Plant Circular RNA Database

Detail information of Solyc10g009070.2_circ_g.1

			
						 General Information
					
						CircRNA Name
						Solyc10g009070.2_circ_g.1
					
						ID in PlantcircBase
						sly_circ_003064
					
						Alias
						10:3097427|3100024
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr10: 3097427-3100024  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc10g009070.2						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						9
					
						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
						Solyc10g009070.2.1:4

General Information
CircRNA Name	Solyc10g009070.2_circ_g.1
ID in PlantcircBase	sly_circ_003064
Alias	10:3097427\|3100024
Organism	Solanum lycopersicum
Position	chr10: 3097427-3100024 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc10g009070.2
Parent gene annotation	protein_coding
Parent gene strand	-
Alternative splicing	NA
Support reads	9
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	Solyc10g009070.2.1:4

			
						 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  
						
							TCACCTTTGAAGCGGGAACACTCGAGCGCTGTTGACGAACTTTATTAATGACCTCCTCATGAAT
AGCTCTTTTCATCTTCATCACATCAACCCATTGATTctttttgattcaaaaccatggtttcccc
tcacggagagtccagcctcaaaatgctgccagcagcaggatacaagttagattagtcactccat
aaataaaa

									
								

					

						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
						
							CTTTTTGATTCAAAACCATGGTTTCCCCTCACGGAGAGTCCAGCCTCAAAATGCTGCCAGCAGC
AGGATACAAGTTAGATTAGTCACTCCATAAATAAAAAAACATGAAAAGTGTAAGACTCCCAAGC
AGGAAGTGAAAAATCCACAGAACACTAAGAATCACATGATTACTGACAATTTCCTAGTTCAGGG
TTAATTATTTACCTGATTTGTTGGCACCGCACTTATGAAGTACTCTTCGTCTTTAAAAATCTTT
GCTTTCCTTTTAGAACCAGAAACTGTCCAAGTACAAAAGAACAAATCAACAGAAGACCAAATTA
ATATGAATATTATATCTGCAAAAGAAACAAATAAGCAAACTAATACTGTTCTTTTTCCTCATCT
AGACCTAACAGTTTTTTTCTTTTCATTTTCTTTTTGATACCGCAGACATAGGCCCCCTCAAACC
AATACCACTCCTCGAGTATCCAACAATACTTTATTCCAATTGCTCCCTTGGTGACTTGAACCTC
GAAACTCATGGATTGAAGTGACGCACTTTCTAATAGATATCCCTCCTCACCTTTAAACCTTACA
ATCATAATTGAGTGTGTTCTATTATTATATTTAAATGATAACTGTGAGTACTTATTCTATGTCC
CATTAATGGACTGTGAGTGTTTTTTTAAATGATAACTGTGAGGTATTTCATCCTCAGTTAACTG
AGAGTAGTTTAATTGAATGAAATACTCACAGTTTTACACCAATGGGCATGTTGGAAAAGTAAGA
AATAGGATCATTCTCTCTACTCTAAAAATACGTTGAAAACCAAACTTGGTTGTTTGGGTTACTG
TCAAGATCTTACACAAGAATCCAGAATATGAACAATAAGGTGATATATTGATTACATAAACAGT
TTTATCTTTCTTCATCTAAATGGTGCTCTGTCTTTTTAAGTCCACTCCATTTGATGAATGGGGA
ACAATATGTTCAAAATCAAATTATAACAGAGCTCATAACTACACATCTGCCTATTCAATACATC
ATGTATCAATATGTCTAAATAGATGATTTAATGAGACAACCACAAAAACAAAGAGCGAACGAGG
ACACACCTTGTTTGTCCTTCCTTTTTGAAGGAGTGGGATCAAAATCATCTTCCTGCAATAGAAT
AGAAACAAAATTCAAATGAACACATTTAATCACCATTTGCAAATTATAAGACCAAATCATATGC
TGAGAAGGATTCTTATAACATCATATCAAATAATTTGAAGATAACTCCTCTCCACAAAAAGATA
GCTGAAGACAGAACTTCCAACAACTAAACAGTGCCAGCTGCACCATGACGCCATGTCACTTCCC
CCAAATACAAGCATGCTTGTTCAGGCAAAGCAAAAAATCACTGTTCTATGGCACTAATCTTCTA
CTCAGGATACTCTCTTTTTTTTTGGGTACTAAGTTGTATTAGAAAAGCATCATGAAATTTCAGG
ATACTTTTCAATATATCCACAATTTTGTAGCCTAACAACTCACTCATATTGACTTTTCAGTGAG
CATGTGATTTTCTTTCCCTGACCTTTGGTTTCTGTGTTTGACCCATCTTCACATCCATGCATGC
CATATCAGCTGGACCATGACACCATGTCCATTCCTCCAAATACAAGCATGCTTGTTCAGGCCAA
GCAAAAAAATCACTGTTCTACGGCACTAATCTTCTACTCAGGATACTCTCTCTTTTTTTTTTTT
TGTAGCAAGTTGTATTAGAAAGGCATCAAGAAGATACATAAAATCTCAGGATACTTTTCAATAT
ATTATAAATTTTGTAGCCTAAGCATCAGTATTATAACTCACTTATTGACTTTTCAGTGAGCATG
TGATTTTCCCTGTCTTTTGGTTTCTGTGTTAGACCCATTTGCAAATCCATGTCTGCCATATCCA
CATTCTTATTTGAAAATGAAAAAAAATCAAGTAAAAGAAAGAAACTACAGTACCCACCAGGATG
CTTTTATTAGAGTGAAGGATATCTTTGCAAAAACTAAGACAAAGAAACCACAACGACTCCCACA
CACTCCAGCTCATTTTGAACTTTGTACCAAAGAAAATAGCATAAAATGAAGGCATACACCCATC
AGGAAAAGAATAAGAGTCTGCAGATATTAAACAACTTTTAATACTAACTATTTGACAAGTAACA
CCCATGTGTTCTTCACCAGGTTAAGGTTTGTGGTTTAACTGGAAATGAAACAACGCATGTTGCG
TATATACATGTTCCATTGTGAAAGTTGTGCAGCACCTAAACTTGGTAAACAAAGGGCATATCAT
TCCATAATGCAGGAATTTCAAGAGAGTATCTAGGTTCTAAGTCAAAATTTTCAGAAGTTACCAG
CATCTAAGAATATCGTGTTACAGACCCATAGAATACCCTGTCCTTTTAGATTTCCTGTCTGTAT
TATGAAAGCAACTAGAGAGCACACCCAAAGAACATCTAAACAAAAAATCATACACAAAAAGGAG
CTTCACCTTTGAAGCGGGAACACTCGAGCGCTGTTGACGAACTTTATTAATGACCTCCTCATGA
ATAGCTCTTTTCATCTTCATCACATCAACCCATTGATT
						
