Plant Circular RNA Database

Detail information of Solyc10g074650.1_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc10g074650.1_circ_g.2
					
						ID in PlantcircBase
						sly_circ_003142
					
						Alias
						10:57524232|57525214, Slcirc155
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr10: 58199700-58200682  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc10g074650.1						
					
						Parent gene annotation
						
							Hexosyltransferase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Solyc10g074650.1_circ_g.1 						
					
						Support reads
						22/21
					
						Tissues
						fruit/leaf
					
						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
						Solyc10g074650.1.1:2

General Information
CircRNA Name	Solyc10g074650.1_circ_g.2
ID in PlantcircBase	sly_circ_003142
Alias	10:57524232\|57525214, Slcirc155
Organism	Solanum lycopersicum
Position	chr10: 58199700-58200682 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc10g074650.1
Parent gene annotation	Hexosyltransferase
Parent gene strand	-
Alternative splicing	Solyc10g074650.1_circ_g.1
Support reads	22/21
Tissues	fruit/leaf
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	Solyc10g074650.1.1:2

			
						 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  
						
							TACTAGTTGTCTGAATTTCTTGTCTACATTACTGCAATCTACGTGGCATGCCTTTGCTTGAGCA
ATTACAGATTCCATCTTAGGTAGCTTCTGATCAATCctctgttaccaacttcagatatgttcca
gaaatatcttgttccctccacctcactagatcaataacatttaatccagacatccaagcacaag
atgtttca

									
								

					

						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: 892
Transcript exons: 58199700-58200233,58200325-58200682
CTCTGTTACCAACTTCAGATATGTTCCAGAAATATCTTGTTCCCTCCACCTCACTAGATCAATA
ACATTTAATCCAGACATCCAAGCACAAGATGTTTCATCCAATCTCTTGTCAGCAAAAAGTTTCT
GCAGTTGAATCAGTCTAACTGAGCAGCACTGAACCGCACCATTCACTTTCCCGTCCATATTGAT
GCCCCATAAGACTGACAAGTCTCTTTGCACAATAATGTCATCATCCAAGACAACGACTTTCTTC
AAACTAGGGAATATCTCAGGAAGAAGATAATGGGAATGCGAAAAAACAGACAGGTATTCTGTTG
TTGGCGGCCCATCAACCTTGTGGAAGGAGACACGATATTCTTCAGGCAAGGAAAGATGAATAGA
CGTTGATGCCTTATTATTTTCCAGCTTATGATCTTCAATATTCAACACCTCAACTGTCGCCTCC
ATATACTTATTCCTCGAGAACCATAACTTCATGGCAAAGTAATTCTGTTTATCTGTTACCACAT
GAAATACTTGATTCTCACTTTCTTTTGCATGTGTTACGGTGGAGTTAATTACAGCAGACGATGC
TAGCACATTGCTGGAGAATATAACGAAGTGGCGAAGATCTGGATTCAAAAGTCTCTCTACCAAT
GACTGATCAATATCAGGAGGAGGGTCTCTAAAATACTCTACAGTTAATCGCATTGACAGGCAAT
GATGACTCTTGGGCATGGTTTGAACAGCTAGTTGGTAGAGGAAGGCACTCTGTCTCATATGGAA
AGTAGCTTCATCTTCAGTAAGATCTACTAGTTGTCTGAATTTCTTGTCTACATTACTGCAATCT
ACGTGGCATGCCTTTGCTTGAGCAATTACAGATTCCATCTTAGGTAGCTTCTGATCAATC
						
					

