Plant Circular RNA Database

Detail information of Solyc01g087380.2_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Solyc01g087380.2_circ_igg.1
					
						ID in PlantcircBase
						sly_circ_000248
					
						Alias
						1:74091008|74095663
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr1: 82330208-82334863  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						9
					
						Tissues
						fruit
					
						Exon boundary  
						
							Yes-No							"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
						NA

General Information
CircRNA Name	Solyc01g087380.2_circ_igg.1
ID in PlantcircBase	sly_circ_000248
Alias	1:74091008\|74095663
Organism	Solanum lycopersicum
Position	chr1: 82330208-82334863 JBrowse»
Reference genome	SL2.50.38
Type	igg-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	9
Tissues	fruit
Exon boundary	Yes-No "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	NA

			
						 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  
						
							AATCCACCTTGAGTGGAGGCTGCATACAGTAACAGTGATAAGCTGCATCACACCTTTTTCAAAA
CATGAACTTGTTTGGATCTCCAGTTGTTTGACAGCCcaaattgccagactggtagacagttgtt
tcgtcagcaagcatttctgggtagagccacgtcttccttaagatgagacaggccaaagttctgt
attggtta

									
								

					

						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
						
							CAAATTGCCAGACTGGTAGACAGTTGTTTCGTCAGCAAGCATTTCTGGGTAGAGCCACGTCTTC
CTTAAGATGAGACAGGCCAAAGTTCTGTATTGGTTATCAGTCCATTTCATCATGGGAGCAACAC
TGTTTAAATACAAAGGCGTGTATATATTAGGGAGCATTTTTTATTAATACTTTTAAGTGAAAAA
AATAATATGGAGCTAATTAACCATGTAGAGAGAGAAAATTAGACTTGAATGTATGCACGCACCT
GAACCAAGGAGGAGAATAGTGCTCTGCCCCATTAGAGAAGTAGAGTGGAGTTTTCATGATAAGC
ACACAATGTCTTGCATGAACTTCCATAAAAGAAGTCTGATGACAATCTGCCACGGGTTCTTGAG
AATAACAGAAGACAATGTCCCGTTGATTTCTTCTTCCCTCAAAGTCCAGAGTAGGCTGCTCTTT
TATGAACCTACCCATTGGATAGGAGTTGGCATCACACAAGAGGACATGCTGTATACCCCACAGA
GGCACTTTGAAACACTTACCAAAATAGATAATTAACTGAACCAATGAAGACCTGAAGCCACCTA
GCTCAATATAGAAACAAAAAATACTTGGGTCATTAGATGAAGGATGAACTGCCAGGAACTAGAA
AGTTAGAACACAAGCTCAACTAACTGAACAATTTTATTTATTTTACAGGTGATGTAGGTATTGC
