Plant Circular RNA Database

Detail information of Solyc04g081200.2_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Solyc04g081200.2_circ_igg.1
					
						ID in PlantcircBase
						sly_circ_001582
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr4: 65200104-65204607  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						Segemehl, CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						fruit
					
						Exon boundary  
						
							No-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  
						
							AG-TT							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	Solyc04g081200.2_circ_igg.1
ID in PlantcircBase	sly_circ_001582
Alias	NA
Organism	Solanum lycopersicum
Position	chr4: 65200104-65204607 JBrowse»
Reference genome	SL2.50.38
Type	igg-circRNA
Identification method	Segemehl, CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	NA
Tissues	fruit
Exon boundary	No-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	AG-TT 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  
						
							AATATCATAAGCATGTTTGGAGTCTACTTGGATGGACAAAAGATGGTTTGTCTATGAGCTAAAA
GAACCAGAAAACAGAAAATGTTCTTTGTATCTTAAGctctccattctgttttgatatcattatt
gaaatcttatccagcgcacttataagttactgtgtattcacatgagatgacatcatatttgata
tctctatt

									
								

					

						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
						
							CTCTCCATTCTGTTTTGATATCATTATTGAAATCTTATCCAGCGCACTTATAAGTTACTGTGTA
TTCACATGAGATGACATCATATTTGATATCTCTATTAGCTGCACTATTTTACACAACTTTTTGT
TTCCAAAAAAATCTTTCCGCAAGTTGTCCAAACAGCTCAAAGTATAAGTTGAATGAGTATTCAT
TCAAATGAGTGAATTGCCTTTATTAAATCTATGTTCTGACCAACTATGACTGTATATATAGTGT
TTGCTCATTTAGTTATTGCTTTGAGAAGTGTGAACATCTAGCAAGCTGACAATTATATGTAAAA
AATATGTAAAATTAATGTGCGGTTATATATGGTTTAGTATGGATTACTTGTGAAAATAGGTAAA
CGCTAATCTAATCCATGTTAATGCTTAACGAGTTCGATTAATTTCAAAATTTTGAAAACTCAAG
TAGTTCGAGTATTTTCACATTAGTAACTCATGATAGTCTGTCTTTATTGCGGATTTGGTATTGG
ATATGTTTTGCAAAGCTTACATAGGTGGAGTTTAGAGTTTGAGTAATCATTGGTGAATGGTGAT
GAAAAAAAAGAAAATGTCCAAATAAAAAAAACATGATGCTAAATAGAAACAGCCTTTCTACCTT
