Plant Circular RNA Database

Detail information of Solyc06g083150.2_circ_g.2

			
						 General Information
					
						CircRNA Name
						Solyc06g083150.2_circ_g.2
					
						ID in PlantcircBase
						sly_circ_002121
					
						Alias
						NA
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr6: 48688135-48691277  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Solyc06g083150.2						
					
						Parent gene annotation
						
							E3 ubiquitin-protein ligase CHIP
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Solyc06g083150.2_circ_g.1 						
					
						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  
						
							GT-AG							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
						Solyc06g083150.2.1:3

General Information
CircRNA Name	Solyc06g083150.2_circ_g.2
ID in PlantcircBase	sly_circ_002121
Alias	NA
Organism	Solanum lycopersicum
Position	chr6: 48688135-48691277 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Solyc06g083150.2
Parent gene annotation	E3 ubiquitin-protein ligase CHIP
Parent gene strand	+
Alternative splicing	Solyc06g083150.2_circ_g.1
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	GT-AG 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	Solyc06g083150.2.1:3

			
						 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  
						
							GATATATTGTTGGAGAGATCTGGGAAGAGCTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGA
ATCTACAAGGCGCTCCTGGGAGCTTCAGAACTTGAAtgactggagaagagtggaggaagattgc
aggagggcgattcagctcgatcataattctgtaaaggtacgaaacattgtgatatgtagcttgc
atgttcct

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 270
Transcript exons: 48688135-48688198,48688790-48688861,48691144-48691277
TGACTGGAGAAGAGTGGAGGAAGATTGCAGGAGGGCGATTCAGCTCGATCATAATTCTGTAAAG
GCCCACTATTATCTTGGTCTTGCATTGCTACAAAAGGAAGCATTTGGTGAAGGTGTGAGAGAAT
TGGAAAAGGCATTAGACCTTGGAAGAGGTGTGAATCCAGGAAGATATATTGTTGGAGAGATCTG
GGAAGAGCTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGAATCTACAAGGCGCTCCTGGGAG
CTTCAGAACTTGAA
						
					

