Plant Circular RNA Database

Detail information of Solyc03g115250.2_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Solyc03g115250.2_circ_igg.1
					
						ID in PlantcircBase
						sly_circ_001145
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr3: 65039997-65044400  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI; find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							NA-NA							"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-CA							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	Solyc03g115250.2_circ_igg.1
ID in PlantcircBase	sly_circ_001145
Alias	NA
Organism	Solanum lycopersicum
Position	chr3: 65039997-65044400 JBrowse»
Reference genome	SL2.50.38
Type	igg-circRNA
Identification method	CIRI; find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	NA
Tissues	leaf
Exon boundary	NA-NA "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-CA 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  
						
							CAAGACAGCTTGTCACAAGTACAACACAATTCTCCGGTAGCAGACATCAACTGGCCAACTTCAA
GGGGCAATATGTGGGCTGGAAGTCAGAGACAAATAGgcaccgcaatatctatcgccgattcaaa
accctagaattccgataaccgaacggccgatttccgagctccattgatatcagcctcgacattt
aggtaagt

									
								

					

						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
						
							GCACCGCAATATCTATCGCCGATTCAAAACCCTAGAATTCCGATAACCGAACGGCCGATTTCCG
AGCTCCATTGATATCAGCCTCGACATTTAGGTAAGTTTTCTTAACAATTTTCTTCCATATCTCA
TGACGAGCCCTAATTTTCTCCATATCAGTGAAAATGCACTGTTTTTAATTGGACTCGATTTTTT
CTGGTTCTTGTCTTTTTCCGGCCCGAGCTCAGTGAATTAGTCAGCTTTTTTCATCAGCTTTATT
CTTGATTGAGTAAATCTGTGTACTATGATGCTAACTGAGTATTTTCAGATAACACATACAGTTG
TTTAAAAATGATGTCTTTTTATAATTCGATTCTCTAACCTACAATTTAGAATTCTTATATGATA
TCTGTGCAGACGGTGATGAGCAAGGTTGTTCCAAATGAGTGTAATGTGAGTGTATGATTAGCAC
TAATCTGTAGGTTTAAGTGGGAATCAAGTATGAGATCCATCTTTGGAACTTCTTTGATAGCTTG
AAGATAGTTGCTTTTTCAGAAAATTCTGTGATACTTTGACATCCATAATACTTACCATTTCAAA
GAACAAAAGGTGCTAAAAACTGTTCGCTAATGTTTCCACCAAACGTTGCTGTCTCCTTTGAATA
