Plant Circular RNA Database

Detail information of Solyc05g018650.2_circ_g.5

			
						 General Information
					
						CircRNA Name
						Solyc05g018650.2_circ_g.5
					
						ID in PlantcircBase
						sly_circ_001737
					
						Alias
						5:22692128|22693249, Slcirc077
					
						Organism
						
							Solanum lycopersicum						
					
						Position
						
							chr5: 22692128-22693249  JBrowse»						
					
						Reference genome
						
							SL2.50.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Segemehl, CIRI
					
						Parent gene
						
							Solyc05g018650.2						
					
						Parent gene annotation
						
							Ferrochelatase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Solyc05g018650.2_circ_g.1 Solyc05g018650.2_circ_g.2 Solyc05g018650.2_circ_g.3 Solyc05g018650.2_circ_g.4 						
					
						Support reads
						23/28
					
						Tissues
						fruit/leaf
					
						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  
						
							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
						Solyc05g018650.2.1:3

General Information
CircRNA Name	Solyc05g018650.2_circ_g.5
ID in PlantcircBase	sly_circ_001737
Alias	5:22692128\|22693249, Slcirc077
Organism	Solanum lycopersicum
Position	chr5: 22692128-22693249 JBrowse»
Reference genome	SL2.50.38
Type	e-circRNA
Identification method	Segemehl, CIRI
Parent gene	Solyc05g018650.2
Parent gene annotation	Ferrochelatase
Parent gene strand	-
Alternative splicing	Solyc05g018650.2_circ_g.1 Solyc05g018650.2_circ_g.2 Solyc05g018650.2_circ_g.3 Solyc05g018650.2_circ_g.4
Support reads	23/28
Tissues	fruit/leaf
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	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	Solyc05g018650.2.1:3

			
						 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  
						
							ATATACTCTCTAATAGGCGAAGGCTTGAACCACTCGTAGATATTGAAAACTGTGGATAAAGAGG
GAGAACAACAAGCTTTGTGATTCCATCCCTTTTAATctgatatgccaaagtatatgcattatgt
acccttctcttctcaagttcttccattattaagtccacacattcctccatctcagccttgtatg
gatcacct

						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: 384
Transcript exons: 22692128-22692280,22692929-22693055,22693146-22693249
CTGATATGCCAAAGTATATGCATTATGTACCCTTCTCTTCTCAAGTTCTTCCATTATTAAGTCC
ACACATTCCTCCATCTCAGCCTTGTATGGATCACCTGCTTCCTCTACATATGCAAGTGGTACAC
CATGAGCACTGAAGAATATCATCACCTCCTCCGGACGTTCAAACATGTTCAACTCTTTTTCCAT
CAAATCTGCCATGGCTTTGATATATCCTTCCCGTTGATACCATGAGGGTATTACTGTGTGTTGC
ATGTTAACAAGATACTCATCCTCCCTAAATATACTCTCTAATAGGCGAAGGCTTGAACCACTCG
TAGATATTGAAAACTGTGGATAAAGAGGGAGAACAACAAGCTTTGTGATTCCATCCCTTTTAAT
						
						Genomic sequence
						
							CTGATATGCCAAAGTATATGCATTATGTACCCTTCTCTTCTCAAGTTCTTCCATTATTAAGTCC
ACACATTCCTCCATCTCAGCCTTGTATGGATCACCTGCTTCCTCTACATATGCAAGTGGTACAC
CATGAGCACTGAAGAATATCATCACCTGTGTATATGAAGCTAGTTAATGCAGGAGACAAATTAG
AGAGATTTTTCTACTTCTTGGGAAGACCCTGCTTTTATTTTCATTATAAAATATCTGAAAATTT
TTCATAAATATGAAATGTAGAGGAGTAGAGGCAGGAACAGAACAGTGTCAGATCTGAATAAAAG
AAATCTTTGCTCCAGAGTGCTGTAGTTTTCCTTTGTTTTTGATCCTTAATATCTTCTACTGTAC
AGAGATCTTTCCATGGCTCTGTATTTCTACCCTAACCAACTCGATAGAGTTTCCAGAGAAGGTC
TCCAAGCATAAGACTTGATGGACAATAATACACTAAATCAAGAGTATCACAACATTCATGACAA
GAATCTTTTCTCATTTACTTTTTTGAAACTGGTAAAATTAAATCTTTAAGCATTTATCTTTATT
AAAAAAAAAATCTTACAGCATTTATTACAGAAGAAAGCAAAACTGAGAAGGCATATACTTTTGC
GAGAATTTTCTAGTTTAAGTAATGAAAACAAAAATAAAAATGCACAACTACTTTATGTGCCTCA
AGTATAATACTATCAGGAAGATGAGACCTTATTAGGAAAAAGAACTTTTCACGAGGTAAGTATA
GCATGAGACATCCAAGAATAGAGACAATACTACCTCCTCCGGACGTTCAAACATGTTCAACTCT
TTTTCCATCAAATCTGCCATGGCTTTGATATATCCTTCCCGTTGATACCATGAGGGTATTACTG
TGTGTTGCATGTTAACAAGATACTCATCCTCCCTGATGTTAATACTCATTGCTCCATATATCAG
TTTGACAATCGAAAATGGAATGTATTTTCTGAACAGGAACATAGGGTATGTTTATTACCTAAAT
ATACTCTCTAATAGGCGAAGGCTTGAACCACTCGTAGATATTGAAAACTGTGGATAAAGAGGGA
GAACAACAAGCTTTGTGATTCCATCCCTTTTAAT

