Plant Circular RNA Database

Detail information of Solyc02g084690.2_circ_g.1

			
						 General Information
					
						CircRNA Name
						Solyc02g084690.2_circ_g.1
					
						ID in PlantcircBase
						sly_circ_000748
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr2: 47792737-47795786  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc02g084690.2						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						Solyc02g084690.2.1:5

General Information
CircRNA Name	Solyc02g084690.2_circ_g.1
ID in PlantcircBase	sly_circ_000748
Alias	NA
Organism	Solanum lycopersicum
Position	chr2: 47792737-47795786 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc02g084690.2
Parent gene annotation	protein_coding
Parent gene strand	-
Alternative splicing	NA
Support reads	2
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	Solyc02g084690.2.1:5

			
						 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  
						
							CTGAGACAATACGAATTTTGTCTGGCAAGAGGGACACCTCCGCGAGCAACCGTGCTTCACTGAA
GCCTTCATCAACACGCCTAGAATGTGGTTCCAAAACctccccaggatgacgaatgttcaaagca
tgagcatcaagtttgtaattatgttgtggaatcagaagagattcatcagaagatggcgactgaa
tattctgc

									
								

					

						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
						
							CTCCCCAGGATGACGAATGTTCAAAGCATGAGCATCAAGTTTGTAATTATGTTGTGGAATCAGA
AGAGATTCATCAGAAGATGGCGACTGAATATTCTGCAATATCAGGAGGATAAAAGGAAATGGAA
GATCATTAGTAGATAAATATCTGAATATTCTCTCAAGTTTAGTCATACCCAAACTGACCGAGTT
CACATGACAAACTCTAAGCTAGAAAAAACACCAGTAAGTTCAAGTTGTATCAGCATGTGTAAGA
TTTTCGCAAACAATTAATCTAGCTAGCTCTGACAAGATATTCAATTCCAAATTGACATTAACTC
AATGGTGCCCTGTTCAACAAATAGCAGACCAGCAATGATGCAACTACAAACTATAACATTGGTT
TATGGTACAGATAAGTAAAGGATATACACACTTAACCAAATATTAGACCTGAAAGGTATTCTAG
AACTAACGGAAAACAACAAATCACAAAAGGAAAACAAGGGACACTGCTAAAATCATCTTTATTC
CTTGGGAAAAAAACATAACATGAAACAGAAAAGGCTTCTATTATGGGATGGAGAGTTGGTGGGA
AACCTCTATCTTCCTGCTCCAACGTAGTTGGCCGGTCCGACCAGCAAGTGCATAAAGGGCAAAA
TGGCGTAAATCCACAACTCCTGAATTCTCAGATGCCTGGATTAAACAAGTATGTCAAATTTTAG
AACTAAATAAAAAGGAAGCCTAGGAATACCTTGTCACCATAAGTATATATAATTAATAATTAAA
AAAAAAACAATAAAATTCATGAAAAGAAGATAAAAATAAAACTGAATATACACAACCCCTCAGG
AAGGACTAGATGCTTCATTTTCATCATGCCTTCCCCCAAGGCCCCAAAACAAACAAGAACTCAA
