Plant Circular RNA Database

Detail information of Csa3G710840_circ_g.2

			
						 General Information
					
						CircRNA Name
						Csa3G710840_circ_g.2
					
						ID in PlantcircBase
						csa_circ_001916
					
						Alias
						Chr3:26940168_26954591
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr3: 26940168-26954591  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Csa3G710840						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Csa3G710840_circ_g.3 						
					
						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  
						
							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
						Csa3G710840.1:12

General Information
CircRNA Name	Csa3G710840_circ_g.2
ID in PlantcircBase	csa_circ_001916
Alias	Chr3:26940168_26954591
Organism	Cucumis sativus
Position	chrChr3: 26940168-26954591 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2
Parent gene	Csa3G710840
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Csa3G710840_circ_g.3
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	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	Csa3G710840.1:12

			
						 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  
						
							CTTTCAGTTATTAGCAGGTTTGATAATCTCATTTATTGCGGTGATGGCTGTTATTGGATCCCTT
GGACATCTCCCACTAAACATTGGTACTCCAGGGCTGgttggttcaggaaaaacatccttattga
gtgcaatcttgggagaaatgcagcttctacatggttctgtacatgcaaacagatcgattgcata
cgtgtccc

						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	CTTTCAGTTATTAGCAGGTTTGATAATCTCATTTATTGCGGTGATGGCTGTTATTGGATCCCTT GGACATCTCCCACTAAACATTGGTACTCCAGGGCTGgttggttcaggaaaaacatccttattga gtgcaatcttgggagaaatgcagcttctacatggttctgtacatgcaaacagatcgattgcata cgtgtccc
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
						0.088555658

Conservation Information
Conserved circRNAs	NA
PMCS	0.088555658

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							26940214-26954588(+)
26953800-26940367(+)
						
					

						Potential amino acid sequence
						
							MQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDISLMPGGDM
AHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGSLAQKRTRI
LSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQGCQVIERTE
TCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISALLMQASRN
GNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAVKVHDTLLN
KLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSYVQVFFLLL
LLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFFFTRFTKHI
ILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGSGKTSLLSA
ILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDISLMP
GGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGSLAQK
RTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQGCQVI
ERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISALLMQ
ASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAVKVHD
TLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSYVQVF
FLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFFFTRF
TKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGSGKTS
LLSAILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDI
SLMPGGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGS
LAQKRTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQG
CQVIERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISA
LLMQASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAV
KVHDTLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSY
VQVFFLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFF
FTRFTKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGS
GKTSLLSAILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACAL
DIDISLMPGGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHA
ILGSLAQKRTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCI
QRQGCQVIERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIII
CISALLMQASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGL
QAAVKVHDTLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAV
VLSYVQVFFLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKC
EDFFFTRFTKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPG
L
MAIPSTSVISRFDNLIYCGDGCYWIPWTSPTKHWYSRAGWFRKNILIECNLGRNAASTWFCTCK
QIDCIRVPGTMDTFWNNS*
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	26940214-26954588(+) 26953800-26940367(+)
Potential amino acid sequence	MQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDISLMPGGDM AHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGSLAQKRTRI LSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQGCQVIERTE TCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISALLMQASRN GNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAVKVHDTLLN KLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSYVQVFFLLL LLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFFFTRFTKHI ILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGSGKTSLLSA ILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDISLMP GGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGSLAQK RTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQGCQVI ERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISALLMQ ASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAVKVHD TLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSYVQVF FLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFFFTRF TKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGSGKTS LLSAILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACALDIDI SLMPGGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHAILGS LAQKRTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCIQRQG CQVIERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIIICISA LLMQASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGLQAAV KVHDTLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAVVLSY VQVFFLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKCEDFF FTRFTKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPGLVGS GKTSLLSAILGEMQLLHGSVHANRSIAYVSQVPWILSGTIRENILFGKGYDSQRYQDTLWACAL DIDISLMPGGDMAHIGERGVNLSGGQRARLAMARALYHGLDILMLDDVLSAVDAQVADWILRHA ILGSLAQKRTRILSTHNNQAIFSADMVIVMDRGKVKWIGNPANLSGSSYVTFTPLNELDSTQCI QRQGCQVIERTETCKRFFDEKEDTNAPSEVTETVDGELRTEGRVQLSVYKNYAAFCGWFIAIII CISALLMQASRNGNDLWLSFWVDTTGRSQMDSSTTFYLVTLCIFCIINSFFTLLRAFSFAFGGL QAAVKVHDTLLNKLIHAPIQFFYQTPGGRILNRLSSDLYTIDDSLPFILNILLANFVGLLGIAV VLSYVQVFFLLLLLPFWYIYSKLQFFYRATARELRRLDSVSRSPIYSSFTETLDGSATIRAFKC EDFFFTRFTKHIILYQQTSYSEVTASLWLSLRLQLLAGLIISFIAVMAVIGSLGHLPLNIGTPG L MAIPSTSVISRFDNLIYCGDGCYWIPWTSPTKHWYSRAGWFRKNILIECNLGRNAASTWFCTCK QIDCIRVPGTMDTFWNNS*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhu et al., 2019

circRNA

Detail information of Csa3G710840_circ_g.2

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