						Genomic sequence
						
							TGACTGGAGAAGAGTGGAGGAAGATTGCAGGAGGGCGATTCAGCTCGATCATAATTCTGTAAAG
GTACGAAACATTGTGATATGTAGCTTGCATGTTCCTTTTTCCAATCTTGTGTTTTCATACAAGT
GCTCTATCTAGCTGAGGGTCTATGGAAGACGTCTCTCGCATTGACAACTTAGTGGTAAGGTTGC
GCATAGATCACCCTCCCTGTACAGCATTTGAGGGTTTACACTGGGTTTGTTGTTGTTGCTTTTA
TCAAGGTTGACTTAGATGTGTTTTAGTTTATCAATAAATTTAGTTTGTTTTTCTCATGGATGTT
GAAAACCCTCATGGTCGTAACTAGTTTGAAGAGGGAAAAATGGAAATATGAAATCTTAAATGTT
CCATCGGAGAAATAGTTTGCCGAGAGAGCAGTTACTGTAAAGATACTCTGGAGATTTTTATGAT
GTAAATCCCGGAGATTGTTGATTTGTTAACTATTATTGATAAATTTAAATAATGCAGCATGTTA
GAACATCCACATAATCAAAGTTGAATACTTCTCCAGAATCTATGTTTCTTATCTGCTGAATTTA
TGGTCTTTCTTAGTTGGTGTTGCTAGAACTTGTTTTTTCCCTACAGATAATAACATAAGAGTGA
TTTCTGGGTAAACAGGCCCACTATTATCTTGGTCTTGCATTGCTACAAAAGGAAGCATTTGGTG
AAGGTGTGAGAGAATTGGAAAAGGTATACATGTCTCTTACAGATGTTCAAATATTTGTCTTCCA
AGTGTCCATACATCACATTGGTGCACCACACTTTTGTGGCTTTGTCTCTCTGCGGTGTCTAATC
TGTATCCAAACAGCCTCATCTGTTTGTGAGTTTAGACTACAGACCAAAATGTTTATGAAAATGA
TGATGTGACAAGGTAGGTCTTTTCCCCCCTTATAATTTGGTCAGTCATTATGCATTCTTACTTT
TGTTATCATTGTTTCCTCTTTTATGCTCTTTCTAAATTAATACGAATGCAATTATATAATTAGG
GACGTATTGCGGTTGCTATTGTCACTGCTCATTTCTCGATATATTTTTTTGGGAACAACTGTGA
ACATTACCATTGATAACAAACGAGAATTACAGCTTTGATCACCTAACAACACAGCGTTTCTACC
TTTTCTCTTTTTCTCAAAGCTAGTTACTAGTTAAAGTTTGAATAAAAATCCTACATTTATACTG
TTTTTTTGATCCCCGAAATCTACCTATCCTGTCTATGAATTCATTTTTTATCTTTGTTATAACT
TGCTCCTTTTGTCCATTTACTCCTCTGTATATTTTCCAATTCCTCACTCTACAAGTGTGATATA
CCATAGCCCACCATTGAGCAGCAACTATTTCTTTCTTTACTTTACTCCAATGCTTTCTGTTGAA
AGTTAGCAAGTTTGATTGTCGGAAAACAGGTTTCTTAACCTTTTATCATTTCGTTTGTTTATTT
TTTGACTCTGTATTTTCCATAAAAGTGGCTTAGGTTCAAACCTTAACTAAAACTGATCTAATAT
CACCTTCATGTTTCGAGCTTAGTAATCATGCACAGTAATTCCAATGTGCTGTTTCTAGCTTGCT
TCTGTCAAACATGTTGGCCTTAACCAACATTATCATCTTTCATATGTGTAATTGGATCTCTTAG
TGGTGAACTACTAATCTAAGCGTGGCTCTTTGAAGTTTTAGGAAAATAGATGTTAGGCGAGGTG
AAAGAGATAAATGAACACGTATTTATGCTAGAATAATTGGTTTAGCGTTCTTTTGTTTTGATAA
TGATGGTGCCCAAGCTAGCTTGTGTGCACTTAAACTATTTCACCAGATATCTGCTACCTCCACT
AGCACATACACCAAGTAACTCTGCCTAACAAGGTTTAAGCATATCAGAAGAAATCTCGGTGATT
TCTTTTTGTGTTGGCTGTATGCATGTTTTTAACGTGATAGTTCTCTGGATTACATATTTTGGAA
TTTACATATTATGAAAATGCATTGTCAAAGTAAATCATAGTTCATGGAGCAGAGGTGAGCTTAC
TGGGAAAATGTTAAGCTCATTTCACATTTCTTTTTCAAGGGTGAGATCACACACAGCTTGAAGA
AATGTGGATGTTAAGGATGTAGTTATTCCTAGTTGATGGCAAGTATAACTAATGAGTTTATTCC
TCTTACCTATTTTGAATGAATGAATTCCTCAAGAAGCATTATCAGAAAATTTGCTTGGTAACTG
TTGTTTGTTTGTTGTGGCAAATTTATATGCTCGTTGTTGGTTGCTCTTACTAGTAGTAACTGGA
AATAGTAGTTTCAATACCCAGAGATATCAAAATAAAATTTCAATCCAAAACTTTCTGTAAGTTT
TTTTTTAAAATTATCGAGTTCAATCCACCAAGTGTGAACCATAGGTTGCAATTCCTAAGGAACA
ATTTAAACCTGTGAAACAACTGAACTCCTGTAAGGCTAATGCTTCTAGCTTGGGGTCTGGCTTT
GACTTCAATAATCAGACTTACCTACTTGAAGCTCAAACTAAACTAATGTATGTTAAAACATGTT
AATTAGCATACTGTCATCATTGTGTTCAATTCAAATCTTCTTTTTAGTACTGGATAAACCTATC
AACGATCATTTTTTCTTTTGATGATATGCTGAATTATTTTAGTTGAAATGATGATTTTAGGGAA
GTTTGCTCTGCTTAATTATGATGAACCCTTCGGGGTGGCCCAGTGGTTTGAGTTTGGATTTTCC
ATGCGGGAGGTCTCAAGTTCGAAACTCCTTGCCAGGGAAAGCAAGGGGTTTGCCTTTTGGGTCG
AGCTTGTCGCTCCAGGCTTGTCTAGTGCGGTTACCTCTCCTATGTGGTTACCTCTCCTATGTGG
TTTGCGAGTTATTGCATAGGAGTGGGGGTTCTACCCTGTGCGCATACAAAGGGTAGCGGCTGCG
GGTTTCCCTTGTCATAAAAATAAATAAATTATGATGATACAGTTCTCTTCTATGTATCCTGTCA
GGCATTAGACCTTGGAAGAGGTGTGAATCCAGGAAGATATATTGTTGGAGAGATCTGGGAAGAG
CTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGAATCTACAAGGCGCTCCTGGGAGCTTCAGA
ACTTGAA
						
