Plant Circular RNA Database

Detail information of Solyc10g074700.1_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc10g074700.1_circ_g.2
					
						ID in PlantcircBase
						sly_circ_003146
					
						Alias
						10:57633287|57639245
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr10: 58308755-58314713  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc10g074700.1						
					
						Parent gene annotation
						
							Ethanolamine-phosphate cytidylyltransferase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Solyc10g074700.1_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
						Solyc10g074700.1.1:5

General Information
CircRNA Name	Solyc10g074700.1_circ_g.2
ID in PlantcircBase	sly_circ_003146
Alias	10:57633287\|57639245
Organism	Solanum lycopersicum
Position	chr10: 58308755-58314713 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc10g074700.1
Parent gene annotation	Ethanolamine-phosphate cytidylyltransferase
Parent gene strand	+
Alternative splicing	Solyc10g074700.1_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	Solyc10g074700.1.1:5

			
						 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  
						
							TCCCATTATGAATCTTCATGAAAGGAGCCTAAGTGTTTTGGCTTGTCGCTATGCTGATGAAGTG
ATTATTGGTGCTCCAGGGGAGGTGTCAAAAGATATGgatgattatggttggtgctgtgaagtgg
gtggatgaagtcatctccgatgccccctatgccattactgaagaatttatgaggaaactatttg
atgagtat

						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: 679
Transcript exons: 58308755-58308990,58309260-58309441,58311717-58311788,58
312561-58312628,58314593-58314713
GATGATTATGGTTGGTGCTGTGAAGTGGGTGGATGAAGTCATCTCCGATGCCCCCTATGCCATT
ACTGAAGAATTTATGAGGAAACTATTTGATGAGTATAACATAGACTATATTATTCATGGGGATG
ACCCTTGTCTTCTTCCTGATGGAACTGATGCTTATGCCCTTGCTAAGAAGGTTGGTCGCTATAA
GCAGATCAAGCGCACAGAAGGAGTTTCAAGCACTGATATTGTTGGTCGAATGCTTCTTTGTGTG
AGAGAGAGGACCACTGTTGACTCCCCCAGTCATGCCTCCTTGCAGAGACAATTTAGCCATGGTC
ACAGCCAAAAATCTGACGACGGTGGTGCTGGGAGCGATACACGCGTATCTCATTTTCTTCCTAC
GTCTCGTAGAATTGTACAATTTTCAAATTCGAAGGGAGCTGGACCTGATGCTCGCATAGTCTAT
ATTGATGGCGCCTTTGATCTTTTCCATGCTGGACATGTAGAGATATTAAGGCTTGCTCGAGGAC
TTGGAGACTTTCTACTAGTAGGCATTCATACTGATCAAACTGTAAGTGCCAATAGAGGTGGACA
CCGTCCCATTATGAATCTTCATGAAAGGAGCCTAAGTGTTTTGGCTTGTCGCTATGCTGATGAA
GTGATTATTGGTGCTCCAGGGGAGGTGTCAAAAGATATG
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TCCCATTATGAATCTTCATGAAAGGAGCCTAAGTGTTTTGGCTTGTCGCTATGCTGATGAAGTG ATTATTGGTGCTCCAGGGGAGGTGTCAAAAGATATGgatgattatggttggtgctgtgaagtgg gtggatgaagtcatctccgatgccccctatgccattactgaagaatttatgaggaaactatttg atgagtat
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: 679 Transcript exons: 58308755-58308990,58309260-58309441,58311717-58311788,58 312561-58312628,58314593-58314713 GATGATTATGGTTGGTGCTGTGAAGTGGGTGGATGAAGTCATCTCCGATGCCCCCTATGCCATT ACTGAAGAATTTATGAGGAAACTATTTGATGAGTATAACATAGACTATATTATTCATGGGGATG ACCCTTGTCTTCTTCCTGATGGAACTGATGCTTATGCCCTTGCTAAGAAGGTTGGTCGCTATAA GCAGATCAAGCGCACAGAAGGAGTTTCAAGCACTGATATTGTTGGTCGAATGCTTCTTTGTGTG AGAGAGAGGACCACTGTTGACTCCCCCAGTCATGCCTCCTTGCAGAGACAATTTAGCCATGGTC ACAGCCAAAAATCTGACGACGGTGGTGCTGGGAGCGATACACGCGTATCTCATTTTCTTCCTAC GTCTCGTAGAATTGTACAATTTTCAAATTCGAAGGGAGCTGGACCTGATGCTCGCATAGTCTAT ATTGATGGCGCCTTTGATCTTTTCCATGCTGGACATGTAGAGATATTAAGGCTTGCTCGAGGAC TTGGAGACTTTCTACTAGTAGGCATTCATACTGATCAAACTGTAAGTGCCAATAGAGGTGGACA CCGTCCCATTATGAATCTTCATGAAAGGAGCCTAAGTGTTTTGGCTTGTCGCTATGCTGATGAA GTGATTATTGGTGCTCCAGGGGAGGTGTCAAAAGATATG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.763707932

Conservation Information
Conserved circRNAs	NA
PMCS	0.763707932

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							58308757-58308787(+)
						
						Potential amino acid sequence
						
							MIMVGAVKWVDEVISDAPYAITEEFMRKLFDEYNIDYIIHGDDPCLLPDGTDAYALAKKVGRYK
QIKRTEGVSSTDIVGRMLLCVRERTTVDSPSHASLQRQFSHGHSQKSDDGGAGSDTRVSHFLPT
SRRIVQFSNSKGAGPDARIVYIDGAFDLFHAGHVEILRLARGLGDFLLVGIHTDQTVSANRGGH
RPIMNLHERSLSVLACRYADEVIIGAPGEVSKDMDDYGWCCEVGG*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	58308757-58308787(+)
Potential amino acid sequence	MIMVGAVKWVDEVISDAPYAITEEFMRKLFDEYNIDYIIHGDDPCLLPDGTDAYALAKKVGRYK QIKRTEGVSSTDIVGRMLLCVRERTTVDSPSHASLQRQFSHGHSQKSDDGGAGSDTRVSHFLPT SRRIVQFSNSKGAGPDARIVYIDGAFDLFHAGHVEILRLARGLGDFLLVGIHTDQTVSANRGGH RPIMNLHERSLSVLACRYADEVIIGAPGEVSKDMDDYGWCCEVGG*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Yin et al., 2018

circRNA

Detail information of Solyc10g074700.1_circ_g.2

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