Plant Circular RNA Database

Detail information of Solyc12g021290.1_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Solyc12g021290.1_circ_igg.1
					
						ID in PlantcircBase
						sly_circ_003590
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr12: 15390990-15395142  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
						
							Solyc12g021290.1_circ_g.1 Solyc12g021290.1_circ_g.2 Solyc12g021290.1_circ_igg.3 						
					
						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  
						
							CT-TA							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	Solyc12g021290.1_circ_igg.1
ID in PlantcircBase	sly_circ_003590
Alias	NA
Organism	Solanum lycopersicum
Position	chr12: 15390990-15395142 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	Solyc12g021290.1_circ_g.1 Solyc12g021290.1_circ_g.2 Solyc12g021290.1_circ_igg.3
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	CT-TA 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  
						
							TCTCTTTCTCCTCCAAAGACACTTGAAGTTGCGCAAGTTTGAAATTAAGCTGCTTGATGTCTCC
TTTGAGGCGACTCACCATATTCCTTTCAGAACTAATccatctcgaagcagcagcagatacgaaa
attggctccacagggctgcattttaaatccaacacgctgtatccgggaaaacatgaaacgagaa
ggataaaa

									
								

					

						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
						
							CCATCTCGAAGCAGCAGCAGATACGAAAATTGGCTCCACAGGGCTGCATTTTAAATCCAACACG
CTGTATCCGGGAAAACATGAAACGAGAAGGATAAAATAACAAGTAAGACGGTGTCCAAGTATTT
CATTTTTTCAGAAAGAAGAAAGTAGATCCCATGAGTGTGAAGAACCTTGGGAATGCTTCTGTGC
AACTAAGATCACAAACAACACGTTTAGCATCGACATTCCATGCTTTGATTCCTCCATCAGCTGT
GCCTATGAGAAGCTTTTCTCAAGATGAACATTAGTTCCAGAAGCTTTAGACTAATCCAGTAATG
AAGCTAGCAAATATACCAATTAACATGAAAAAGAAACAAGAACCATGGAACCTAATAATGTATG
TCTACTATATCGATAGTGTCTATACCAGTCGGTCAGATTTGCACTCCCACTCAAGTGACATGAT
CTCTGCCCCACAATAGATGGTTGCATTTCTTGATGTTGGTGCTGATGAGTCATATGTCCATATC