					

			
		

Sequences
Splice junction sequence	GATATATTGTTGGAGAGATCTGGGAAGAGCTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGA ATCTACAAGGCGCTCCTGGGAGCTTCAGAACTTGAAtgactggagaagagtggaggaagattgc aggagggcgattcagctcgatcataattctgtaaaggtacgaaacattgtgatatgtagcttgc atgttcct
Assembled circRNA sequence	Yes 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	Transcript length: 270 Transcript exons: 48688135-48688198,48688790-48688861,48691144-48691277 TGACTGGAGAAGAGTGGAGGAAGATTGCAGGAGGGCGATTCAGCTCGATCATAATTCTGTAAAG GCCCACTATTATCTTGGTCTTGCATTGCTACAAAAGGAAGCATTTGGTGAAGGTGTGAGAGAAT TGGAAAAGGCATTAGACCTTGGAAGAGGTGTGAATCCAGGAAGATATATTGTTGGAGAGATCTG GGAAGAGCTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGAATCTACAAGGCGCTCCTGGGAG CTTCAGAACTTGAA
Genomic sequence	TGACTGGAGAAGAGTGGAGGAAGATTGCAGGAGGGCGATTCAGCTCGATCATAATTCTGTAAAG GTACGAAACATTGTGATATGTAGCTTGCATGTTCCTTTTTCCAATCTTGTGTTTTCATACAAGT GCTCTATCTAGCTGAGGGTCTATGGAAGACGTCTCTCGCATTGACAACTTAGTGGTAAGGTTGC GCATAGATCACCCTCCCTGTACAGCATTTGAGGGTTTACACTGGGTTTGTTGTTGTTGCTTTTA TCAAGGTTGACTTAGATGTGTTTTAGTTTATCAATAAATTTAGTTTGTTTTTCTCATGGATGTT GAAAACCCTCATGGTCGTAACTAGTTTGAAGAGGGAAAAATGGAAATATGAAATCTTAAATGTT CCATCGGAGAAATAGTTTGCCGAGAGAGCAGTTACTGTAAAGATACTCTGGAGATTTTTATGAT GTAAATCCCGGAGATTGTTGATTTGTTAACTATTATTGATAAATTTAAATAATGCAGCATGTTA GAACATCCACATAATCAAAGTTGAATACTTCTCCAGAATCTATGTTTCTTATCTGCTGAATTTA TGGTCTTTCTTAGTTGGTGTTGCTAGAACTTGTTTTTTCCCTACAGATAATAACATAAGAGTGA TTTCTGGGTAAACAGGCCCACTATTATCTTGGTCTTGCATTGCTACAAAAGGAAGCATTTGGTG AAGGTGTGAGAGAATTGGAAAAGGTATACATGTCTCTTACAGATGTTCAAATATTTGTCTTCCA AGTGTCCATACATCACATTGGTGCACCACACTTTTGTGGCTTTGTCTCTCTGCGGTGTCTAATC TGTATCCAAACAGCCTCATCTGTTTGTGAGTTTAGACTACAGACCAAAATGTTTATGAAAATGA TGATGTGACAAGGTAGGTCTTTTCCCCCCTTATAATTTGGTCAGTCATTATGCATTCTTACTTT TGTTATCATTGTTTCCTCTTTTATGCTCTTTCTAAATTAATACGAATGCAATTATATAATTAGG GACGTATTGCGGTTGCTATTGTCACTGCTCATTTCTCGATATATTTTTTTGGGAACAACTGTGA ACATTACCATTGATAACAAACGAGAATTACAGCTTTGATCACCTAACAACACAGCGTTTCTACC TTTTCTCTTTTTCTCAAAGCTAGTTACTAGTTAAAGTTTGAATAAAAATCCTACATTTATACTG