TGAGGTAGAGGTAATGTTTGCGTACACTCTATCTTCCCCGAATCCCCTTTTGGGACTACACTGG
GTATTTTGTTGTATAATTGTAGTAATAGTATTTAAATATTATTATTATTAACTATTATTTTGTA
TGTAATTAATTTATTTTTCATTTTATTTTTATATGGTATGATGATGACATCAGTTTGAACTTAA
ATGGAGATAATTATTCATATAGCTGACCTCAACTTGGTTGGGGCTGAGACATATAGTTGTTGTT
GAAGTAAATTTATGTTTGAAATTTGCGCTGCAAGCCTGCAAGTAATATGAAGATATGATGAGGT
CACGTTCTACTAATTGCAAATGACTTGGCACTTCTAATAAAATATTCTTGTGCAGGAGGAGGGC
AGCTTTACATGTGGGGAAAAATTAAGAGCACAGGAGATGATTCGATGTATCCCAAACCTCTTCT
GGATTTGAGGTTATGATGTTTACAGCATTTGCATCTCCAATTTTTTATTTTGGTCATATAGTAT
TAGTGTAGATACATCATGAGTTGCATGTGTGATATATTCCACTTTTTTGGTTGAATTATTATTT
ATCCAAGATTTCTGGTTAGAACCATCTGCAATAACATATATGAAGATGGAGTTCAAATTTTCTT
TTCCTTGTGTCTCGTGACTAGGGGTGATGGAGTGATTTCATTGCAAAGTCCTAGCAGAGAGTCT
CTACCCTTGTATTTAATTATGAGATTCAATATTTCATGTTGGAATGTTATTTAAAATCAATCAC
ATGGTAATAATGTATTGTTGTTTCTGCCCCCATAATCATTGGCTTGGATTGTTTTAAACTGGAT
ATTCTCTTTTCAGAAGCACAATATTTTTTTCTTTGGTCGCTAAGTCTATATGACTGATAATCTG
TATTTCTAGTGGGTGGAACCTCCGATGTATGGATTCTGGCTATATGCACCACTTTGTTGGTGCT
GATTCCTCTTGCATAAGTTGGGGCCTTGCACAGTGTGGGGAGCTGGGTTATGGACCACATGGAC
AGAAGTAGGTTTGATTCATATCTTGTGTTTTACTTTTCTTTTCGGTGACTTGTGTGCGTTTTGC
TCATTTATTTTGTCTATTTTTCTAAAGATCTTCTGCAGTTCCTAAGAAGGTGGACATTTTAGAT
GGCATGCATGTTATCAGGTTAGTGTATTTCTGTTTAAAAAAGAAATTTTGGAAGATGGAACTTT
ACATCAGAGTCTGAATCCTAGTGCGTTCCTTTTTGTGTAGTGTTGCTTGTGGATTTGCCCACTC
CATGGTTGTTATTGATAGGACAAATGTTGAGGATCGACTTGAGCAGGTAATGTTATGGTTACAA
GGTAGTGTTGCTTGTGAATTAGAATATGATTTTTTCAGTTTATATGTACAGGTTTTTGGTTGAG
TGTAATATTTGTTTGTGGATGGGTGTTGGTGTGTGTCTGGGGGTGCTGATACATACATCAGTTT
CAATTTTTCTTTATTTGTATTTATTTGCTCGTGTAAGTTATCTAATTTCTCCCGTTTTACCTGA
CAGCTTGATGTATATGATGGCAAGGCTTCTGAGGAAGGTATAGGTCTAAGCTTCATCTATCTTC
ATAAGTTTTAGCTAATTGTACTATTTCATTTGGAAAATATACTGGTTTTCCTCTGAATTTGCTT
CAAGGGCAGTTGACTTAAGTAGCCATTGAATTGCTAATTCCTTGGGAGATGAAAGAACAAGGAG
TCTGTTAATGATGTTCAATTCATCTACTTTGTCCTTGTGTCCTTATCTGTTTTCGATACAATGC
AGGATAAGGTTTGATTATATATGCTATTTGCAAATAATAATATGTCAAAGAGTCCATATGACAT
CTACATTCAGACAATTTATATATATATGTTCAATTTCAAGGACAATAGCTTGATATATGAAGAT