CTTCATCAGAATACATTAATATCAATACAAGATCAGGATCGCATAATTTTTTGGCAAGTCAAAA
AGTTCCAATGACATTACACCAAGATGGTGTCACTTTACAGAGTGTGGATATACATCAAACCCCG
CAGAATCTAATCATATATTTCTATACTATTTCCTTATTGATCCCAGAGAAAAAATCAAATGAAA
AACAATGGAGCTCTTAAATTTCCTCATAGAATTTTGTTCAACCTTGAAAATTCTATTAATCTCT
CTCTAAATTAGCCAAAAAGTACAATGACAAGTATACTTGCATAGTTCTTTATTGTAGCCTCCAG
CTTTTTCATCCCACGGCTAATCATAAGTGTTATCAAAGGTGTGCTTAAGCCCTGAAGCGAGGTT
CAAAACGTGTGGAACGCTTCGCCTTGCTTTATGTGCGTTTCAGTGTCATCATCAAGGTTCTAAG
GAAGATGTTTCCTTGCCAATGAGCCTCGTATGAAGAAGTGACACTAAATAATTGATAATTCACT
TTATCATAAATTTTTTCCCAATTTCTTTGGTCATTTATTTGTCATTCATGTTAATAATTATTAG
TCTTGGACCATATATGTGTGTGTGTGTGTGTGTATTTTCTTTTCCCCTTTGCGCCTTTTTTCAT
TAAAGCCCACGCTTTGTTTGCGTTAAAAGCCCTCACGGACCTTAGAGCTTTTTTGCGCTTTTCG
CCTTTGATACACTGATCATAACCTTGAATTATTCTAGGAAGATCCCTGTCAATTAACATGGAGA
AGGAATTGGCACTTTATTCAGCAAGTATTCAGCAAAGAGTTTAAAAATGCTCTCAGGCACATTT
TTCAACGTTGTTATTTTTAGCCGTTTCTGAAATTCACTCTCTAGGGGAGAAATTCTCTTGCTGA
TCTGACCGTACTTTTCAATAGATATGGGAAAATGGAATTTCTTATATTGCAGGGTTTAAATCCA
AGTGCAACACCTTGAGTAATCATTAATGAAAGTAATAAATTACTTAAAACTCAATGTTGAACTA
ATTGTACTAGGACCCCAAGTATCAAAATGAACTAAATGAAAAAGAGACTCTGCATGATTATTAG
GACTCGGGTGTGCTTCCCCAATTGACATGACTCGCAATCTAACTAAGATAATTTGGATAAGCTA
GGTACTATAATGTGAAGTTTGGATAAACTAGGGTGTCCCAATCGTCTGTAGATTAATCCTGGAG
AGTCAAAGATTGAACAAACTGTAGTGGACTTGTGAAAACTAAGATAATAATGTCCATCTGACTC
ATGCCCTTTCCTAATTATCCTTCCTGTACTAAGGTCTTGTATAACAAAGAAGTCATGAAACGAA
AGAAGATGAAACAAGTTAAAGTCTTAGCCTCCCCATAGTTTCCCTTAGCAATCTATCAACCTCC
CCATACTGTTTACATCAGTAGATCTTTGATAGGAAACAGTTCAATTAATCCCCTCAATATGTAG
TGGGACTTTTGACCAATTTCTGAAAGAGAAGTTCAGAGAAGTCACACAATACTTCATCTCCTTC
CTTGACATCTTATTCAGCTTTATAGTGTTATAGAATTTTAGGAGTTGTACCACCACACAAAATA
TCCAACCAAAATAAGACATCTACTATTAACGAGTGCAAAAGTAATGAAGTTAAATAACTTCTCT
TTAATCCTTCACAATTCCTTACCACACACTAGTTTCATATGAGGTGGTGATACCCTCACAGGAT
CACTTTATCAACTACCCCTATATTTTCCTGAATCATCATTTTTCACATGACTTAGTCTTCATGT
GAAAACATCCATAGTTGTTTGGTAACACATTCTTTTTTCTTCTTCTTTTTAGAATGAAGGTTTG
