Plant Circular RNA Database

Detail information of Csa2G148430_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa2G148430_circ_g.1
					
						ID in PlantcircBase
						csa_circ_000971
					
						Alias
						Chr2:8867649_8877473
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr2: 8867649-8877473  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Find_circ
					
						Parent gene
						
							Csa2G148430						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Csa2G148430_circ_g.2 Csa2G148430_circ_g.3 						
					
						Support reads
						NA
					
						Tissues
						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  
						
							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
						Csa2G148430.1:18

General Information
CircRNA Name	Csa2G148430_circ_g.1
ID in PlantcircBase	csa_circ_000971
Alias	Chr2:8867649_8877473
Organism	Cucumis sativus
Position	chrChr2: 8867649-8877473 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	Find_circ
Parent gene	Csa2G148430
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Csa2G148430_circ_g.2 Csa2G148430_circ_g.3
Support reads	NA
Tissues	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	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	Csa2G148430.1:18

			
						 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  
						
							GATAGATCGCATAAGCCCAGGTCCTCAACATAATATACTTGAGTCCAGTCTATCTTGGTACTCG
GAAGGAAAGCAGCAATTGTGGAGTGTTGCAGCACAGattataaaccaatgctcgaacttgtaga
cttacttgtgatgaaatttgccacaactccaagccttacagtggatgatgatttatccagcctt
gttgatac

						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	GATAGATCGCATAAGCCCAGGTCCTCAACATAATATACTTGAGTCCAGTCTATCTTGGTACTCG GAAGGAAAGCAGCAATTGTGGAGTGTTGCAGCACAGattataaaccaatgctcgaacttgtaga cttacttgtgatgaaatttgccacaactccaagccttacagtggatgatgatttatccagcctt gttgatac
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
						0.089639688

Conservation Information
Conserved circRNAs	NA
PMCS	0.089639688

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							8867661-8867672(+)
						
					