TTTTTTTGATCCCCGAAATCTACCTATCCTGTCTATGAATTCATTTTTTATCTTTGTTATAACT TGCTCCTTTTGTCCATTTACTCCTCTGTATATTTTCCAATTCCTCACTCTACAAGTGTGATATA CCATAGCCCACCATTGAGCAGCAACTATTTCTTTCTTTACTTTACTCCAATGCTTTCTGTTGAA AGTTAGCAAGTTTGATTGTCGGAAAACAGGTTTCTTAACCTTTTATCATTTCGTTTGTTTATTT TTTGACTCTGTATTTTCCATAAAAGTGGCTTAGGTTCAAACCTTAACTAAAACTGATCTAATAT CACCTTCATGTTTCGAGCTTAGTAATCATGCACAGTAATTCCAATGTGCTGTTTCTAGCTTGCT TCTGTCAAACATGTTGGCCTTAACCAACATTATCATCTTTCATATGTGTAATTGGATCTCTTAG TGGTGAACTACTAATCTAAGCGTGGCTCTTTGAAGTTTTAGGAAAATAGATGTTAGGCGAGGTG AAAGAGATAAATGAACACGTATTTATGCTAGAATAATTGGTTTAGCGTTCTTTTGTTTTGATAA TGATGGTGCCCAAGCTAGCTTGTGTGCACTTAAACTATTTCACCAGATATCTGCTACCTCCACT AGCACATACACCAAGTAACTCTGCCTAACAAGGTTTAAGCATATCAGAAGAAATCTCGGTGATT TCTTTTTGTGTTGGCTGTATGCATGTTTTTAACGTGATAGTTCTCTGGATTACATATTTTGGAA TTTACATATTATGAAAATGCATTGTCAAAGTAAATCATAGTTCATGGAGCAGAGGTGAGCTTAC TGGGAAAATGTTAAGCTCATTTCACATTTCTTTTTCAAGGGTGAGATCACACACAGCTTGAAGA AATGTGGATGTTAAGGATGTAGTTATTCCTAGTTGATGGCAAGTATAACTAATGAGTTTATTCC TCTTACCTATTTTGAATGAATGAATTCCTCAAGAAGCATTATCAGAAAATTTGCTTGGTAACTG TTGTTTGTTTGTTGTGGCAAATTTATATGCTCGTTGTTGGTTGCTCTTACTAGTAGTAACTGGA AATAGTAGTTTCAATACCCAGAGATATCAAAATAAAATTTCAATCCAAAACTTTCTGTAAGTTT TTTTTTAAAATTATCGAGTTCAATCCACCAAGTGTGAACCATAGGTTGCAATTCCTAAGGAACA ATTTAAACCTGTGAAACAACTGAACTCCTGTAAGGCTAATGCTTCTAGCTTGGGGTCTGGCTTT GACTTCAATAATCAGACTTACCTACTTGAAGCTCAAACTAAACTAATGTATGTTAAAACATGTT AATTAGCATACTGTCATCATTGTGTTCAATTCAAATCTTCTTTTTAGTACTGGATAAACCTATC AACGATCATTTTTTCTTTTGATGATATGCTGAATTATTTTAGTTGAAATGATGATTTTAGGGAA GTTTGCTCTGCTTAATTATGATGAACCCTTCGGGGTGGCCCAGTGGTTTGAGTTTGGATTTTCC ATGCGGGAGGTCTCAAGTTCGAAACTCCTTGCCAGGGAAAGCAAGGGGTTTGCCTTTTGGGTCG AGCTTGTCGCTCCAGGCTTGTCTAGTGCGGTTACCTCTCCTATGTGGTTACCTCTCCTATGTGG TTTGCGAGTTATTGCATAGGAGTGGGGGTTCTACCCTGTGCGCATACAAAGGGTAGCGGCTGCG GGTTTCCCTTGTCATAAAAATAAATAAATTATGATGATACAGTTCTCTTCTATGTATCCTGTCA GGCATTAGACCTTGGAAGAGGTGTGAATCCAGGAAGATATATTGTTGGAGAGATCTGGGAAGAG CTTGCTAAAGCAAAGTACATGGAGTGGGAGCATGAATCTACAAGGCGCTCCTGGGAGCTTCAGA ACTTGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.47363175