GTAATATTTACCTTACCTACTAAAGGTAATCCTCCTTCTCCCTCTGTTCCATCAATTTAAATAT
CCTATATTACTCATCAACTTTTTAATTCCATACTTAAATATGACAAGGAGCAGAGCAGTACAAT
GGATTCTAGTCGGAACAGAATTTATGAAGAAATTATTGGACTTGATCCTATAACTGAATGTGCA
ATTGTGAAATGGACAAAGGCCCCCTGATACTTGGTTTAAAATCAAGACAGATGATAACAGAAAC
ATGGAAGGATTATCTGGTGCAGGAGGATATCTAGGGACAACGATTCATGAACATAGCATTTTAT
TGTGTTTGGGAAGAGGCAGTAGCAACATAACTGATGTAAAACCAGTTCTTTTTGGCTTGGACTG
GTATATAGAGAATGGTTTTACTGGCATCATACTAGAATGTGATTCTATTATAGTCATACATATG
CTGCAGGAAAGAGTAATACAGCATGGCAGATGCAGGATACCATTAGAAAAGCTCAGCCGAGCAA
TGTAATTACGGAATTTCACCATTTTCCAGATCAATAACTTCTCCTTGGGATTTACCAGAACAAG
GCAAAGAGCCATAGAGTTTGGACTTCATCCAGATGGCTGCAATAAGGAGTAAACAAGGAAGAAC
TATTTTTTTGAGAATGGAAGTCTCCTCTTCTGTTGCTTCATGGTGTATTATTGTATACATGGAG
GATGAAATTGTATAGTAAATTTTTGTATAGACTTTGCATGAATTGTGAGGTAAGGACGTATTAT
TTATTATTTTCCAGAAATGCATTATTACAAAATTAAATCAAAATGACACAATACTTCAAACTCC
AACTTTCTTTAACTCTGTGGATATGTTACTACACAAAATTTTGTCATGTTTCAGTAACCTTTTT
TTTAAGATTAAAAAAAAAGCAATTTTTCAGAAACATTTGTACGAGAATGCATGTCAGCCAGGAG
AATATACCTGACTGTTCCATCCACAGAAGCACTAGCAACATTGTCCCCAGTAGCAGAAAAACGG
CAACGACTTATTGGACTTGTGTGGCCTAAGAATGTCTCCTGCAAAATATTATTGCAGAACAATC
AATAAACCCCACCTCAGTTCCTAACGGAAGAACAATTATAGATTTTATGTCTATGACTTTATGG
TGAGCATGAACAGAAAATTAAGACAGGAGATGCTGAAGTAATTAGGGAAAGAAAAACTGAAAAC
TCAGGCTAATTAAGAGTCTACCTGGAAGTCCACTCTCACTTCAGGGAATTCTTCTTCTCGTTGT
GCATCATTTTCAGTGTCTGTTGAAACATCACAGAATAGCTCATCTCAAAATCAGAATCATAAGA
AGAAGAAGAAGAAGGCATCACTTCTCTCACTCTGACCACTGTGATTACTAATTTTAGAAGTTGA
AACTTGAGTATCATCAGGCTTGATATCCTCACTGTGTTTAGGTTCTCTTTCACCAGCTTGTGCA
CTTGCAGAGACACAATTAACATGAGATGACGCTGGTACGAAAACTGTGGGTTCCCCAGAACCAG
CAAGAAGATTTGATGAGCTGTCAGTCCCAACAATGACTTCCGTTGCTAATAAAGAACTACTGAG
ATCAAATAATGCAATTAGTAGACTTCAAAATTTTCAGGAAGAACAAATTGTAACAGCTGTCACC
TCCTTAACTGATGCAGCTGAGTCTCTTTCTCCTCCAAAGACACTTGAAGTTGCGCAAGTTTGAA
ATTAAGCTGCTTGATGTCTCCTTTGAGGCGACTCACCATATTCCTTTCAGAACTAAT
						