						Genomic sequence
						
							CTCTGTTACCAACTTCAGATATGTTCCAGAAATATCTTGTTCCCTCCACCTCACTAGATCAATA
ACATTTAATCCAGACATCCAAGCACAAGATGTTTCATCCAATCTCTTGTCAGCAAAAAGTTTCT
GCAGTTGAATCAGTCTAACTGAGCAGCACTGAACCGCACCATTCACTTTCCCGTCCATATTGAT
GCCCCATAAGACTGACAAGTCTCTTTGCACAATAATGTCATCATCCAAGACAACGACTTTCTTC
AAACTAGGGAATATCTCAGGAAGAAGATAATGGGAATGCGAAAAAACAGACAGGTATTCTGTTG
TTGGCGGCCCATCAACCTTGTGGAAGGAGACACGATATTCTTCAGGCAAGGAAAGATGAATAGA
CGTTGATGCCTTATTATTTTCCAGCTTATGATCTTCAATATTCAACACCTCAACTGTCGCCTCC
ATATACTTATTCCTCGAGAACCATAACTTCATGGCAAAGTAATTCTGTTTATCTGTTACCACAT
GAAATACTTGATTCTCACTTTCCTGCATATAGAAGAAAACACGATCAGAAAAACTGATTAAGTG
TTGACAGCAGAAAAAAATTGCAATTGAAGAGAGAATATACAAACCATACTTTTGCATGTGTTAC
GGTGGAGTTAATTACAGCAGACGATGCTAGCACATTGCTGGAGAATATAACGAAGTGGCGAAGA
TCTGGATTCAAAAGTCTCTCTACCAATGACTGATCAATATCAGGAGGAGGGTCTCTAAAATACT
CTACAGTTAATCGCATTGACAGGCAATGATGACTCTTGGGCATGGTTTGAACAGCTAGTTGGTA
GAGGAAGGCACTCTGTCTCATATGGAAAGTAGCTTCATCTTCAGTAAGATCTACTAGTTGTCTG
AATTTCTTGTCTACATTACTGCAATCTACGTGGCATGCCTTTGCTTGAGCAATTACAGATTCCA
TCTTAGGTAGCTTCTGATCAATC
						
					

			
		

Sequences
Splice junction sequence	TACTAGTTGTCTGAATTTCTTGTCTACATTACTGCAATCTACGTGGCATGCCTTTGCTTGAGCA ATTACAGATTCCATCTTAGGTAGCTTCTGATCAATCctctgttaccaacttcagatatgttcca gaaatatcttgttccctccacctcactagatcaataacatttaatccagacatccaagcacaag atgtttca
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: 892 Transcript exons: 58199700-58200233,58200325-58200682 CTCTGTTACCAACTTCAGATATGTTCCAGAAATATCTTGTTCCCTCCACCTCACTAGATCAATA ACATTTAATCCAGACATCCAAGCACAAGATGTTTCATCCAATCTCTTGTCAGCAAAAAGTTTCT GCAGTTGAATCAGTCTAACTGAGCAGCACTGAACCGCACCATTCACTTTCCCGTCCATATTGAT GCCCCATAAGACTGACAAGTCTCTTTGCACAATAATGTCATCATCCAAGACAACGACTTTCTTC AAACTAGGGAATATCTCAGGAAGAAGATAATGGGAATGCGAAAAAACAGACAGGTATTCTGTTG TTGGCGGCCCATCAACCTTGTGGAAGGAGACACGATATTCTTCAGGCAAGGAAAGATGAATAGA CGTTGATGCCTTATTATTTTCCAGCTTATGATCTTCAATATTCAACACCTCAACTGTCGCCTCC ATATACTTATTCCTCGAGAACCATAACTTCATGGCAAAGTAATTCTGTTTATCTGTTACCACAT GAAATACTTGATTCTCACTTTCTTTTGCATGTGTTACGGTGGAGTTAATTACAGCAGACGATGC TAGCACATTGCTGGAGAATATAACGAAGTGGCGAAGATCTGGATTCAAAAGTCTCTCTACCAAT GACTGATCAATATCAGGAGGAGGGTCTCTAAAATACTCTACAGTTAATCGCATTGACAGGCAAT GATGACTCTTGGGCATGGTTTGAACAGCTAGTTGGTAGAGGAAGGCACTCTGTCTCATATGGAA AGTAGCTTCATCTTCAGTAAGATCTACTAGTTGTCTGAATTTCTTGTCTACATTACTGCAATCT ACGTGGCATGCCTTTGCTTGAGCAATTACAGATTCCATCTTAGGTAGCTTCTGATCAATC
Genomic sequence	CTCTGTTACCAACTTCAGATATGTTCCAGAAATATCTTGTTCCCTCCACCTCACTAGATCAATA ACATTTAATCCAGACATCCAAGCACAAGATGTTTCATCCAATCTCTTGTCAGCAAAAAGTTTCT GCAGTTGAATCAGTCTAACTGAGCAGCACTGAACCGCACCATTCACTTTCCCGTCCATATTGAT GCCCCATAAGACTGACAAGTCTCTTTGCACAATAATGTCATCATCCAAGACAACGACTTTCTTC AAACTAGGGAATATCTCAGGAAGAAGATAATGGGAATGCGAAAAAACAGACAGGTATTCTGTTG TTGGCGGCCCATCAACCTTGTGGAAGGAGACACGATATTCTTCAGGCAAGGAAAGATGAATAGA CGTTGATGCCTTATTATTTTCCAGCTTATGATCTTCAATATTCAACACCTCAACTGTCGCCTCC ATATACTTATTCCTCGAGAACCATAACTTCATGGCAAAGTAATTCTGTTTATCTGTTACCACAT GAAATACTTGATTCTCACTTTCCTGCATATAGAAGAAAACACGATCAGAAAAACTGATTAAGTG TTGACAGCAGAAAAAAATTGCAATTGAAGAGAGAATATACAAACCATACTTTTGCATGTGTTAC GGTGGAGTTAATTACAGCAGACGATGCTAGCACATTGCTGGAGAATATAACGAAGTGGCGAAGA TCTGGATTCAAAAGTCTCTCTACCAATGACTGATCAATATCAGGAGGAGGGTCTCTAAAATACT CTACAGTTAATCGCATTGACAGGCAATGATGACTCTTGGGCATGGTTTGAACAGCTAGTTGGTA GAGGAAGGCACTCTGTCTCATATGGAAAGTAGCTTCATCTTCAGTAAGATCTACTAGTTGTCTG AATTTCTTGTCTACATTACTGCAATCTACGTGGCATGCCTTTGCTTGAGCAATTACAGATTCCA TCTTAGGTAGCTTCTGATCAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.94758167