TGATTGTCGAATTGACTCGGCTATTTTATTCGTTTATGTGTTAATTTTCTATCAAGTTCCCCAA
CGGAAACTAGAAGTATGTATTCTGGCTATGTAAAGATACTCAGGTGACAATAGAAATGTGGACT
CTTGTCGTTTTTGTCACTTGGAATAGATTACAAGTGAACTACTGCCAAGTTTATTGAATTAAGG
ATCAAAAGGCACTTCTGTAAAAGGAAAGCCCTATATACAGGGATATGACAAAGTAGAGTATCTT
TTACAGAAGTTAAAACAATTTTCTACAACGGTGGTGTTTGGGCCATATTGCACACATCATGAAT
ATTCCACGGTGTACTTGCTACCACCAACACTGTACCAGGTAGCTCTGTCCATCGAGGAATAGGG
GGACTGAATAAAATCACCTTCAGTTTTTCGTCTCTGATGGGGTTTTTGCTGTCTCCAATGGTTT
CCTTCCACCCTATTGACTGCTAGGACACACCCCGGTGCTTTGGGTGTAAAGAAGAGCAACCTGT
TGTTCATGCTAGTATGTTTTCAGAAGTTTCCAAAGTAAACAAGAAAGTTCCATGAGTATGTACC
AAGTTTTTGTCAACCCTACTAAAAGCTATTGGAAATTTTCCATGAAAGTGCCAACTCTCGCACT
CCCTTTTGTTGGGTAAAGCCTACATCCTGCCTTATGGCAAGGCCTACGAGGGGTTGGGTGGCCC
GGGTCAGTGTCATGATCGAACATGGCGCTTGCTTGGTGGACTTAGTTAAGAAATAAACTTGTAC
TTTTGCTATAAGCTATAACTTTTGGTATGATGGTAATTGCTTGATCCTATCAAGTGATATCAGG
GCCAAGGTCATGGATTCGATTTCCACGAGCAACTTTCTGCATGAGGCAGGTGTTGGGAGGGGGA
TTGTTGGGTAATGTCAACATCCTGCCTATGGCAAGGCCCACAAGGGGTTGGGTGGCCCGGGTCG
GAGTTATGATCAAACATGACGCTTTTCTGGTGGACTTATTTAAGAAATAATGTTGCACCTTTGC
TATAACCTAAAACTTTTGGCATGATGGTAAGGACTTGATCCTAACATCTCCTCCTTAGTGTCCA
ACTTAAGATCACATTGGAATCTACTATCTGATTGAGTGCTTGATTTAGTTTAGCAGCTGTTAAA
ACATGAACCTCACAACATTGTCTTCCTTATGAACTTGTGACTTCGCTGCTTCTTCCTTTGATTT
GTGTTGATTTTGTTTTTAACTTTTTGTTAATATGGACATTTTCTCTTTAAGTTTTGTGTTTCCT
TCCCTAAATCCCAAGAATAAACATGAAAATAGATAGTTCCTCACGAAGCACCACATCTGCAAAT
CAGCAACCAGATTTGCATTTGCCGTCATCTTCAAATTTTCGCCTTCATATGATCCTTTGGTGGC
TTCAAGTCATTCATTTTTGATCCCCTAAATGAGATATCTGTCAGCTAGTTTAGGATGATAGTTG
TTTTGTGGTATCTCGGATCTAGTGGAATAAAGACCTTGCTCTTTCTTCTACTTAAGATCATATG
TGGTGGATCCTGAACTTTATTGTTAGCGTGAGTAGTTGGGATGGCGGATTGCCTCTTGCTGATA
GTTCTTCCATTCAATTCTAGTTTAACAAATCATATTACTATGGTGGCTCAAGTGTCAATAGGGC
CAAATAAAAAAATTAAGCTACTCAACCACCACAATATGGAATAAGTTGCAATTACCGTTTAGCA
TTATAAATTCAAATAGGTTTATCCCCGGTAAACTTTTCACAGATTAAGAAGGTGATCTAAATGT
TCTGCAGTAGAAATGAGTTGTTGCAGAAGTGAAGATTGTTGGAAGGGCAACAATGAGTGAATCG