					

			
		

Sequences
Splice junction sequence	TCTCTTTCTCCTCCAAAGACACTTGAAGTTGCGCAAGTTTGAAATTAAGCTGCTTGATGTCTCC TTTGAGGCGACTCACCATATTCCTTTCAGAACTAATccatctcgaagcagcagcagatacgaaa attggctccacagggctgcattttaaatccaacacgctgtatccgggaaaacatgaaacgagaa ggataaaa
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	CCATCTCGAAGCAGCAGCAGATACGAAAATTGGCTCCACAGGGCTGCATTTTAAATCCAACACG CTGTATCCGGGAAAACATGAAACGAGAAGGATAAAATAACAAGTAAGACGGTGTCCAAGTATTT CATTTTTTCAGAAAGAAGAAAGTAGATCCCATGAGTGTGAAGAACCTTGGGAATGCTTCTGTGC AACTAAGATCACAAACAACACGTTTAGCATCGACATTCCATGCTTTGATTCCTCCATCAGCTGT GCCTATGAGAAGCTTTTCTCAAGATGAACATTAGTTCCAGAAGCTTTAGACTAATCCAGTAATG AAGCTAGCAAATATACCAATTAACATGAAAAAGAAACAAGAACCATGGAACCTAATAATGTATG TCTACTATATCGATAGTGTCTATACCAGTCGGTCAGATTTGCACTCCCACTCAAGTGACATGAT CTCTGCCCCACAATAGATGGTTGCATTTCTTGATGTTGGTGCTGATGAGTCATATGTCCATATC CTTCATCAGAATACATTAATATCAATACAAGATCAGGATCGCATAATTTTTTGGCAAGTCAAAA AGTTCCAATGACATTACACCAAGATGGTGTCACTTTACAGAGTGTGGATATACATCAAACCCCG CAGAATCTAATCATATATTTCTATACTATTTCCTTATTGATCCCAGAGAAAAAATCAAATGAAA AACAATGGAGCTCTTAAATTTCCTCATAGAATTTTGTTCAACCTTGAAAATTCTATTAATCTCT CTCTAAATTAGCCAAAAAGTACAATGACAAGTATACTTGCATAGTTCTTTATTGTAGCCTCCAG CTTTTTCATCCCACGGCTAATCATAAGTGTTATCAAAGGTGTGCTTAAGCCCTGAAGCGAGGTT CAAAACGTGTGGAACGCTTCGCCTTGCTTTATGTGCGTTTCAGTGTCATCATCAAGGTTCTAAG GAAGATGTTTCCTTGCCAATGAGCCTCGTATGAAGAAGTGACACTAAATAATTGATAATTCACT TTATCATAAATTTTTTCCCAATTTCTTTGGTCATTTATTTGTCATTCATGTTAATAATTATTAG TCTTGGACCATATATGTGTGTGTGTGTGTGTGTATTTTCTTTTCCCCTTTGCGCCTTTTTTCAT TAAAGCCCACGCTTTGTTTGCGTTAAAAGCCCTCACGGACCTTAGAGCTTTTTTGCGCTTTTCG CCTTTGATACACTGATCATAACCTTGAATTATTCTAGGAAGATCCCTGTCAATTAACATGGAGA AGGAATTGGCACTTTATTCAGCAAGTATTCAGCAAAGAGTTTAAAAATGCTCTCAGGCACATTT TTCAACGTTGTTATTTTTAGCCGTTTCTGAAATTCACTCTCTAGGGGAGAAATTCTCTTGCTGA TCTGACCGTACTTTTCAATAGATATGGGAAAATGGAATTTCTTATATTGCAGGGTTTAAATCCA AGTGCAACACCTTGAGTAATCATTAATGAAAGTAATAAATTACTTAAAACTCAATGTTGAACTA ATTGTACTAGGACCCCAAGTATCAAAATGAACTAAATGAAAAAGAGACTCTGCATGATTATTAG GACTCGGGTGTGCTTCCCCAATTGACATGACTCGCAATCTAACTAAGATAATTTGGATAAGCTA GGTACTATAATGTGAAGTTTGGATAAACTAGGGTGTCCCAATCGTCTGTAGATTAATCCTGGAG AGTCAAAGATTGAACAAACTGTAGTGGACTTGTGAAAACTAAGATAATAATGTCCATCTGACTC ATGCCCTTTCCTAATTATCCTTCCTGTACTAAGGTCTTGTATAACAAAGAAGTCATGAAACGAA AGAAGATGAAACAAGTTAAAGTCTTAGCCTCCCCATAGTTTCCCTTAGCAATCTATCAACCTCC CCATACTGTTTACATCAGTAGATCTTTGATAGGAAACAGTTCAATTAATCCCCTCAATATGTAG TGGGACTTTTGACCAATTTCTGAAAGAGAAGTTCAGAGAAGTCACACAATACTTCATCTCCTTC