CTAGAAGACTGGAAAATCCACCCTCACAAGTTAGAAAGAAGAGAAGCTCCAAAGATAACTAAAA
CATTTGAAGTACAATTCCGGCATTTATCTTGCGGGTAAGAAAAAAGTTCTAGACGCTTAGAAGG
CAGAATGATGCACTTCAACGTTTAAAATACAAATGTTTAAACTCATTAGCTTTTCGGGGCAATC
TGAAAAAACTAAATTGATATAGATGCTATGATGGATTTACTTGACTCGGACACGGATACAAGAG
AGCTTTGATCATTTATAGCCTTCTTGATAACAAGGACTCACTTGGTGTTGTTTTAGCTAATCAA
TTATTATTATCAATCAACGTGGAACTACATCTCAACCCTAAGCTTGTCAAGGTTAACTATTTGA
ATCCTCTATGATAATAAAATATTGTTTATAAGCAAATTATTGACATTCTCTATTTTAACCATCC
CAAAAAAATTTCACAATAGTCCACTAGGCATATACAGTTATCCCATTTAAAGTGACGTCATTGA
ACTGGAAATGGAGTTCATTAATTATGGTAACTAATTAAATAATGTAGATAAAGAATATTTAAAC
ATGGTATAATTAGATAGTGTAGATCACAGAATATTTAAATCAAAACCAAGTTTAAAGTATGAAT
GTTAAAACGTTCTACAACTCATGCTCATTCAGATAATGACAAAGGAGATGGGATAGTTCACGAA
TTGCTAGAGAAAGAGAAAAAGAACCCATAAAAATTCGATCTTTTTAAGTTTTCTCCATATTTCC
ACCAAAATTTCCATTACAATAAACGACATTAGGTAACTCAAGAACGAAACAAGCAAAACTAGCA
TTAAATAAAAAAGGGAAAAACACAATATTAATAAATTAGGTAACTCAAGAACGAAACAAGAACA
GCTAATATGAAATTAAAAAGGGCAAAGCACAATATTAATATATTTAACTAAGAAGAATGAATAA
TATAAAACCCAGCATATGTACAAAAGATTAAAATTGGATTTAGGGGTTTACATGGAAACAGAGA
GATGATGCTTCACTTACTTCTGAGCTGAATACAGTGGCAGTTGGAGAAGACGATCCCAATAAAA
TAGTGAGGTTATATATATATATTTTATTTTATTTTCTACTTTCTTTTTCTGAATAAATTTCTAA
ACATGAATTTATTACTCATAATATATTCTTTATATTGAAATCATCTAAGATAAAATAAGTTAAT
AATAAGGTATCAAATCAAAAGTGAGTTAAAAGCAAAGATATTTCTCTTTTCGGGGGATTTGAAT
ATAAAATATTTCATTACTAAAAAACATCTTTTTATTGAATAATCATAAAGATACATATGATCAA
TCTCAAAATTTAGATCTACTTATAAGCATTTTTCTTCTAGTTTCAAATTATTTTACAATTGATA
TTTGTGATAAAGAATATTATATTTGGGAAATTACATAGTAATAAAATTTTGTTTTTTAGGATAA
TAATATCATCTAATTATTTTTATTTTTCTGAAAATACATTTGATACAATAAAAACATGTTTCTC
TTTCTTAATGCATGGAATGTCCTGTCACATTATCTTTTTTCATGGTAATAATAATACTAATAAT
AATAATAATAGTAATAATAATAATAAAAAAAATAAAAAAAATAAAAAAATCATCTAATGCTCAC
TATTCATGTTGAAGTTCGACTAATCTGAATTATATCTAATAAGGCTCATTCAATGATAGTTTTT
CCTACCAAGGATTTTTCTTCTTTTTAAATTACTACTAGAAAGAAAAACTACATCAAAATTTGTT
AATTTTAAGTTAAGATATTTACAAAATAACTTCAATTAATATAACATAGTAATTTATATTGGCT
TAATCAATTATCAAATTATGAACAAGAGACATAACTTTGTATATTTTACTATTAGTAATCTAGT
ATCATTTAAATAGATAAATAATTTTGATATATTTATCACGAGAAATTTTAATCAGTGTTTTAAA
