Plant Circular RNA Database

Detail information of Csa5G107060_circ_g.2

			
						 General Information
					
						CircRNA Name
						Csa5G107060_circ_g.2
					
						ID in PlantcircBase
						csa_circ_002949
					
						Alias
						Chr5:2919991_2925685
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr5: 2919991-2925685  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa5G107060						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							Csa5G107060_circ_g.1 Chr5_circ_ig.7 Chr5_circ_ig.8 						
					
						Support reads
						NA
					
						Tissues
						leaf,root
					
						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
						Csa5G107060.1:7

General Information
CircRNA Name	Csa5G107060_circ_g.2
ID in PlantcircBase	csa_circ_002949
Alias	Chr5:2919991_2925685
Organism	Cucumis sativus
Position	chrChr5: 2919991-2925685 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa5G107060
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	Csa5G107060_circ_g.1 Chr5_circ_ig.7 Chr5_circ_ig.8
Support reads	NA
Tissues	leaf,root
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	Csa5G107060.1:7

			
						 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  
						
							CAGTGAGGAAAGGGCAGTCGTAAATTGACTTTAAGATTGAAGTTCGGAAATTGTGGCCAGCTCC
AAATCCGATCTTTCCTTCTTTAAGATTCTCCAAAATctttccatgcatgacatcatccctccat
gatccctgaaacatatctccattgttgaagtagactgttccttgacctgatctcataccatatc
gccacata

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	CAGTGAGGAAAGGGCAGTCGTAAATTGACTTTAAGATTGAAGTTCGGAAATTGTGGCCAGCTCC AAATCCGATCTTTCCTTCTTTAAGATTCTCCAAAATctttccatgcatgacatcatccctccat gatccctgaaacatatctccattgttgaagtagactgttccttgacctgatctcataccatatc gccacata
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.089005534

Conservation Information
Conserved circRNAs	NA
PMCS	0.089005534

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							2924940-2919993(-)
2920042-2925618(-)
						
					

						Potential amino acid sequence
						
							MVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTKQQSS
KSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASEGIDK
DSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLHRWNL
GPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKASIST
SRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKWSPVM
ELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWRDDVM
HGKILENLKEGKIGFGAGHNFRTSILKSIYDCPFLTVHLKDLKGMVVCIVASSSIIDDNDKSTL
LKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTKQQSSKSSSILSRLAQRFPLVFKLL
WKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDL
VSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAEL
ASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEF
YDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEG
KGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWRDDVMHGKILENLKEGKIGFGAGHN
FRTSILKSIYDCPFLTVHLKDLKGMVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQ
DLNIEPNFLMTTVLIVGSTKQQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDAS
PSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNS
SLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSE
EVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQG
LLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGM
RSGQGTVYFNNGDMFQGSWRDDVMHGKILENLKEGKIGFGAGHNFRTSILKSIYDCPFLTVHLK
DLKGMVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTK
QQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASE
GIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLH
RWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKA
SISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKW
SPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWR
DDVMHGK
MEICFRDHGGMMSCMERFWRILKKERSDLELATISELQS*
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to salt stress in root
					

			
		

Functional Information
Coding potential	Y
Potential coding position	2924940-2919993(-) 2920042-2925618(-)
Potential amino acid sequence	MVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTKQQSS KSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASEGIDK DSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLHRWNL GPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKASIST SRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKWSPVM ELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWRDDVM HGKILENLKEGKIGFGAGHNFRTSILKSIYDCPFLTVHLKDLKGMVVCIVASSSIIDDNDKSTL LKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTKQQSSKSSSILSRLAQRFPLVFKLL WKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDL VSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAEL ASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEF YDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEG KGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWRDDVMHGKILENLKEGKIGFGAGHN FRTSILKSIYDCPFLTVHLKDLKGMVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQ DLNIEPNFLMTTVLIVGSTKQQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDAS PSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNS SLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSE EVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQG LLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGM RSGQGTVYFNNGDMFQGSWRDDVMHGKILENLKEGKIGFGAGHNFRTSILKSIYDCPFLTVHLK DLKGMVVCIVASSSIIDDNDKSTLLKTFREVTTYTGKVILSTIQDLNIEPNFLMTTVLIVGSTK QQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDASPSNVRQSSDSEVNVTKIASE GIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNSSLPFSNGISRGASLRRDPLH RWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSEEVHDKDLPNPEMKYEKKSKA SISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQGLLSVRAASMLEAERDSPKKW SPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGMRSGQGTVYFNNGDMFQGSWR DDVMHGK MEICFRDHGGMMSCMERFWRILKKERSDLELATISELQS*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root

			
						 Other Information
					
						References
						Zhu et al., 2019;He et al., 2020

circRNA

Detail information of Csa5G107060_circ_g.2

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