Plant Circular RNA Database

Detail information of Solyc08g066730.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc08g066730.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_002581
					
						Alias
						8:52760683|52761842
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr8: 55551533-55552692  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc08g066730.2						
					
						Parent gene annotation
						
							N6-adenosine-methyltransferase MT-A70-like
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Solyc08g066730.2_circ_g.1 						
					
						Support reads
						4
					
						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
						Solyc08g066730.2.1:3

General Information
CircRNA Name	Solyc08g066730.2_circ_g.2
ID in PlantcircBase	sly_circ_002581
Alias	8:52760683\|52761842
Organism	Solanum lycopersicum
Position	chr8: 55551533-55552692 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc08g066730.2
Parent gene annotation	N6-adenosine-methyltransferase MT-A70-like
Parent gene strand	+
Alternative splicing	Solyc08g066730.2_circ_g.1
Support reads	4
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	Solyc08g066730.2.1:3

			
						 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  
						
							CTGATGATGAAATGCGCACTTTAAATGTCCCGGCACTGCAAACTGATGGTCTTATATTTCTTTG
GGTCACCGGACGCGCAATGGAGCTTGGACGGGAATGttcaaaagcaaaggtggttcccaggtga
aggaatattgttcagctttaacaaaggaagattgtcgacgccaagctggttcctacattgcttg
tgataagg

						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
						
							TTCAAAAGCAAAGGTGGTTCCCAGGTGAAGGAATATTGTTCAGCTTTAACAAAGGAAGATTGTC
GACGCCAAGCTGGTTCCTACATTGCTTGTGATAAGGTTAGACCAAGTGATTTCTGGTACTTATG
ACACTCGAAGCTTTTAAGTTGTTACCATTTGTTTTGAACATAGATAGTACTCCGAACCAATAAT
GAAGATTGTAGATGGTGTTAATCACAATGTTATTGAAAGGTATTGCTTTGTCGATTAAAATGAT
GCAAAGCGAGGGGTCGTTGCTTCATGGGCCAATCTATGTGTTTCTGTTATGTGTCTGCTTCAAA
CAGTCTGCATAAAGTGACCCAACAAGAAATAGTTTATTCTTTGATTCTCAACTTTGAGGAGTTG
GATTAAATCAACATTGTTGCATATCGGATGTCAAAATCAGTTATTTTATTGAATTTTGATTATC
ATTATACTAAATTCATATATGTATGATTTTAGGTTTCTGTGAACTGTGCACTTATTTTCTTGCT
TTTCACTTCAAACCCTATGGATCTTGACATATTTTTGTGTTTTTTTTTCACTTTTAAAGCACTA
GTTAATCATTACCTTTATATTCGGAGGGATATGGTAACTTTATTATGATGCATTTTTAGGTTCA
TTTTCGGCGAATAATTGCTGTGCATACTGATGTCAACTTGGGTGATTGCTCTTTTCTTGATACT
TGCCGTCACATGAAGGTGATTTCCCTATCTAAAATGTTTACATAAGGATTTGGTTATATCTTCT
GGAAATACATAGTACTTACACTCATTTAATTCGCAGACATGCAAGTATGTACATTATGAGCTTG
ACTCGACGCCAGATGTATCACCCCTGATGATGGGAGCATCTACCTTGGCCCCTCCCAAGCCTTT
GAAACCTCAGCGTGCTCATTACTGTTCAGAAGTAGAGCTTGGTGAACCACAATGGATTAATTGT
GACATACGGTCATTTAGAATGGATATTTTAGGGCAGTTTGGAGTTATAATGGCTGATCCACCAT
GGGATATTCATATGGAATTGCCTTATGGGACAATGGCTGATGATGAAATGCGCACTTTAAATGT
CCCGGCACTGCAAACTGATGGTCTTATATTTCTTTGGGTCACCGGACGCGCAATGGAGCTTGGA
CGGGAATG