TTAATGTGCAGGACAAAAAATTGTTGCTAAGTATAGGAGAATATCATGATTAGGTGAAAGTGAA
GTGAAACTAGATTAGTTTTTGTGGTGCCTAGTACAGACATCAAATATGTACATTTAGGCTTCTA
GGAATATATAGTGATAGATGCAATATAACAATTAGGATAAATTAAAGGACTGTGCTGTGATAGA
AGTCATCTAACAAGCTACAGTCAAGTTTTATAGAACGGTTGTGAGGCTAGTAATGTTGTATTGG
GGTGAATATAGGTCTGCAAAGCCCACATGTCCTCGAGATGAATGCCATAGATGTTGATATCATT
GGACATAGAGGATACACATAGAGAATTTTGCTTGAGACACTTTTGCCATGTCTTACAGACTTCG
AGATGTATCATCTGCAGGCACAACTATATGATAGTTTGAAGGTGCAACAATATGCTTGAATTTC
ATTTAAAATGATAATTGAAAATAATGAGCTAGACTTGAAATCACATGTGTTTGGTTTTTTTAAA
AAAGATTTTACAATTTAGCAAAATCAGTGTTAACTTGCCTAATAACTAATTGCATGAAAGAATA
GGAATCTTAGTGTTAAACTGTTAATACCAACTAGTTTGGATTAATCACTTAGTTGTTGTTTCTT
ATGTTTGGTTGTTTATTAGGATTTTTCTTTTCTATTGTGGTCAGAGACATATTATTTTGGTGGA
GGATAAGTATTGAGATTTGCAAATGCTCTAGTGTCAAAACAGTCTTAATTTCTCTTAAAAGACA
AATCTTAAAATTGGAATAATATAACAAATTGTGTTGTCAAAAAAATAATATAACAATTTGTGTC
AAATTTTTCCGATTTGTTTTATCGAAATCCTTGTACACGGACATGACAGGTGAAAGGTTATACT
TCTCTTGTTGAACTGAGGAGATAGTTGGCATGCAACCCTATTTATTTTACAATCATTTACCTTT
CTTACTATAGTTGCAAATTGTTCTTTGCTGCAGTGGGGGCAGAACCTGTGAGTGAATCTCCAGC
TTCTAAAAAGACTACCAAAAAGGCATCTGCGAAGGCGCCTGCAAAGTCAAATAAACGGAAGAAG
TCAAAAGATGCATCTGAATCTGAAGATGAGGAAGAGGAAAATAGTGATGATGAAAGTGATGACT
ATGAGGAACAATCGAATGGGCGGGCCAAGTCTTCCGGCAGGGGTCGAGGAAAGGCTGCTGGCAA
AGCTACAGCTGCTAAAAAGGGCGCAGGTCGAGGAAGGGGTCGGTCTCCAGCAGCAAACAAAAGC
TCCCCACCTGAAGTGAAAGTATCGACAGGTAAAAGGGGAAGGCCGAGGAAATCGTAAGAGTACA
GCTTTCCTGGTCAAAATGTAAGGCACTCTCTATATTATGGAATGTATTTTTATTCTCCATTGGC
TAATTAGTTGCACTTTAACAAGTAATTAATTTTCGTCATTAACTCCATTCAACATTCTGAAATT
TAGCAAGTGTAATCCATTTGCGTAACTTGTAACCCGTATTGACATAGATCATTGACTGAAAAGA
CAGGTGTTTATCCGAGCTTGTACCTAGTTAAGCTCGTTTTTTGGATAGGAGCGGAAACAGGGGA
AAAGAAAGGAAAACCCTATTCTGCCCAGTGTACTCTGATTTCTATTTTTGTTACTAATTTGTGG
TGCAACTGAAACACATTTGTTCTGAAAATCTATGCTGATTAGTAATATTGCTGTGTAAATGAAG
TATTTATCAGAATGTTTTGTTGTAGTTGATCATTTTAATGTTGCGTTCTAGCCTTGTTGATGAT
CAATGATGAGACTTACACAACGATCATGCTGAGTATTGATTTATCTTCCTATAATATCATAAGC
ATGTTTGGAGTCTACTTGGATGGACAAAAGATGGTTTGTCTATGAGCTAAAAGAACCAGAAAAC
AGAAAATGTTCTTTGTATCTTAAG
						