CACACAAAAATAGGGAATAACAGGTATAATGATGGTGATTTCTCCATCCTCCTCATATGGAGGT
ACACTAGCACATGTGAATCACAATTCATGAGCACTATCATCTTAAAAGTCACATGTTTATAAGT
ACTTCACCAAGGACCCTGGAAATCTATTTGGAAGAGTGTGGTACCAACAAAGGTGAAGTGCTTC
AGGTAGCCAGGACCCAGGAGAGTCTGTTTGACTCATGAGGCACTACAAAAAAAGGGAATTTGCA
TTGTTTCAATGTGCTCATTATGTAAGGAGGCCTCAAGAGAAAAACAACCATCTTTTTTCACTGT
AGAGTGGCAACATGAGTGTGGCATAATTTTTCAATATGGCTAAGGTGACCTGATCTATGCCAGA
GCATACTGAAGACCTTCTAGGTTGTTGGATTAGAAGGGAAGAAAGCAAGAGCCAAAAGATATGG
TGGAAATAATACCTGCCTGCATTTGGTGGAACATTTGGAAGAAAGAAATGAAAATATTTTTGAA
GGCAAACAATGTAAAATACAGAAGATCGAGTGGAAGCTTATCACTTAATGTTTTTGGTGTAAAG
AGCAATATATAGAGGAGGAAGGTCAGTTAGTGGATAGACTTCTGTAATTACTTTCCGTAAGCGT
AAATATTTGGAGGTGGACAACATACCCTTAATGCTGAGGAATACAAATTTTCCAGTTGTTTTTT
TTAAAAAAAAAGTAATTCACCAAGGACCTTAATACAAAATCATAAGAAGTGACGAAGAATAAGG
TCCAAGCTCAGACATTTTGCTCAAGGAGAGCTATTATTATTTCAATAAGAAGCTGGCTTATGCA
GACTAATGAAAGTATCTACAATTTTTCTTTGTGATATTTAATTTGACAAAGAGAGATAATTACT
TCTCTTATTTGCTCAGACCAGAAATATGAAAGAGCGAAATCGGAAATACAAAAGAGTCATTTTA
CAGGCTTAGACGACAAGAACTAATATAAGTCATTTTCAAGTCAGACTCCTTGAATGAAAGCCAC
GACACTTAAGTTTTTCTTTTACATCTCTTCTCGATCTCAATATGCAAGCGAATAGCACATATTC
TGTATTCTATTTCTTTCTTCCCCAAATAACAACATGATTGATACAATGATATTATGTTTCTGTG
GGGAACAAAAATAAAGCATGGCTATACTTGATAGAGACTGTAAGACGAGCAAAAAGAAATGTTT
GTAGAAAAAGCATGAATGTTTACCTCCTTCTCAGCAGCACTTCTTCTATGCTGCTCTGCACTTT
TCTCAGCCATTTCAATCTCTTCAAATGGATCAATATGCATCTGAAAAGGGAGAAGATGTAACTT
ATGAGAAATTTAGCTCAGATGTTTTACTTACTCAAAGAAAAGGAGAAGTTTAGCTCCAGATGTT
TTACTTACTCAAAGAATAAGAGAAATTTAGCTCCAGATGTTTTACTTACTCAAAGAATTAAAAA
TTTAGCTCCAGATGTTTTACTTACTCAAAGAAAAGCTACAAAAGGGGTAAGAGACTAGCTAACA
AATGCTACATGGTCATTGAATCATATAAAGTTGTATTTCCTTCTGAGATTTTTTACTTTGTAAA
TACTACCTTAAGTTGTATTTGAAATGACATTCTTACAAAAAAGATCACTTCTAGAAAACAGTTA
GGCTAATTACATACATGAGGCTGCATTTCCATCCGTCCGCCAACAATCACCAAACCTGAATCTC
CATGCTTTACAGTATAATTACTTATGGAAATTGCTATCTCCCTGTGATGAGCATTGTGTGGAAA
ATCCTCCTGTATGAATTAACCAGGAAGAAAGAATAGACCATCAGTTTATCACGAAGTATATCAG
AGGTCACTGTAAGTCAAAATGTGAGAATCTCCATGCATAAAAGCACCTGCAAGTTGACCTCCCA
TAGCTTTTTGAGATTGTGATCGAAACACATCACAGACCAACCTGAGGTAACAACAACTAGGACC
TGTTTTCGAGGCTCCCTGTGATTATAGTTCCTATCTATCACACCAGTGGCCATCGCCACCGCTC
GTCTTCCTGAGACAATACGAATTTTGTCTGGCAAGAGGGACACCTCCGCGAGCAACCGTGCTTC
ACTGAAGCCTTCATCAACACGCCTAGAATGTGGTTCCAAAAC
						
					

			
		