Sequences
Splice junction sequence	ATATACTCTCTAATAGGCGAAGGCTTGAACCACTCGTAGATATTGAAAACTGTGGATAAAGAGG GAGAACAACAAGCTTTGTGATTCCATCCCTTTTAATctgatatgccaaagtatatgcattatgt acccttctcttctcaagttcttccattattaagtccacacattcctccatctcagccttgtatg gatcacct
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: 384 Transcript exons: 22692128-22692280,22692929-22693055,22693146-22693249 CTGATATGCCAAAGTATATGCATTATGTACCCTTCTCTTCTCAAGTTCTTCCATTATTAAGTCC ACACATTCCTCCATCTCAGCCTTGTATGGATCACCTGCTTCCTCTACATATGCAAGTGGTACAC CATGAGCACTGAAGAATATCATCACCTCCTCCGGACGTTCAAACATGTTCAACTCTTTTTCCAT CAAATCTGCCATGGCTTTGATATATCCTTCCCGTTGATACCATGAGGGTATTACTGTGTGTTGC ATGTTAACAAGATACTCATCCTCCCTAAATATACTCTCTAATAGGCGAAGGCTTGAACCACTCG TAGATATTGAAAACTGTGGATAAAGAGGGAGAACAACAAGCTTTGTGATTCCATCCCTTTTAAT
Genomic sequence	CTGATATGCCAAAGTATATGCATTATGTACCCTTCTCTTCTCAAGTTCTTCCATTATTAAGTCC ACACATTCCTCCATCTCAGCCTTGTATGGATCACCTGCTTCCTCTACATATGCAAGTGGTACAC CATGAGCACTGAAGAATATCATCACCTGTGTATATGAAGCTAGTTAATGCAGGAGACAAATTAG AGAGATTTTTCTACTTCTTGGGAAGACCCTGCTTTTATTTTCATTATAAAATATCTGAAAATTT TTCATAAATATGAAATGTAGAGGAGTAGAGGCAGGAACAGAACAGTGTCAGATCTGAATAAAAG AAATCTTTGCTCCAGAGTGCTGTAGTTTTCCTTTGTTTTTGATCCTTAATATCTTCTACTGTAC AGAGATCTTTCCATGGCTCTGTATTTCTACCCTAACCAACTCGATAGAGTTTCCAGAGAAGGTC TCCAAGCATAAGACTTGATGGACAATAATACACTAAATCAAGAGTATCACAACATTCATGACAA GAATCTTTTCTCATTTACTTTTTTGAAACTGGTAAAATTAAATCTTTAAGCATTTATCTTTATT AAAAAAAAAATCTTACAGCATTTATTACAGAAGAAAGCAAAACTGAGAAGGCATATACTTTTGC GAGAATTTTCTAGTTTAAGTAATGAAAACAAAAATAAAAATGCACAACTACTTTATGTGCCTCA AGTATAATACTATCAGGAAGATGAGACCTTATTAGGAAAAAGAACTTTTCACGAGGTAAGTATA GCATGAGACATCCAAGAATAGAGACAATACTACCTCCTCCGGACGTTCAAACATGTTCAACTCT TTTTCCATCAAATCTGCCATGGCTTTGATATATCCTTCCCGTTGATACCATGAGGGTATTACTG TGTGTTGCATGTTAACAAGATACTCATCCTCCCTGATGTTAATACTCATTGCTCCATATATCAG TTTGACAATCGAAAATGGAATGTATTTTCTGAACAGGAACATAGGGTATGTTTATTACCTAAAT ATACTCTCTAATAGGCGAAGGCTTGAACCACTCGTAGATATTGAAAACTGTGGATAAAGAGGGA GAACAACAAGCTTTGTGATTCCATCCCTTTTAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							csi_circ_000819  						
					
						PMCS
						0.418951154

Conservation Information
Conserved circRNAs	csi_circ_000819
PMCS	0.418951154

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22693035-22692130(-)
22692152-22693161(-)
						
						Potential amino acid sequence
						
							MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC
VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN
MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC
VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN
MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC
VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN
MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC
VDLIMEELEKRRVHNAYTLAYQ(-)
MHILWHIRLKGMESQSLLFSLFIHSFQYLRVVQAFAY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22693035-22692130(-) 22692152-22693161(-)
Potential amino acid sequence	MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC VDLIMEELEKRRVHNAYTLAYQIKRDGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN MQHTVIPSWYQREGYIKAMADLMEKELNMFERPEEVMIFFSAHGVPLAYVEEAGDPYKAEMEEC VDLIMEELEKRRVHNAYTLAYQ(-) MHILWHIRLKGMESQSLLFSLFIHSFQYLRVVQAFAY*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zuo et al., 2016; Tan et al., 2017; Yin et al., 2018; Wang et al., 2018b

circRNA

Detail information of Solyc05g018650.2_circ_g.5

Address

Any questions?

Supported by