					

			
		

Sequences
Splice junction sequence	AATATCATAAGCATGTTTGGAGTCTACTTGGATGGACAAAAGATGGTTTGTCTATGAGCTAAAA GAACCAGAAAACAGAAAATGTTCTTTGTATCTTAAGctctccattctgttttgatatcattatt gaaatcttatccagcgcacttataagttactgtgtattcacatgagatgacatcatatttgata tctctatt
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	CTCTCCATTCTGTTTTGATATCATTATTGAAATCTTATCCAGCGCACTTATAAGTTACTGTGTA TTCACATGAGATGACATCATATTTGATATCTCTATTAGCTGCACTATTTTACACAACTTTTTGT TTCCAAAAAAATCTTTCCGCAAGTTGTCCAAACAGCTCAAAGTATAAGTTGAATGAGTATTCAT TCAAATGAGTGAATTGCCTTTATTAAATCTATGTTCTGACCAACTATGACTGTATATATAGTGT TTGCTCATTTAGTTATTGCTTTGAGAAGTGTGAACATCTAGCAAGCTGACAATTATATGTAAAA AATATGTAAAATTAATGTGCGGTTATATATGGTTTAGTATGGATTACTTGTGAAAATAGGTAAA CGCTAATCTAATCCATGTTAATGCTTAACGAGTTCGATTAATTTCAAAATTTTGAAAACTCAAG TAGTTCGAGTATTTTCACATTAGTAACTCATGATAGTCTGTCTTTATTGCGGATTTGGTATTGG ATATGTTTTGCAAAGCTTACATAGGTGGAGTTTAGAGTTTGAGTAATCATTGGTGAATGGTGAT GAAAAAAAAGAAAATGTCCAAATAAAAAAAACATGATGCTAAATAGAAACAGCCTTTCTACCTT TGAGGTAGAGGTAATGTTTGCGTACACTCTATCTTCCCCGAATCCCCTTTTGGGACTACACTGG GTATTTTGTTGTATAATTGTAGTAATAGTATTTAAATATTATTATTATTAACTATTATTTTGTA TGTAATTAATTTATTTTTCATTTTATTTTTATATGGTATGATGATGACATCAGTTTGAACTTAA ATGGAGATAATTATTCATATAGCTGACCTCAACTTGGTTGGGGCTGAGACATATAGTTGTTGTT GAAGTAAATTTATGTTTGAAATTTGCGCTGCAAGCCTGCAAGTAATATGAAGATATGATGAGGT CACGTTCTACTAATTGCAAATGACTTGGCACTTCTAATAAAATATTCTTGTGCAGGAGGAGGGC AGCTTTACATGTGGGGAAAAATTAAGAGCACAGGAGATGATTCGATGTATCCCAAACCTCTTCT GGATTTGAGGTTATGATGTTTACAGCATTTGCATCTCCAATTTTTTATTTTGGTCATATAGTAT TAGTGTAGATACATCATGAGTTGCATGTGTGATATATTCCACTTTTTTGGTTGAATTATTATTT ATCCAAGATTTCTGGTTAGAACCATCTGCAATAACATATATGAAGATGGAGTTCAAATTTTCTT TTCCTTGTGTCTCGTGACTAGGGGTGATGGAGTGATTTCATTGCAAAGTCCTAGCAGAGAGTCT CTACCCTTGTATTTAATTATGAGATTCAATATTTCATGTTGGAATGTTATTTAAAATCAATCAC ATGGTAATAATGTATTGTTGTTTCTGCCCCCATAATCATTGGCTTGGATTGTTTTAAACTGGAT ATTCTCTTTTCAGAAGCACAATATTTTTTTCTTTGGTCGCTAAGTCTATATGACTGATAATCTG TATTTCTAGTGGGTGGAACCTCCGATGTATGGATTCTGGCTATATGCACCACTTTGTTGGTGCT GATTCCTCTTGCATAAGTTGGGGCCTTGCACAGTGTGGGGAGCTGGGTTATGGACCACATGGAC AGAAGTAGGTTTGATTCATATCTTGTGTTTTACTTTTCTTTTCGGTGACTTGTGTGCGTTTTGC TCATTTATTTTGTCTATTTTTCTAAAGATCTTCTGCAGTTCCTAAGAAGGTGGACATTTTAGAT GGCATGCATGTTATCAGGTTAGTGTATTTCTGTTTAAAAAAGAAATTTTGGAAGATGGAACTTT ACATCAGAGTCTGAATCCTAGTGCGTTCCTTTTTGTGTAGTGTTGCTTGTGGATTTGCCCACTC CATGGTTGTTATTGATAGGACAAATGTTGAGGATCGACTTGAGCAGGTAATGTTATGGTTACAA GGTAGTGTTGCTTGTGAATTAGAATATGATTTTTTCAGTTTATATGTACAGGTTTTTGGTTGAG TGTAATATTTGTTTGTGGATGGGTGTTGGTGTGTGTCTGGGGGTGCTGATACATACATCAGTTT CAATTTTTCTTTATTTGTATTTATTTGCTCGTGTAAGTTATCTAATTTCTCCCGTTTTACCTGA CAGCTTGATGTATATGATGGCAAGGCTTCTGAGGAAGGTATAGGTCTAAGCTTCATCTATCTTC