					

			
		

Sequences
Splice junction sequence	TCACCTTTGAAGCGGGAACACTCGAGCGCTGTTGACGAACTTTATTAATGACCTCCTCATGAAT AGCTCTTTTCATCTTCATCACATCAACCCATTGATTctttttgattcaaaaccatggtttcccc tcacggagagtccagcctcaaaatgctgccagcagcaggatacaagttagattagtcactccat aaataaaa
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	CTTTTTGATTCAAAACCATGGTTTCCCCTCACGGAGAGTCCAGCCTCAAAATGCTGCCAGCAGC AGGATACAAGTTAGATTAGTCACTCCATAAATAAAAAAACATGAAAAGTGTAAGACTCCCAAGC AGGAAGTGAAAAATCCACAGAACACTAAGAATCACATGATTACTGACAATTTCCTAGTTCAGGG TTAATTATTTACCTGATTTGTTGGCACCGCACTTATGAAGTACTCTTCGTCTTTAAAAATCTTT GCTTTCCTTTTAGAACCAGAAACTGTCCAAGTACAAAAGAACAAATCAACAGAAGACCAAATTA ATATGAATATTATATCTGCAAAAGAAACAAATAAGCAAACTAATACTGTTCTTTTTCCTCATCT AGACCTAACAGTTTTTTTCTTTTCATTTTCTTTTTGATACCGCAGACATAGGCCCCCTCAAACC AATACCACTCCTCGAGTATCCAACAATACTTTATTCCAATTGCTCCCTTGGTGACTTGAACCTC GAAACTCATGGATTGAAGTGACGCACTTTCTAATAGATATCCCTCCTCACCTTTAAACCTTACA ATCATAATTGAGTGTGTTCTATTATTATATTTAAATGATAACTGTGAGTACTTATTCTATGTCC CATTAATGGACTGTGAGTGTTTTTTTAAATGATAACTGTGAGGTATTTCATCCTCAGTTAACTG AGAGTAGTTTAATTGAATGAAATACTCACAGTTTTACACCAATGGGCATGTTGGAAAAGTAAGA AATAGGATCATTCTCTCTACTCTAAAAATACGTTGAAAACCAAACTTGGTTGTTTGGGTTACTG TCAAGATCTTACACAAGAATCCAGAATATGAACAATAAGGTGATATATTGATTACATAAACAGT TTTATCTTTCTTCATCTAAATGGTGCTCTGTCTTTTTAAGTCCACTCCATTTGATGAATGGGGA ACAATATGTTCAAAATCAAATTATAACAGAGCTCATAACTACACATCTGCCTATTCAATACATC ATGTATCAATATGTCTAAATAGATGATTTAATGAGACAACCACAAAAACAAAGAGCGAACGAGG ACACACCTTGTTTGTCCTTCCTTTTTGAAGGAGTGGGATCAAAATCATCTTCCTGCAATAGAAT AGAAACAAAATTCAAATGAACACATTTAATCACCATTTGCAAATTATAAGACCAAATCATATGC TGAGAAGGATTCTTATAACATCATATCAAATAATTTGAAGATAACTCCTCTCCACAAAAAGATA GCTGAAGACAGAACTTCCAACAACTAAACAGTGCCAGCTGCACCATGACGCCATGTCACTTCCC CCAAATACAAGCATGCTTGTTCAGGCAAAGCAAAAAATCACTGTTCTATGGCACTAATCTTCTA CTCAGGATACTCTCTTTTTTTTTGGGTACTAAGTTGTATTAGAAAAGCATCATGAAATTTCAGG ATACTTTTCAATATATCCACAATTTTGTAGCCTAACAACTCACTCATATTGACTTTTCAGTGAG CATGTGATTTTCTTTCCCTGACCTTTGGTTTCTGTGTTTGACCCATCTTCACATCCATGCATGC