Sequences
Splice junction sequence	CTGAGACAATACGAATTTTGTCTGGCAAGAGGGACACCTCCGCGAGCAACCGTGCTTCACTGAA GCCTTCATCAACACGCCTAGAATGTGGTTCCAAAACctccccaggatgacgaatgttcaaagca tgagcatcaagtttgtaattatgttgtggaatcagaagagattcatcagaagatggcgactgaa tattctgc
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	CTCCCCAGGATGACGAATGTTCAAAGCATGAGCATCAAGTTTGTAATTATGTTGTGGAATCAGA AGAGATTCATCAGAAGATGGCGACTGAATATTCTGCAATATCAGGAGGATAAAAGGAAATGGAA GATCATTAGTAGATAAATATCTGAATATTCTCTCAAGTTTAGTCATACCCAAACTGACCGAGTT CACATGACAAACTCTAAGCTAGAAAAAACACCAGTAAGTTCAAGTTGTATCAGCATGTGTAAGA TTTTCGCAAACAATTAATCTAGCTAGCTCTGACAAGATATTCAATTCCAAATTGACATTAACTC AATGGTGCCCTGTTCAACAAATAGCAGACCAGCAATGATGCAACTACAAACTATAACATTGGTT TATGGTACAGATAAGTAAAGGATATACACACTTAACCAAATATTAGACCTGAAAGGTATTCTAG AACTAACGGAAAACAACAAATCACAAAAGGAAAACAAGGGACACTGCTAAAATCATCTTTATTC CTTGGGAAAAAAACATAACATGAAACAGAAAAGGCTTCTATTATGGGATGGAGAGTTGGTGGGA AACCTCTATCTTCCTGCTCCAACGTAGTTGGCCGGTCCGACCAGCAAGTGCATAAAGGGCAAAA TGGCGTAAATCCACAACTCCTGAATTCTCAGATGCCTGGATTAAACAAGTATGTCAAATTTTAG AACTAAATAAAAAGGAAGCCTAGGAATACCTTGTCACCATAAGTATATATAATTAATAATTAAA AAAAAAACAATAAAATTCATGAAAAGAAGATAAAAATAAAACTGAATATACACAACCCCTCAGG AAGGACTAGATGCTTCATTTTCATCATGCCTTCCCCCAAGGCCCCAAAACAAACAAGAACTCAA CACACAAAAATAGGGAATAACAGGTATAATGATGGTGATTTCTCCATCCTCCTCATATGGAGGT ACACTAGCACATGTGAATCACAATTCATGAGCACTATCATCTTAAAAGTCACATGTTTATAAGT ACTTCACCAAGGACCCTGGAAATCTATTTGGAAGAGTGTGGTACCAACAAAGGTGAAGTGCTTC AGGTAGCCAGGACCCAGGAGAGTCTGTTTGACTCATGAGGCACTACAAAAAAAGGGAATTTGCA TTGTTTCAATGTGCTCATTATGTAAGGAGGCCTCAAGAGAAAAACAACCATCTTTTTTCACTGT AGAGTGGCAACATGAGTGTGGCATAATTTTTCAATATGGCTAAGGTGACCTGATCTATGCCAGA GCATACTGAAGACCTTCTAGGTTGTTGGATTAGAAGGGAAGAAAGCAAGAGCCAAAAGATATGG TGGAAATAATACCTGCCTGCATTTGGTGGAACATTTGGAAGAAAGAAATGAAAATATTTTTGAA GGCAAACAATGTAAAATACAGAAGATCGAGTGGAAGCTTATCACTTAATGTTTTTGGTGTAAAG AGCAATATATAGAGGAGGAAGGTCAGTTAGTGGATAGACTTCTGTAATTACTTTCCGTAAGCGT AAATATTTGGAGGTGGACAACATACCCTTAATGCTGAGGAATACAAATTTTCCAGTTGTTTTTT TTAAAAAAAAAGTAATTCACCAAGGACCTTAATACAAAATCATAAGAAGTGACGAAGAATAAGG TCCAAGCTCAGACATTTTGCTCAAGGAGAGCTATTATTATTTCAATAAGAAGCTGGCTTATGCA GACTAATGAAAGTATCTACAATTTTTCTTTGTGATATTTAATTTGACAAAGAGAGATAATTACT TCTCTTATTTGCTCAGACCAGAAATATGAAAGAGCGAAATCGGAAATACAAAAGAGTCATTTTA CAGGCTTAGACGACAAGAACTAATATAAGTCATTTTCAAGTCAGACTCCTTGAATGAAAGCCAC GACACTTAAGTTTTTCTTTTACATCTCTTCTCGATCTCAATATGCAAGCGAATAGCACATATTC TGTATTCTATTTCTTTCTTCCCCAAATAACAACATGATTGATACAATGATATTATGTTTCTGTG GGGAACAAAAATAAAGCATGGCTATACTTGATAGAGACTGTAAGACGAGCAAAAAGAAATGTTT GTAGAAAAAGCATGAATGTTTACCTCCTTCTCAGCAGCACTTCTTCTATGCTGCTCTGCACTTT TCTCAGCCATTTCAATCTCTTCAAATGGATCAATATGCATCTGAAAAGGGAGAAGATGTAACTT ATGAGAAATTTAGCTCAGATGTTTTACTTACTCAAAGAAAAGGAGAAGTTTAGCTCCAGATGTT TTACTTACTCAAAGAATAAGAGAAATTTAGCTCCAGATGTTTTACTTACTCAAAGAATTAAAAA TTTAGCTCCAGATGTTTTACTTACTCAAAGAAAAGCTACAAAAGGGGTAAGAGACTAGCTAACA AATGCTACATGGTCATTGAATCATATAAAGTTGTATTTCCTTCTGAGATTTTTTACTTTGTAAA TACTACCTTAAGTTGTATTTGAAATGACATTCTTACAAAAAAGATCACTTCTAGAAAACAGTTA GGCTAATTACATACATGAGGCTGCATTTCCATCCGTCCGCCAACAATCACCAAACCTGAATCTC CATGCTTTACAGTATAATTACTTATGGAAATTGCTATCTCCCTGTGATGAGCATTGTGTGGAAA ATCCTCCTGTATGAATTAACCAGGAAGAAAGAATAGACCATCAGTTTATCACGAAGTATATCAG AGGTCACTGTAAGTCAAAATGTGAGAATCTCCATGCATAAAAGCACCTGCAAGTTGACCTCCCA TAGCTTTTTGAGATTGTGATCGAAACACATCACAGACCAACCTGAGGTAACAACAACTAGGACC TGTTTTCGAGGCTCCCTGTGATTATAGTTCCTATCTATCACACCAGTGGCCATCGCCACCGCTC GTCTTCCTGAGACAATACGAATTTTGTCTGGCAAGAGGGACACCTCCGCGAGCAACCGTGCTTC ACTGAAGCCTTCATCAACACGCCTAGAATGTGGTTCCAAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159334732