TTTATGTAAATAAATGATAGAGAACAAGTTCTTAAGACTCTTGGAATTAAATTTGTTACACACA
ATACATGAGATAAGTTTTTATACATACAATAGCTCGATAAATATAAATTAGTTAGTAACAAGAA
CTAGAGGACTATCCAAGAACTAGAAGAATTTTTAAGAACTTGTTCTTTACTATTTATTCTAACT
TGAAATAATATATATCTGAAGATATTATTTGATATTTAAATGGTTCGACTTTTGAAAAGTGAAA
CATTACGTGCATTATAACACAAATGCATAAACTATCCTAGAACTAGAGTAATTTATGTTGGATT
TTGCACGAACCGTAAAGAGCTAGGCGAGAAAATTTTTGCTTTTATAATTATCTTTTATTTGGTA
TAAAATATGGGTGACATAAAAGAGCTAAAAAAAATTATTGTTTAGAAAAAGATGAATAATGTGA
TGTGTAATTTCATTAAGAGAGAGAATGGTGTTTTTATTGTGTTAAATATATTTTGAGATAAATA
AATATAGTTATGTAATATTATAATCCTAAAATGAGAATCTCTTACGTTAGTAACATCATTCATC
ATTAATAGAATATAACATTTAAATACTTAATAAGGCTGAATGCATCATAAGCAGCAGCCCAAAA
TAACATTCACTGATTCAATTTAACAATCAAAGTCGAAGGAGAATGATGACACTATTCTTGGTAA
CACTTCCCACATTTTAACAAAGCAAAATCTGCTGCAAGAGCACCACAAAAAGTATTGGAAGCTG
TCAATAATAAATTTCGGATATTTCCAGAACAGAAAAGTCCAACCTAATGCACATTTACATTAGC
CCCGCATTAACAAATAAAATTGAACTTCATAAGATAGGCGCGAAAGCAAAACCAATAAATTAAT
AATCTTAAAGCAATAATTAAGGTAAACCTGATGTCATCACATTGGGTGTGCACCCAGCGCTCGC
AAATGTCACAGCAAACCATAGGTGTTGTATCAGAATCTCTATACACCTATTGTATATATAAAAA
AAAGATTAATTGCATTCCCCATAGACCTATCGGAAGAAAACAATTGGTTTCATTGGAAAGGCAA
TGAAAGCCATCCAGTAATTATAGCCGACAAATTAGAAACTTCACATTAATAAACCACCATACCA
CAAAGAACTTCATTGTAAGATTAAACAAAGAGAAGCTCAAATAATAATAACGGACAAAATATCT
AACCTTCAAACAAACTTGACAGTAGTTTCCCTTCACAAATAATCTTCCACAAGCATCACAACAA
GTGTATCCTAAATACCAGCTGCCATAGACCAAGATATCAATAGTTCAGAGGCAATAGGATATGC
AAGGCCTTTAATGATTTTCATAGGATATGCAATGCCTTAAAATGATTTTCATGTATCACATGCA
GCACACAACATTATCGGATGCCACTAATGCAATAATTTGTATTTAAAATCTCACTAAGATATTA
GTGCAGAAAATTAACTGTGCTACGGGAAAGCCCAAAACTAGAGAACTTATTTAAACTGCTTTCA
TAGCCCTTATCACAATATATAACGTAAATTAAACTCCTACATGATGTTCCTCTGTGAAGATACA
GAGAAAAAGACATGGAGAAGTACATGAATAAGCAGTTCAACTAAAATGGAGTTAATTGGACTGT
TCAATTAATATTTACAGCAAAACTTGAATCCAAGAGAATTTCCACTAGCTGTTCATGGCCCCAT
ACAATATACCTCGCTCTCAGTCTGACACTTTGTATGTTTGGGGCACAAATAAGGCCCACTGCTA
ACTTTCTGCACATCCCGAAAACAATAAGTACAATCTAGTTTTATTATTATACAGAACGGGAAGA
GTAAGACACGATAATCCACCTTGAGTGGAGGCTGCATACAGTAACAGTGATAAGCTGCATCACA
CCTTTTTCAAAACATGAACTTGTTTGGATCTCCAGTTGTTTGACAGCC
						