CATATCAGCTGGACCATGACACCATGTCCATTCCTCCAAATACAAGCATGCTTGTTCAGGCCAA GCAAAAAAATCACTGTTCTACGGCACTAATCTTCTACTCAGGATACTCTCTCTTTTTTTTTTTT TGTAGCAAGTTGTATTAGAAAGGCATCAAGAAGATACATAAAATCTCAGGATACTTTTCAATAT ATTATAAATTTTGTAGCCTAAGCATCAGTATTATAACTCACTTATTGACTTTTCAGTGAGCATG TGATTTTCCCTGTCTTTTGGTTTCTGTGTTAGACCCATTTGCAAATCCATGTCTGCCATATCCA CATTCTTATTTGAAAATGAAAAAAAATCAAGTAAAAGAAAGAAACTACAGTACCCACCAGGATG CTTTTATTAGAGTGAAGGATATCTTTGCAAAAACTAAGACAAAGAAACCACAACGACTCCCACA CACTCCAGCTCATTTTGAACTTTGTACCAAAGAAAATAGCATAAAATGAAGGCATACACCCATC AGGAAAAGAATAAGAGTCTGCAGATATTAAACAACTTTTAATACTAACTATTTGACAAGTAACA CCCATGTGTTCTTCACCAGGTTAAGGTTTGTGGTTTAACTGGAAATGAAACAACGCATGTTGCG TATATACATGTTCCATTGTGAAAGTTGTGCAGCACCTAAACTTGGTAAACAAAGGGCATATCAT TCCATAATGCAGGAATTTCAAGAGAGTATCTAGGTTCTAAGTCAAAATTTTCAGAAGTTACCAG CATCTAAGAATATCGTGTTACAGACCCATAGAATACCCTGTCCTTTTAGATTTCCTGTCTGTAT TATGAAAGCAACTAGAGAGCACACCCAAAGAACATCTAAACAAAAAATCATACACAAAAAGGAG CTTCACCTTTGAAGCGGGAACACTCGAGCGCTGTTGACGAACTTTATTAATGACCTCCTCATGA ATAGCTCTTTTCATCTTCATCACATCAACCCATTGATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.173734151

Conservation Information
Conserved circRNAs	NA
PMCS	0.173734151

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3099984-3097631(+)
3100008-3100008(-)
						
						Potential amino acid sequence
						
							MNSSFHLHHINPLILFDSKPWFPLTESPASKC*(+)
MKMKRAIHEEVINKVRQQRSSVPASKEDDFDPTPSKRKDKQVSGSKRKAKIFKDEEYFISAVPT
NQHFEAGLSVRGNHGFESKRINGLM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						fruit ripening

Functional Information
Coding potential	Y
Potential coding position	3099984-3097631(+) 3100008-3100008(-)
Potential amino acid sequence	MNSSFHLHHINPLILFDSKPWFPLTESPASKC(+) MKMKRAIHEEVINKVRQQRSSVPASKEDDFDPTPSKRKDKQVSGSKRKAKIFKDEEYFISAVPT NQHFEAGLSVRGNHGFESKRINGLM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	fruit ripening

			
						 Other Information
					
						References
						Yin et al., 2018

circRNA

Detail information of Solyc10g009070.2_circ_g.1

Address

Any questions?

Supported by