ATAAGTTTTAGCTAATTGTACTATTTCATTTGGAAAATATACTGGTTTTCCTCTGAATTTGCTT CAAGGGCAGTTGACTTAAGTAGCCATTGAATTGCTAATTCCTTGGGAGATGAAAGAACAAGGAG TCTGTTAATGATGTTCAATTCATCTACTTTGTCCTTGTGTCCTTATCTGTTTTCGATACAATGC AGGATAAGGTTTGATTATATATGCTATTTGCAAATAATAATATGTCAAAGAGTCCATATGACAT CTACATTCAGACAATTTATATATATATGTTCAATTTCAAGGACAATAGCTTGATATATGAAGAT TTAATGTGCAGGACAAAAAATTGTTGCTAAGTATAGGAGAATATCATGATTAGGTGAAAGTGAA GTGAAACTAGATTAGTTTTTGTGGTGCCTAGTACAGACATCAAATATGTACATTTAGGCTTCTA GGAATATATAGTGATAGATGCAATATAACAATTAGGATAAATTAAAGGACTGTGCTGTGATAGA AGTCATCTAACAAGCTACAGTCAAGTTTTATAGAACGGTTGTGAGGCTAGTAATGTTGTATTGG GGTGAATATAGGTCTGCAAAGCCCACATGTCCTCGAGATGAATGCCATAGATGTTGATATCATT GGACATAGAGGATACACATAGAGAATTTTGCTTGAGACACTTTTGCCATGTCTTACAGACTTCG AGATGTATCATCTGCAGGCACAACTATATGATAGTTTGAAGGTGCAACAATATGCTTGAATTTC ATTTAAAATGATAATTGAAAATAATGAGCTAGACTTGAAATCACATGTGTTTGGTTTTTTTAAA AAAGATTTTACAATTTAGCAAAATCAGTGTTAACTTGCCTAATAACTAATTGCATGAAAGAATA GGAATCTTAGTGTTAAACTGTTAATACCAACTAGTTTGGATTAATCACTTAGTTGTTGTTTCTT ATGTTTGGTTGTTTATTAGGATTTTTCTTTTCTATTGTGGTCAGAGACATATTATTTTGGTGGA GGATAAGTATTGAGATTTGCAAATGCTCTAGTGTCAAAACAGTCTTAATTTCTCTTAAAAGACA AATCTTAAAATTGGAATAATATAACAAATTGTGTTGTCAAAAAAATAATATAACAATTTGTGTC AAATTTTTCCGATTTGTTTTATCGAAATCCTTGTACACGGACATGACAGGTGAAAGGTTATACT TCTCTTGTTGAACTGAGGAGATAGTTGGCATGCAACCCTATTTATTTTACAATCATTTACCTTT CTTACTATAGTTGCAAATTGTTCTTTGCTGCAGTGGGGGCAGAACCTGTGAGTGAATCTCCAGC TTCTAAAAAGACTACCAAAAAGGCATCTGCGAAGGCGCCTGCAAAGTCAAATAAACGGAAGAAG TCAAAAGATGCATCTGAATCTGAAGATGAGGAAGAGGAAAATAGTGATGATGAAAGTGATGACT ATGAGGAACAATCGAATGGGCGGGCCAAGTCTTCCGGCAGGGGTCGAGGAAAGGCTGCTGGCAA AGCTACAGCTGCTAAAAAGGGCGCAGGTCGAGGAAGGGGTCGGTCTCCAGCAGCAAACAAAAGC TCCCCACCTGAAGTGAAAGTATCGACAGGTAAAAGGGGAAGGCCGAGGAAATCGTAAGAGTACA GCTTTCCTGGTCAAAATGTAAGGCACTCTCTATATTATGGAATGTATTTTTATTCTCCATTGGC TAATTAGTTGCACTTTAACAAGTAATTAATTTTCGTCATTAACTCCATTCAACATTCTGAAATT TAGCAAGTGTAATCCATTTGCGTAACTTGTAACCCGTATTGACATAGATCATTGACTGAAAAGA CAGGTGTTTATCCGAGCTTGTACCTAGTTAAGCTCGTTTTTTGGATAGGAGCGGAAACAGGGGA AAAGAAAGGAAAACCCTATTCTGCCCAGTGTACTCTGATTTCTATTTTTGTTACTAATTTGTGG TGCAACTGAAACACATTTGTTCTGAAAATCTATGCTGATTAGTAATATTGCTGTGTAAATGAAG TATTTATCAGAATGTTTTGTTGTAGTTGATCATTTTAATGTTGCGTTCTAGCCTTGTTGATGAT CAATGATGAGACTTACACAACGATCATGCTGAGTATTGATTTATCTTCCTATAATATCATAAGC ATGTTTGGAGTCTACTTGGATGGACAAAAGATGGTTTGTCTATGAGCTAAAAGAACCAGAAAAC AGAAAATGTTCTTTGTATCTTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.125513321

Conservation Information
Conserved circRNAs	NA
PMCS	0.125513321

			
						 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
						Tan et al., 2017

circRNA

Detail information of Solyc04g081200.2_circ_igg.1

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