CTTGACATCTTATTCAGCTTTATAGTGTTATAGAATTTTAGGAGTTGTACCACCACACAAAATA TCCAACCAAAATAAGACATCTACTATTAACGAGTGCAAAAGTAATGAAGTTAAATAACTTCTCT TTAATCCTTCACAATTCCTTACCACACACTAGTTTCATATGAGGTGGTGATACCCTCACAGGAT CACTTTATCAACTACCCCTATATTTTCCTGAATCATCATTTTTCACATGACTTAGTCTTCATGT GAAAACATCCATAGTTGTTTGGTAACACATTCTTTTTTCTTCTTCTTTTTAGAATGAAGGTTTG GTAATATTTACCTTACCTACTAAAGGTAATCCTCCTTCTCCCTCTGTTCCATCAATTTAAATAT CCTATATTACTCATCAACTTTTTAATTCCATACTTAAATATGACAAGGAGCAGAGCAGTACAAT GGATTCTAGTCGGAACAGAATTTATGAAGAAATTATTGGACTTGATCCTATAACTGAATGTGCA ATTGTGAAATGGACAAAGGCCCCCTGATACTTGGTTTAAAATCAAGACAGATGATAACAGAAAC ATGGAAGGATTATCTGGTGCAGGAGGATATCTAGGGACAACGATTCATGAACATAGCATTTTAT TGTGTTTGGGAAGAGGCAGTAGCAACATAACTGATGTAAAACCAGTTCTTTTTGGCTTGGACTG GTATATAGAGAATGGTTTTACTGGCATCATACTAGAATGTGATTCTATTATAGTCATACATATG CTGCAGGAAAGAGTAATACAGCATGGCAGATGCAGGATACCATTAGAAAAGCTCAGCCGAGCAA TGTAATTACGGAATTTCACCATTTTCCAGATCAATAACTTCTCCTTGGGATTTACCAGAACAAG GCAAAGAGCCATAGAGTTTGGACTTCATCCAGATGGCTGCAATAAGGAGTAAACAAGGAAGAAC TATTTTTTTGAGAATGGAAGTCTCCTCTTCTGTTGCTTCATGGTGTATTATTGTATACATGGAG GATGAAATTGTATAGTAAATTTTTGTATAGACTTTGCATGAATTGTGAGGTAAGGACGTATTAT TTATTATTTTCCAGAAATGCATTATTACAAAATTAAATCAAAATGACACAATACTTCAAACTCC AACTTTCTTTAACTCTGTGGATATGTTACTACACAAAATTTTGTCATGTTTCAGTAACCTTTTT TTTAAGATTAAAAAAAAAGCAATTTTTCAGAAACATTTGTACGAGAATGCATGTCAGCCAGGAG AATATACCTGACTGTTCCATCCACAGAAGCACTAGCAACATTGTCCCCAGTAGCAGAAAAACGG CAACGACTTATTGGACTTGTGTGGCCTAAGAATGTCTCCTGCAAAATATTATTGCAGAACAATC AATAAACCCCACCTCAGTTCCTAACGGAAGAACAATTATAGATTTTATGTCTATGACTTTATGG TGAGCATGAACAGAAAATTAAGACAGGAGATGCTGAAGTAATTAGGGAAAGAAAAACTGAAAAC TCAGGCTAATTAAGAGTCTACCTGGAAGTCCACTCTCACTTCAGGGAATTCTTCTTCTCGTTGT GCATCATTTTCAGTGTCTGTTGAAACATCACAGAATAGCTCATCTCAAAATCAGAATCATAAGA AGAAGAAGAAGAAGGCATCACTTCTCTCACTCTGACCACTGTGATTACTAATTTTAGAAGTTGA AACTTGAGTATCATCAGGCTTGATATCCTCACTGTGTTTAGGTTCTCTTTCACCAGCTTGTGCA CTTGCAGAGACACAATTAACATGAGATGACGCTGGTACGAAAACTGTGGGTTCCCCAGAACCAG CAAGAAGATTTGATGAGCTGTCAGTCCCAACAATGACTTCCGTTGCTAATAAAGAACTACTGAG ATCAAATAATGCAATTAGTAGACTTCAAAATTTTCAGGAAGAACAAATTGTAACAGCTGTCACC TCCTTAACTGATGCAGCTGAGTCTCTTTCTCCTCCAAAGACACTTGAAGTTGCGCAAGTTTGAA ATTAAGCTGCTTGATGTCTCCTTTGAGGCGACTCACCATATTCCTTTCAGAACTAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144120945

Conservation Information
Conserved circRNAs	NA
PMCS	0.144120945

			
						 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 Solyc12g021290.1_circ_igg.1

Address

Any questions?

Supported by