						Potential amino acid sequence
						
							MLELVDLLVMKFATTPSLTVDDDLSSLVDTILQLMLVILEGLQNSEDFLCISGCSLRWAPIFQL
NNSSLLTFVREVMEKDTSVLCAFRTNILRVMNESLESSPEEVIYLLLSFSERLPTEVLGTSEEE
IPKINNFILKILRQWIKEITDFVQHSSSTIDINESKLATFWGVVRCCPYILKFQASSSLLVELI
DALDRLCTLEGDIFGIPKEKLESIIGATIGSYLKLLSSEKAGLEELSRLVYLAKRYSSCSQVLV
AVADYLDFIYGPALEADISKRIYSEEFQADKVEDAVQVFADNLRHSDKGVRLSTLRILCHYEPL
QSATLTKESSIDNEMEAENLEPYSDDLVGSEVLRLLLSVESTSTSISTSRKIILFISGVQRALM
AEGIPEAYLLVALNGIIGIFQNRFSYIWDQASECLASLIRNHSEFVWDKLICYFQQWLCLLDQP
GRDTAESSDELNDLVRCFRSFVVPSTDSTPLFTLLSLVLQSLQKNSTIVESQSQRMLPLFLTFL
GYSTGHVDSVDSFKQYACKSKEWKCVLKEWLNLLRKTRNLKSFHKSDFLKEVLEQRLLDDNDAE
IQSKVLDCLLMWKDDFLISHEQHLKNIISPKTLREELTRWSLSKEKNQIDERHRPKLVPLVTRL
LMPKVRKLKVLGSRKQASVNLRKAVLQFIAQLDTVELPLFFSLLLKPLNIIPREADATANWFSN
LHLVSMKASATNILKYFSTESIVALSWKKKYGFMHVIEEVLAVFDEMLISPFLNIILGCVVRIL
ASCTSSLHAARHNEMSLSEIGKTCNKNSLEMNKEAAFPGLTYTAVKQHKDLRSLCLRVISVVLY
KYEDFDFEMEFWDLFFTSVKSSIESFKHEGSSSEKPSSLCSCFLAMSRSHKLVPLLARERNLVP
DIFFILTISAASQPIILFVLQFIENLLSFDGELDGNDSAVRSILHPNLDSLVQSLHVLFQSGDA
KKRKLIEHLNGPMIRIFKLLSKVVRDQLHAKKFVEIILPCLSQTGRSSEFYANTLQVVQNVVPI
LRSESTTKILKAVSPLLISVEQDLRLLVCDLINALAEVDSSILCVAQIIRGLNATSAMEIGGLD
FDTIVNTYEKISVDFFCATSEEHALVVLSQCMHDMSSEELILRHSAYRCLLSFVEFSSSVLGQG
GISHQESSDNITLYDNSWSKESIMRLTNKFIFKHMGEAMNRETSVKKEWINLLREMVLKFPDVA
NLSSLKALYSKDAEIDFFSNITHLQKLRRAKALIRFKNTIPTVNMPEVITKNVFVPLFFNMLFD
LQEGKAENIRVACIEALASISGQMEWKSYFALLRRCLRDLTKHPDKKKVLMRLICCILDNFHFQ
ENISDVGSTQLYGSVVVMNNMQVCLSKDVFPKIQKFMNSQSERVDIYVHLAALKVLKLLPANVM
DSQLLSIIQHIVNFLKNRLESVRDEARSALAACLKELGSEYLQVVVRVLRGSLKRGYEMHVLGY
TLNFLLSKLFTGPATGKIDYLLDDLISVAEKDILGEVAEEKEVEKLASKMKETRKQKSFDTLKL
VAQSITFKSHALKLLRPVTDHMKKHLTPKAKTKLENMLSSVAAGFESNPSVNQTDLLVFNYGLI
KDGIKVENGQGGISSLVDANKHSRDVSRGKNFSCQTILAKAPCSHLIMVFALKLLHGYMKKMQL
GKGDAQLLAMLDPFVLLLGDCLTSKYEDVLSLTLRCLTLLLRLPLPSVKSQADKIKGVVLLIAQ
SSVDPRNPLVESCLRLLTVLLRNEKVTLSTDQLHLLIQFPLFVDIDKNPSFVALSLLKAIVSRK
LVVPEIYDLAIRVAELMVTSQVEPIRKKCGKILLQFLLDYHLSEKRLQQHLDFLLSNLRYEHST
GREAVLEMLHATVVKFSKSVVDSISETLFFHLVACLANDQDHHVRSMAGLVIKSLIDRISPGPQ
HNILESSLSWYSEGKQQLWSVAAQIINQCSNL*
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	8867661-8867672(+)
Potential amino acid sequence	MLELVDLLVMKFATTPSLTVDDDLSSLVDTILQLMLVILEGLQNSEDFLCISGCSLRWAPIFQL NNSSLLTFVREVMEKDTSVLCAFRTNILRVMNESLESSPEEVIYLLLSFSERLPTEVLGTSEEE IPKINNFILKILRQWIKEITDFVQHSSSTIDINESKLATFWGVVRCCPYILKFQASSSLLVELI DALDRLCTLEGDIFGIPKEKLESIIGATIGSYLKLLSSEKAGLEELSRLVYLAKRYSSCSQVLV AVADYLDFIYGPALEADISKRIYSEEFQADKVEDAVQVFADNLRHSDKGVRLSTLRILCHYEPL QSATLTKESSIDNEMEAENLEPYSDDLVGSEVLRLLLSVESTSTSISTSRKIILFISGVQRALM AEGIPEAYLLVALNGIIGIFQNRFSYIWDQASECLASLIRNHSEFVWDKLICYFQQWLCLLDQP GRDTAESSDELNDLVRCFRSFVVPSTDSTPLFTLLSLVLQSLQKNSTIVESQSQRMLPLFLTFL GYSTGHVDSVDSFKQYACKSKEWKCVLKEWLNLLRKTRNLKSFHKSDFLKEVLEQRLLDDNDAE IQSKVLDCLLMWKDDFLISHEQHLKNIISPKTLREELTRWSLSKEKNQIDERHRPKLVPLVTRL LMPKVRKLKVLGSRKQASVNLRKAVLQFIAQLDTVELPLFFSLLLKPLNIIPREADATANWFSN LHLVSMKASATNILKYFSTESIVALSWKKKYGFMHVIEEVLAVFDEMLISPFLNIILGCVVRIL ASCTSSLHAARHNEMSLSEIGKTCNKNSLEMNKEAAFPGLTYTAVKQHKDLRSLCLRVISVVLY KYEDFDFEMEFWDLFFTSVKSSIESFKHEGSSSEKPSSLCSCFLAMSRSHKLVPLLARERNLVP DIFFILTISAASQPIILFVLQFIENLLSFDGELDGNDSAVRSILHPNLDSLVQSLHVLFQSGDA KKRKLIEHLNGPMIRIFKLLSKVVRDQLHAKKFVEIILPCLSQTGRSSEFYANTLQVVQNVVPI LRSESTTKILKAVSPLLISVEQDLRLLVCDLINALAEVDSSILCVAQIIRGLNATSAMEIGGLD FDTIVNTYEKISVDFFCATSEEHALVVLSQCMHDMSSEELILRHSAYRCLLSFVEFSSSVLGQG GISHQESSDNITLYDNSWSKESIMRLTNKFIFKHMGEAMNRETSVKKEWINLLREMVLKFPDVA NLSSLKALYSKDAEIDFFSNITHLQKLRRAKALIRFKNTIPTVNMPEVITKNVFVPLFFNMLFD LQEGKAENIRVACIEALASISGQMEWKSYFALLRRCLRDLTKHPDKKKVLMRLICCILDNFHFQ ENISDVGSTQLYGSVVVMNNMQVCLSKDVFPKIQKFMNSQSERVDIYVHLAALKVLKLLPANVM DSQLLSIIQHIVNFLKNRLESVRDEARSALAACLKELGSEYLQVVVRVLRGSLKRGYEMHVLGY TLNFLLSKLFTGPATGKIDYLLDDLISVAEKDILGEVAEEKEVEKLASKMKETRKQKSFDTLKL VAQSITFKSHALKLLRPVTDHMKKHLTPKAKTKLENMLSSVAAGFESNPSVNQTDLLVFNYGLI KDGIKVENGQGGISSLVDANKHSRDVSRGKNFSCQTILAKAPCSHLIMVFALKLLHGYMKKMQL GKGDAQLLAMLDPFVLLLGDCLTSKYEDVLSLTLRCLTLLLRLPLPSVKSQADKIKGVVLLIAQ SSVDPRNPLVESCLRLLTVLLRNEKVTLSTDQLHLLIQFPLFVDIDKNPSFVALSLLKAIVSRK LVVPEIYDLAIRVAELMVTSQVEPIRKKCGKILLQFLLDYHLSEKRLQQHLDFLLSNLRYEHST GREAVLEMLHATVVKFSKSVVDSISETLFFHLVACLANDQDHHVRSMAGLVIKSLIDRISPGPQ HNILESSLSWYSEGKQQLWSVAAQIINQCSNL*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						He et al., 2020

circRNA

Detail information of Csa2G148430_circ_g.1

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