTTTCATCTGAACTTATGTTTAGTCATTGTGCTCATATCTCTCT CCTTTAGATATTGCTACTATCTTCTGGTCTGAAATAGCAGTTACAGTTCTGTTGTTTTTGACAA TTTGTTTCTTCCTAGCAAATCTGGGATGTTGTTTGAGCTTTAAAATAGTCTTGTCTTAATCACA GGACTGGGAGCCCCTATCACATCAGCAAAAACAAGCAGCTTCAGCTGTAGAAGTATTTAGAATC ATAGAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.350392865

Conservation Information
Conserved circRNAs	NA
PMCS	0.350392865

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							63801028-63803141(+)
63801054-63803095(-)
						
						Potential amino acid sequence
						
							MLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSIAERQLTVYHP
VLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLIELHSSEQVKK
GVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQKQAASAVEVFR
IIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSIAERQL
TVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLIELHSS
EQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQKQAASA
VEVFRIIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSI
AERQLTVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLI
ELHSSEQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQK
QAASAVEVFRIIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLAS
ELKSIAERQLTVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILL
ENYLIELHSSEQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPL
SHQQKQAASAVEVFRIIEE(+)
MISFEALSISSSMILNTSTAEAACFC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	63801028-63803141(+) 63801054-63803095(-)
Potential amino acid sequence	MLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSIAERQLTVYHP VLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLIELHSSEQVKK GVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQKQAASAVEVFR IIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSIAERQL TVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLIELHSS EQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQKQAASA VEVFRIIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLASELKSI AERQLTVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILLENYLI ELHSSEQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPLSHQQK QAASAVEVFRIIEELMLNASNEIIDSKVRMYVERSAEAACKRVTDAINTGSKVDKKHPLALLAS ELKSIAERQLTVYHPVLRLWYAEAGVVSASILHRFYGERLDPFLKNISCLSEDVKQVLAAAILL ENYLIELHSSEQVKKGVHSPLMFDFEREIGEIARPIILDWVIAQHERILEWTGRAADLEDWEPL SHQQKQAASAVEVFRIIEE(+) MISFEALSISSSMILNTSTAEAACFC*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016

circRNA

Detail information of Solyc08g080520.2_circ_g.2

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