					

			
		

Sequences
Splice junction sequence	AATCCACCTTGAGTGGAGGCTGCATACAGTAACAGTGATAAGCTGCATCACACCTTTTTCAAAA CATGAACTTGTTTGGATCTCCAGTTGTTTGACAGCCcaaattgccagactggtagacagttgtt tcgtcagcaagcatttctgggtagagccacgtcttccttaagatgagacaggccaaagttctgt attggtta
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	CAAATTGCCAGACTGGTAGACAGTTGTTTCGTCAGCAAGCATTTCTGGGTAGAGCCACGTCTTC CTTAAGATGAGACAGGCCAAAGTTCTGTATTGGTTATCAGTCCATTTCATCATGGGAGCAACAC TGTTTAAATACAAAGGCGTGTATATATTAGGGAGCATTTTTTATTAATACTTTTAAGTGAAAAA AATAATATGGAGCTAATTAACCATGTAGAGAGAGAAAATTAGACTTGAATGTATGCACGCACCT GAACCAAGGAGGAGAATAGTGCTCTGCCCCATTAGAGAAGTAGAGTGGAGTTTTCATGATAAGC ACACAATGTCTTGCATGAACTTCCATAAAAGAAGTCTGATGACAATCTGCCACGGGTTCTTGAG AATAACAGAAGACAATGTCCCGTTGATTTCTTCTTCCCTCAAAGTCCAGAGTAGGCTGCTCTTT TATGAACCTACCCATTGGATAGGAGTTGGCATCACACAAGAGGACATGCTGTATACCCCACAGA GGCACTTTGAAACACTTACCAAAATAGATAATTAACTGAACCAATGAAGACCTGAAGCCACCTA GCTCAATATAGAAACAAAAAATACTTGGGTCATTAGATGAAGGATGAACTGCCAGGAACTAGAA AGTTAGAACACAAGCTCAACTAACTGAACAATTTTATTTATTTTACAGGTGATGTAGGTATTGC CTAGAAGACTGGAAAATCCACCCTCACAAGTTAGAAAGAAGAGAAGCTCCAAAGATAACTAAAA CATTTGAAGTACAATTCCGGCATTTATCTTGCGGGTAAGAAAAAAGTTCTAGACGCTTAGAAGG CAGAATGATGCACTTCAACGTTTAAAATACAAATGTTTAAACTCATTAGCTTTTCGGGGCAATC TGAAAAAACTAAATTGATATAGATGCTATGATGGATTTACTTGACTCGGACACGGATACAAGAG AGCTTTGATCATTTATAGCCTTCTTGATAACAAGGACTCACTTGGTGTTGTTTTAGCTAATCAA TTATTATTATCAATCAACGTGGAACTACATCTCAACCCTAAGCTTGTCAAGGTTAACTATTTGA ATCCTCTATGATAATAAAATATTGTTTATAAGCAAATTATTGACATTCTCTATTTTAACCATCC CAAAAAAATTTCACAATAGTCCACTAGGCATATACAGTTATCCCATTTAAAGTGACGTCATTGA ACTGGAAATGGAGTTCATTAATTATGGTAACTAATTAAATAATGTAGATAAAGAATATTTAAAC ATGGTATAATTAGATAGTGTAGATCACAGAATATTTAAATCAAAACCAAGTTTAAAGTATGAAT GTTAAAACGTTCTACAACTCATGCTCATTCAGATAATGACAAAGGAGATGGGATAGTTCACGAA TTGCTAGAGAAAGAGAAAAAGAACCCATAAAAATTCGATCTTTTTAAGTTTTCTCCATATTTCC ACCAAAATTTCCATTACAATAAACGACATTAGGTAACTCAAGAACGAAACAAGCAAAACTAGCA TTAAATAAAAAAGGGAAAAACACAATATTAATAAATTAGGTAACTCAAGAACGAAACAAGAACA GCTAATATGAAATTAAAAAGGGCAAAGCACAATATTAATATATTTAACTAAGAAGAATGAATAA TATAAAACCCAGCATATGTACAAAAGATTAAAATTGGATTTAGGGGTTTACATGGAAACAGAGA GATGATGCTTCACTTACTTCTGAGCTGAATACAGTGGCAGTTGGAGAAGACGATCCCAATAAAA TAGTGAGGTTATATATATATATTTTATTTTATTTTCTACTTTCTTTTTCTGAATAAATTTCTAA ACATGAATTTATTACTCATAATATATTCTTTATATTGAAATCATCTAAGATAAAATAAGTTAAT AATAAGGTATCAAATCAAAAGTGAGTTAAAAGCAAAGATATTTCTCTTTTCGGGGGATTTGAAT ATAAAATATTTCATTACTAAAAAACATCTTTTTATTGAATAATCATAAAGATACATATGATCAA TCTCAAAATTTAGATCTACTTATAAGCATTTTTCTTCTAGTTTCAAATTATTTTACAATTGATA TTTGTGATAAAGAATATTATATTTGGGAAATTACATAGTAATAAAATTTTGTTTTTTAGGATAA TAATATCATCTAATTATTTTTATTTTTCTGAAAATACATTTGATACAATAAAAACATGTTTCTC TTTCTTAATGCATGGAATGTCCTGTCACATTATCTTTTTTCATGGTAATAATAATACTAATAAT AATAATAATAGTAATAATAATAATAAAAAAAATAAAAAAAATAAAAAAATCATCTAATGCTCAC