Conservation Information
Conserved circRNAs	NA
PMCS	0.159334732

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							47795773-47793336(+)
47795671-47792739(-)
						
						Potential amino acid sequence
						
							MWFQNLPRMTNVQSMSIKFVIMLWNQKRFIRRWRLNILYLPAPT*(+)
MATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAISISNY
TVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLRHFALY
ALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHALNIRHPGEVLEPHSRRVDEGFSEA
RLLAEVSLLPDKIRIVSGRRAVAMATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWE
VNLQEDFPHNAHHREIAISISNYTVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHR
RSAAEKEASENSGVVDLRHFALYALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHAL
NIRHPGEVLEPHSRRVDEGFSEARLLAEVSLLPDKIRIVSGRRAVAMATGVIDRNYNHREPRKQ
VLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAISISNYTVKHGDSGLVIVGGRMEM
QPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLRHFALYALAGRTGQLRWSRKIENI
QSPSSDESLLIPQHNYKLDAHALNIRHPGEVLEPHSRRVDEGFSEARLLAEVSLLPDKIRIVSG
RRAVAMATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAI
SISNYTVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLR
HFALYALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHALNIRHPGE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	47795773-47793336(+) 47795671-47792739(-)
Potential amino acid sequence	MWFQNLPRMTNVQSMSIKFVIMLWNQKRFIRRWRLNILYLPAPT*(+) MATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAISISNY TVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLRHFALY ALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHALNIRHPGEVLEPHSRRVDEGFSEA RLLAEVSLLPDKIRIVSGRRAVAMATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWE VNLQEDFPHNAHHREIAISISNYTVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHR RSAAEKEASENSGVVDLRHFALYALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHAL NIRHPGEVLEPHSRRVDEGFSEARLLAEVSLLPDKIRIVSGRRAVAMATGVIDRNYNHREPRKQ VLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAISISNYTVKHGDSGLVIVGGRMEM QPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLRHFALYALAGRTGQLRWSRKIENI QSPSSDESLLIPQHNYKLDAHALNIRHPGEVLEPHSRRVDEGFSEARLLAEVSLLPDKIRIVSG RRAVAMATGVIDRNYNHREPRKQVLVVVTSGWSVMCFDHNLKKLWEVNLQEDFPHNAHHREIAI SISNYTVKHGDSGLVIVGGRMEMQPHMHIDPFEEIEMAEKSAEQHRRSAAEKEASENSGVVDLR HFALYALAGRTGQLRWSRKIENIQSPSSDESLLIPQHNYKLDAHALNIRHPGE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016

circRNA

Detail information of Solyc02g084690.2_circ_g.1

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