Sequences
Splice junction sequence	CTGATGATGAAATGCGCACTTTAAATGTCCCGGCACTGCAAACTGATGGTCTTATATTTCTTTG GGTCACCGGACGCGCAATGGAGCTTGGACGGGAATGttcaaaagcaaaggtggttcccaggtga aggaatattgttcagctttaacaaaggaagattgtcgacgccaagctggttcctacattgcttg tgataagg
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	TTCAAAAGCAAAGGTGGTTCCCAGGTGAAGGAATATTGTTCAGCTTTAACAAAGGAAGATTGTC GACGCCAAGCTGGTTCCTACATTGCTTGTGATAAGGTTAGACCAAGTGATTTCTGGTACTTATG ACACTCGAAGCTTTTAAGTTGTTACCATTTGTTTTGAACATAGATAGTACTCCGAACCAATAAT GAAGATTGTAGATGGTGTTAATCACAATGTTATTGAAAGGTATTGCTTTGTCGATTAAAATGAT GCAAAGCGAGGGGTCGTTGCTTCATGGGCCAATCTATGTGTTTCTGTTATGTGTCTGCTTCAAA CAGTCTGCATAAAGTGACCCAACAAGAAATAGTTTATTCTTTGATTCTCAACTTTGAGGAGTTG GATTAAATCAACATTGTTGCATATCGGATGTCAAAATCAGTTATTTTATTGAATTTTGATTATC ATTATACTAAATTCATATATGTATGATTTTAGGTTTCTGTGAACTGTGCACTTATTTTCTTGCT TTTCACTTCAAACCCTATGGATCTTGACATATTTTTGTGTTTTTTTTTCACTTTTAAAGCACTA GTTAATCATTACCTTTATATTCGGAGGGATATGGTAACTTTATTATGATGCATTTTTAGGTTCA TTTTCGGCGAATAATTGCTGTGCATACTGATGTCAACTTGGGTGATTGCTCTTTTCTTGATACT TGCCGTCACATGAAGGTGATTTCCCTATCTAAAATGTTTACATAAGGATTTGGTTATATCTTCT GGAAATACATAGTACTTACACTCATTTAATTCGCAGACATGCAAGTATGTACATTATGAGCTTG ACTCGACGCCAGATGTATCACCCCTGATGATGGGAGCATCTACCTTGGCCCCTCCCAAGCCTTT GAAACCTCAGCGTGCTCATTACTGTTCAGAAGTAGAGCTTGGTGAACCACAATGGATTAATTGT GACATACGGTCATTTAGAATGGATATTTTAGGGCAGTTTGGAGTTATAATGGCTGATCCACCAT GGGATATTCATATGGAATTGCCTTATGGGACAATGGCTGATGATGAAATGCGCACTTTAAATGT CCCGGCACTGCAAACTGATGGTCTTATATTTCTTTGGGTCACCGGACGCGCAATGGAGCTTGGA CGGGAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.469971964

Conservation Information
Conserved circRNAs	NA
PMCS	0.469971964

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							55552247-55551557(+)
55552618-55551624(+)
55552691-55551557(+)
						
						Potential amino acid sequence
						
							MKTCKYVHYELDSTPDVSPLMMGASTLAPPKPLKPQRAHYCSEVELGEPQWINCDIRSFRMDIL
GQFGVIMADPPWDIHMELPYGTMADDEMRTLNVPALQTDGLIFLWVTGRAMELGRECSKAKVVP
R*(+)
MSRHCKLMVLYFFGSPDAQWSLDGNVQKQRWFPGEGILFSFNKGRLSTPSWFLHCL*(+)
MFKSKGGSQVKEYCSALTKEDCRRQAGSYIACDKVHFRRIIAVHTDVNLGDCSFLDTCRHMKTC
KYVHYELDSTPDVSPLMMGASTLAPPKPLKPQRAHYCSEVELGEPQWINCDIRSFRMDILGQFG
VIMADPPWDIHMELPYGTMADDEMRTLNVPALQTDGLIFLWVTGRAMELGRECSKAKVVPR*(+
)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	55552247-55551557(+) 55552618-55551624(+) 55552691-55551557(+)
Potential amino acid sequence	MKTCKYVHYELDSTPDVSPLMMGASTLAPPKPLKPQRAHYCSEVELGEPQWINCDIRSFRMDIL GQFGVIMADPPWDIHMELPYGTMADDEMRTLNVPALQTDGLIFLWVTGRAMELGRECSKAKVVP R(+) MSRHCKLMVLYFFGSPDAQWSLDGNVQKQRWFPGEGILFSFNKGRLSTPSWFLHCL(+) MFKSKGGSQVKEYCSALTKEDCRRQAGSYIACDKVHFRRIIAVHTDVNLGDCSFLDTCRHMKTC KYVHYELDSTPDVSPLMMGASTLAPPKPLKPQRAHYCSEVELGEPQWINCDIRSFRMDILGQFG VIMADPPWDIHMELPYGTMADDEMRTLNVPALQTDGLIFLWVTGRAMELGRECSKAKVVPR*(+ )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Yin et al., 2018

circRNA

Detail information of Solyc08g066730.2_circ_g.2

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