Conservation Information
Conserved circRNAs	NA
PMCS	0.94758167

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							58200662-58200679(-)
						
						Potential amino acid sequence
						
							MESVIAQAKACHVDCSNVDKKFRQLVDLTEDEATFHMRQSAFLYQLAVQTMPKSHHCLSMRLTV
EYFRDPPPDIDQSLVERLLNPDLRHFVIFSSNVLASSAVINSTVTHAKESENQVFHVVTDKQNY
FAMKLWFSRNKYMEATVEVLNIEDHKLENNKASTSIHLSLPEEYRVSFHKVDGPPTTEYLSVFS
HSHYLLPEIFPSLKKVVVLDDDIIVQRDLSVLWGINMDGKVNGAVQCCSVRLIQLQKLFADKRL
DETSCAWMSGLNVIDLVRWREQDISGTYLKLVTED*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	58200662-58200679(-)
Potential amino acid sequence	MESVIAQAKACHVDCSNVDKKFRQLVDLTEDEATFHMRQSAFLYQLAVQTMPKSHHCLSMRLTV EYFRDPPPDIDQSLVERLLNPDLRHFVIFSSNVLASSAVINSTVTHAKESENQVFHVVTDKQNY FAMKLWFSRNKYMEATVEVLNIEDHKLENNKASTSIHLSLPEEYRVSFHKVDGPPTTEYLSVFS HSHYLLPEIFPSLKKVVVLDDDIIVQRDLSVLWGINMDGKVNGAVQCCSVRLIQLQKLFADKRL DETSCAWMSGLNVIDLVRWREQDISGTYLKLVTED*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Yin et al., 2018; Wang et al., 2018b

circRNA

Detail information of Solyc10g074650.1_circ_g.2

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