TAGGGTCTTGATGAGAGGGTAGCACCTTATGATAAGAGCTGTATGGTAGCTGTATGGTGTGATG
TTCTAATTGTGATTAGGGGTTTGACTTCCGTATAATGCAAAGTAAAGTGGTCACATGAGCAATA
ATTTTGTAGTGTTAAGTCATTAAATTTTTCTGGGACCACATGACCATGTTAAATAAGAACAAGC
ATCACAAATTTATTAATAATGAGGATTTTCAACTTGACCTGTGATGTGTTCTGGAGGTGTCCTG
ATGTATGCCACTAGTTTGCATAGGGACATTTTGAGATCATGTGCAGAAATGCATTCTTTACTAA
GCTAGTCAGGGTAAAGCTCAACATGCTAGTCCTTCCATTGTATGGAATTGTAGATCTAACTCCA
AAGGAAAGTAAGAATTGATTTGTATGTTAGGTCCAAATTTGGTTTCCAGTACAGCCATATTGAG
AGAATTTATCCTTTCAATCCTGATGGCCTGCCTTTGACCATGTCTGGAAGGGTTTCTAGTCTTT
GGCAGGCAAAATCTATCTCGAAGATGCAACAGACAATTATTATTATGCCTTAATCTCAGACTTG
TTGGTTTGACTATACTAATCAATAGTAACCACTTACCCCTTCAAGCTCGTTCAATTCTGATTCT
CAATGGATCATATGATAGGACAAATTGTTGTGTCTTTAAAATTAGAGATTCTCATCGTCGCACT
CGACCATACGATGACATAGAATTCTTAACTGATTAAATACACTATATCAAATACCAACTATGTA
AGTAGACCAATAATGTCTAAACCGTATTTGCTTCATTGTGCTCTGTTTTTCACTTTATTATCCA
TTTATTGATTTCTAGAGGATGTAGGTTATTAGGACAATATTGCTCCATGTATAGGGTTACATCC
TCCTCTTTTAACATCTTCAGTCATCATTTTTTATTACACTAAGAGACTATGCATTTGAATGTTT
GCATTAGATATGGTCTGCTCTTTCAGGCAGCCTTCTATTTTTTCCTCTGTATGTGTGCGACTTG
CATCTTTTTTTTTTTTTGAAAAGTTGGGCATAAAAAGCTACATGAGGTATACCAAAACGTAGAG
ACCTACATAGGAATATGGTTCTCCAAGAACAACACCCAGTTGTCAATATAAAGAACTTCTTGGT
GCACCAAAAACAAATAAGGGGTAAAATGCCACTTCCTAATCTTATAAAATTCATTTCTATCCCT
TCAAAGACACTTCTATTTGTTGCTCTCTGAATAACTCACATAAGTGCAAATGGAGTCACGTTTC
GTGCTTTTGGTAGTCTCGTTTAAATGCTTTATATTGATCCAATCTTGGATCGTTTCCAATTATT
CTTTCTTTTGTTAATATCATGTTCCTCTTTTTCATCCGTTTAGGTCGTTTCTTTGATTTGTGCG
GACTGTTAGTGTTGAGCTTCAGTACCTCCACTTATTCCTTATGATATCTTCTTGTAGTTTATAG
AGCTTATGCATGGAAGTAGTTCATCAATGCTAATGGTCCATTCTTACATCGGATCACCTTTTCA
TCTGAAGTAATATCCCGAAGAACCTGACAATGTGGCACTTACAACATGCTTTTGCAACTCTTAA
TTGAAACTTGAATGATCTTCTTGCAGGAGTTTCAAGACAGACAGCTCAAAATAGTTATCCAAAG
TGACTATGTATATGTTCTGAGTAGTACATTGATTGTAATGCCAAGTATTAGAAGATTCAGTTGC
AAAATTTTACAGTCAGAGGTTGTGGAGAATCATCTATGCCTGGCAATGAATTTGGAGATAGTGT
TCACAATTTTTTTGCACAAGACAGCTTGTCACAAGTACAACACAATTCTCCGGTAGCAGACATC
AACTGGCCAACTTCAAGGGGCAATATGTGGGCTGGAAGTCAGAGACAAATAG
						