Conservation Information
Conserved circRNAs	NA
PMCS	0.47363175

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							48691226-48691274(+)
48691278-48688193(+)
48691149-48691246(-)
48688188-48691149(-)
						
						Potential amino acid sequence
						
							MEWEHESTRRSWELQNLNDWRRVEEDCRRAIQLDHNSVKAHYYLGLALLQKEAFGEGVRELEKA
LDLGRGVNPGRYIVGEIWEELAKAKYMEWEHESTRRSWELQNLNDWRRVEEDCRRAIQLDHNSV
KAHYYLGLALLQKEAFGEGVRELEKALDLGRGVNPGRYIVGEIWEELAKAKYMEWEHESTRRSW
ELQNLNDWRRVEEDCRRAIQLDHNSVKAHYYLGLALLQKEAFGEGVRELEKALDLGRGVNPGRY
IVGEIWEELAKAKYMEWEHESTRRSWELQNL(+)
MTGEEWRKIAGGRFSSIIIL*(+)
MPFPILSHLHQMLPFVAMQDQDNSGPLQNYDRAESPSCNLPPLFSSHSSSEAPRSAL*(-)
MIELNRPPAIFLHSSPVIQVLKLPGAPCRFMLPLHVLCFSKLFPDLSNNISSWIHTSSKV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	48691226-48691274(+) 48691278-48688193(+) 48691149-48691246(-) 48688188-48691149(-)
Potential amino acid sequence	MEWEHESTRRSWELQNLNDWRRVEEDCRRAIQLDHNSVKAHYYLGLALLQKEAFGEGVRELEKA LDLGRGVNPGRYIVGEIWEELAKAKYMEWEHESTRRSWELQNLNDWRRVEEDCRRAIQLDHNSV KAHYYLGLALLQKEAFGEGVRELEKALDLGRGVNPGRYIVGEIWEELAKAKYMEWEHESTRRSW ELQNLNDWRRVEEDCRRAIQLDHNSVKAHYYLGLALLQKEAFGEGVRELEKALDLGRGVNPGRY IVGEIWEELAKAKYMEWEHESTRRSWELQNL(+) MTGEEWRKIAGGRFSSIIIL(+) MPFPILSHLHQMLPFVAMQDQDNSGPLQNYDRAESPSCNLPPLFSSHSSSEAPRSAL(-) MIELNRPPAIFLHSSPVIQVLKLPGAPCRFMLPLHVLCFSKLFPDLSNNISSWIHTSSKV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016

circRNA

Detail information of Solyc06g083150.2_circ_g.2

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