TATTCATGTTGAAGTTCGACTAATCTGAATTATATCTAATAAGGCTCATTCAATGATAGTTTTT CCTACCAAGGATTTTTCTTCTTTTTAAATTACTACTAGAAAGAAAAACTACATCAAAATTTGTT AATTTTAAGTTAAGATATTTACAAAATAACTTCAATTAATATAACATAGTAATTTATATTGGCT TAATCAATTATCAAATTATGAACAAGAGACATAACTTTGTATATTTTACTATTAGTAATCTAGT ATCATTTAAATAGATAAATAATTTTGATATATTTATCACGAGAAATTTTAATCAGTGTTTTAAA TTTATGTAAATAAATGATAGAGAACAAGTTCTTAAGACTCTTGGAATTAAATTTGTTACACACA ATACATGAGATAAGTTTTTATACATACAATAGCTCGATAAATATAAATTAGTTAGTAACAAGAA CTAGAGGACTATCCAAGAACTAGAAGAATTTTTAAGAACTTGTTCTTTACTATTTATTCTAACT TGAAATAATATATATCTGAAGATATTATTTGATATTTAAATGGTTCGACTTTTGAAAAGTGAAA CATTACGTGCATTATAACACAAATGCATAAACTATCCTAGAACTAGAGTAATTTATGTTGGATT TTGCACGAACCGTAAAGAGCTAGGCGAGAAAATTTTTGCTTTTATAATTATCTTTTATTTGGTA TAAAATATGGGTGACATAAAAGAGCTAAAAAAAATTATTGTTTAGAAAAAGATGAATAATGTGA TGTGTAATTTCATTAAGAGAGAGAATGGTGTTTTTATTGTGTTAAATATATTTTGAGATAAATA AATATAGTTATGTAATATTATAATCCTAAAATGAGAATCTCTTACGTTAGTAACATCATTCATC ATTAATAGAATATAACATTTAAATACTTAATAAGGCTGAATGCATCATAAGCAGCAGCCCAAAA TAACATTCACTGATTCAATTTAACAATCAAAGTCGAAGGAGAATGATGACACTATTCTTGGTAA CACTTCCCACATTTTAACAAAGCAAAATCTGCTGCAAGAGCACCACAAAAAGTATTGGAAGCTG TCAATAATAAATTTCGGATATTTCCAGAACAGAAAAGTCCAACCTAATGCACATTTACATTAGC CCCGCATTAACAAATAAAATTGAACTTCATAAGATAGGCGCGAAAGCAAAACCAATAAATTAAT AATCTTAAAGCAATAATTAAGGTAAACCTGATGTCATCACATTGGGTGTGCACCCAGCGCTCGC AAATGTCACAGCAAACCATAGGTGTTGTATCAGAATCTCTATACACCTATTGTATATATAAAAA AAAGATTAATTGCATTCCCCATAGACCTATCGGAAGAAAACAATTGGTTTCATTGGAAAGGCAA TGAAAGCCATCCAGTAATTATAGCCGACAAATTAGAAACTTCACATTAATAAACCACCATACCA CAAAGAACTTCATTGTAAGATTAAACAAAGAGAAGCTCAAATAATAATAACGGACAAAATATCT AACCTTCAAACAAACTTGACAGTAGTTTCCCTTCACAAATAATCTTCCACAAGCATCACAACAA GTGTATCCTAAATACCAGCTGCCATAGACCAAGATATCAATAGTTCAGAGGCAATAGGATATGC AAGGCCTTTAATGATTTTCATAGGATATGCAATGCCTTAAAATGATTTTCATGTATCACATGCA GCACACAACATTATCGGATGCCACTAATGCAATAATTTGTATTTAAAATCTCACTAAGATATTA GTGCAGAAAATTAACTGTGCTACGGGAAAGCCCAAAACTAGAGAACTTATTTAAACTGCTTTCA TAGCCCTTATCACAATATATAACGTAAATTAAACTCCTACATGATGTTCCTCTGTGAAGATACA GAGAAAAAGACATGGAGAAGTACATGAATAAGCAGTTCAACTAAAATGGAGTTAATTGGACTGT TCAATTAATATTTACAGCAAAACTTGAATCCAAGAGAATTTCCACTAGCTGTTCATGGCCCCAT ACAATATACCTCGCTCTCAGTCTGACACTTTGTATGTTTGGGGCACAAATAAGGCCCACTGCTA ACTTTCTGCACATCCCGAAAACAATAAGTACAATCTAGTTTTATTATTATACAGAACGGGAAGA GTAAGACACGATAATCCACCTTGAGTGGAGGCTGCATACAGTAACAGTGATAAGCTGCATCACA CCTTTTTCAAAACATGAACTTGTTTGGATCTCCAGTTGTTTGACAGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.478605657

Conservation Information
Conserved circRNAs	NA
PMCS	0.478605657

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						fruit ripening

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	fruit ripening

			
						 Other Information
					
						References
						Yin et al., 2018

circRNA

Detail information of Solyc01g087380.2_circ_igg.1

Address

Any questions?

Supported by