					

			
		

Sequences
Splice junction sequence	CAAGACAGCTTGTCACAAGTACAACACAATTCTCCGGTAGCAGACATCAACTGGCCAACTTCAA GGGGCAATATGTGGGCTGGAAGTCAGAGACAAATAGgcaccgcaatatctatcgccgattcaaa accctagaattccgataaccgaacggccgatttccgagctccattgatatcagcctcgacattt aggtaagt
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	GCACCGCAATATCTATCGCCGATTCAAAACCCTAGAATTCCGATAACCGAACGGCCGATTTCCG AGCTCCATTGATATCAGCCTCGACATTTAGGTAAGTTTTCTTAACAATTTTCTTCCATATCTCA TGACGAGCCCTAATTTTCTCCATATCAGTGAAAATGCACTGTTTTTAATTGGACTCGATTTTTT CTGGTTCTTGTCTTTTTCCGGCCCGAGCTCAGTGAATTAGTCAGCTTTTTTCATCAGCTTTATT CTTGATTGAGTAAATCTGTGTACTATGATGCTAACTGAGTATTTTCAGATAACACATACAGTTG TTTAAAAATGATGTCTTTTTATAATTCGATTCTCTAACCTACAATTTAGAATTCTTATATGATA TCTGTGCAGACGGTGATGAGCAAGGTTGTTCCAAATGAGTGTAATGTGAGTGTATGATTAGCAC TAATCTGTAGGTTTAAGTGGGAATCAAGTATGAGATCCATCTTTGGAACTTCTTTGATAGCTTG AAGATAGTTGCTTTTTCAGAAAATTCTGTGATACTTTGACATCCATAATACTTACCATTTCAAA GAACAAAAGGTGCTAAAAACTGTTCGCTAATGTTTCCACCAAACGTTGCTGTCTCCTTTGAATA TGATTGTCGAATTGACTCGGCTATTTTATTCGTTTATGTGTTAATTTTCTATCAAGTTCCCCAA CGGAAACTAGAAGTATGTATTCTGGCTATGTAAAGATACTCAGGTGACAATAGAAATGTGGACT CTTGTCGTTTTTGTCACTTGGAATAGATTACAAGTGAACTACTGCCAAGTTTATTGAATTAAGG ATCAAAAGGCACTTCTGTAAAAGGAAAGCCCTATATACAGGGATATGACAAAGTAGAGTATCTT TTACAGAAGTTAAAACAATTTTCTACAACGGTGGTGTTTGGGCCATATTGCACACATCATGAAT ATTCCACGGTGTACTTGCTACCACCAACACTGTACCAGGTAGCTCTGTCCATCGAGGAATAGGG GGACTGAATAAAATCACCTTCAGTTTTTCGTCTCTGATGGGGTTTTTGCTGTCTCCAATGGTTT CCTTCCACCCTATTGACTGCTAGGACACACCCCGGTGCTTTGGGTGTAAAGAAGAGCAACCTGT TGTTCATGCTAGTATGTTTTCAGAAGTTTCCAAAGTAAACAAGAAAGTTCCATGAGTATGTACC AAGTTTTTGTCAACCCTACTAAAAGCTATTGGAAATTTTCCATGAAAGTGCCAACTCTCGCACT CCCTTTTGTTGGGTAAAGCCTACATCCTGCCTTATGGCAAGGCCTACGAGGGGTTGGGTGGCCC GGGTCAGTGTCATGATCGAACATGGCGCTTGCTTGGTGGACTTAGTTAAGAAATAAACTTGTAC TTTTGCTATAAGCTATAACTTTTGGTATGATGGTAATTGCTTGATCCTATCAAGTGATATCAGG GCCAAGGTCATGGATTCGATTTCCACGAGCAACTTTCTGCATGAGGCAGGTGTTGGGAGGGGGA TTGTTGGGTAATGTCAACATCCTGCCTATGGCAAGGCCCACAAGGGGTTGGGTGGCCCGGGTCG GAGTTATGATCAAACATGACGCTTTTCTGGTGGACTTATTTAAGAAATAATGTTGCACCTTTGC TATAACCTAAAACTTTTGGCATGATGGTAAGGACTTGATCCTAACATCTCCTCCTTAGTGTCCA ACTTAAGATCACATTGGAATCTACTATCTGATTGAGTGCTTGATTTAGTTTAGCAGCTGTTAAA ACATGAACCTCACAACATTGTCTTCCTTATGAACTTGTGACTTCGCTGCTTCTTCCTTTGATTT GTGTTGATTTTGTTTTTAACTTTTTGTTAATATGGACATTTTCTCTTTAAGTTTTGTGTTTCCT TCCCTAAATCCCAAGAATAAACATGAAAATAGATAGTTCCTCACGAAGCACCACATCTGCAAAT CAGCAACCAGATTTGCATTTGCCGTCATCTTCAAATTTTCGCCTTCATATGATCCTTTGGTGGC TTCAAGTCATTCATTTTTGATCCCCTAAATGAGATATCTGTCAGCTAGTTTAGGATGATAGTTG TTTTGTGGTATCTCGGATCTAGTGGAATAAAGACCTTGCTCTTTCTTCTACTTAAGATCATATG TGGTGGATCCTGAACTTTATTGTTAGCGTGAGTAGTTGGGATGGCGGATTGCCTCTTGCTGATA GTTCTTCCATTCAATTCTAGTTTAACAAATCATATTACTATGGTGGCTCAAGTGTCAATAGGGC CAAATAAAAAAATTAAGCTACTCAACCACCACAATATGGAATAAGTTGCAATTACCGTTTAGCA TTATAAATTCAAATAGGTTTATCCCCGGTAAACTTTTCACAGATTAAGAAGGTGATCTAAATGT TCTGCAGTAGAAATGAGTTGTTGCAGAAGTGAAGATTGTTGGAAGGGCAACAATGAGTGAATCG TAGGGTCTTGATGAGAGGGTAGCACCTTATGATAAGAGCTGTATGGTAGCTGTATGGTGTGATG TTCTAATTGTGATTAGGGGTTTGACTTCCGTATAATGCAAAGTAAAGTGGTCACATGAGCAATA ATTTTGTAGTGTTAAGTCATTAAATTTTTCTGGGACCACATGACCATGTTAAATAAGAACAAGC ATCACAAATTTATTAATAATGAGGATTTTCAACTTGACCTGTGATGTGTTCTGGAGGTGTCCTG ATGTATGCCACTAGTTTGCATAGGGACATTTTGAGATCATGTGCAGAAATGCATTCTTTACTAA GCTAGTCAGGGTAAAGCTCAACATGCTAGTCCTTCCATTGTATGGAATTGTAGATCTAACTCCA AAGGAAAGTAAGAATTGATTTGTATGTTAGGTCCAAATTTGGTTTCCAGTACAGCCATATTGAG AGAATTTATCCTTTCAATCCTGATGGCCTGCCTTTGACCATGTCTGGAAGGGTTTCTAGTCTTT GGCAGGCAAAATCTATCTCGAAGATGCAACAGACAATTATTATTATGCCTTAATCTCAGACTTG TTGGTTTGACTATACTAATCAATAGTAACCACTTACCCCTTCAAGCTCGTTCAATTCTGATTCT CAATGGATCATATGATAGGACAAATTGTTGTGTCTTTAAAATTAGAGATTCTCATCGTCGCACT CGACCATACGATGACATAGAATTCTTAACTGATTAAATACACTATATCAAATACCAACTATGTA AGTAGACCAATAATGTCTAAACCGTATTTGCTTCATTGTGCTCTGTTTTTCACTTTATTATCCA TTTATTGATTTCTAGAGGATGTAGGTTATTAGGACAATATTGCTCCATGTATAGGGTTACATCC TCCTCTTTTAACATCTTCAGTCATCATTTTTTATTACACTAAGAGACTATGCATTTGAATGTTT GCATTAGATATGGTCTGCTCTTTCAGGCAGCCTTCTATTTTTTCCTCTGTATGTGTGCGACTTG CATCTTTTTTTTTTTTTGAAAAGTTGGGCATAAAAAGCTACATGAGGTATACCAAAACGTAGAG ACCTACATAGGAATATGGTTCTCCAAGAACAACACCCAGTTGTCAATATAAAGAACTTCTTGGT GCACCAAAAACAAATAAGGGGTAAAATGCCACTTCCTAATCTTATAAAATTCATTTCTATCCCT TCAAAGACACTTCTATTTGTTGCTCTCTGAATAACTCACATAAGTGCAAATGGAGTCACGTTTC GTGCTTTTGGTAGTCTCGTTTAAATGCTTTATATTGATCCAATCTTGGATCGTTTCCAATTATT CTTTCTTTTGTTAATATCATGTTCCTCTTTTTCATCCGTTTAGGTCGTTTCTTTGATTTGTGCG GACTGTTAGTGTTGAGCTTCAGTACCTCCACTTATTCCTTATGATATCTTCTTGTAGTTTATAG AGCTTATGCATGGAAGTAGTTCATCAATGCTAATGGTCCATTCTTACATCGGATCACCTTTTCA TCTGAAGTAATATCCCGAAGAACCTGACAATGTGGCACTTACAACATGCTTTTGCAACTCTTAA TTGAAACTTGAATGATCTTCTTGCAGGAGTTTCAAGACAGACAGCTCAAAATAGTTATCCAAAG TGACTATGTATATGTTCTGAGTAGTACATTGATTGTAATGCCAAGTATTAGAAGATTCAGTTGC AAAATTTTACAGTCAGAGGTTGTGGAGAATCATCTATGCCTGGCAATGAATTTGGAGATAGTGT TCACAATTTTTTTGCACAAGACAGCTTGTCACAAGTACAACACAATTCTCCGGTAGCAGACATC AACTGGCCAACTTCAAGGGGCAATATGTGGGCTGGAAGTCAGAGACAAATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120334041

Conservation Information
Conserved circRNAs	NA
PMCS	0.120334041

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Yang et al., 2020

circRNA

Detail information of Solyc03g115250.2_circ_igg.1

Address

Any questions?

Supported by