Plant Circular RNA Database

Detail information of Csa2G406700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa2G406700_circ_g.1
					
						ID in PlantcircBase
						csa_circ_001274
					
						Alias
						Chr2:21013319_21014520
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr2: 21013319-21014520  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa2G406700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Csa2G406700.1:4

General Information
CircRNA Name	Csa2G406700_circ_g.1
ID in PlantcircBase	csa_circ_001274
Alias	Chr2:21013319_21014520
Organism	Cucumis sativus
Position	chrChr2: 21013319-21014520 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa2G406700
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
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	Csa2G406700.1:4

			
						 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  
						
							GCATCCCATATCCTTTATATGAAACATTATCATTGCATTGAGGGGAGACTGAAGTATTTGGTGA
TCCCGCAAGTCCTCGTTTTTGCTTTGCATCCATTTCccacttgctagttaatgagctggcagat
atataaaagaaagttgcttttgcctctccagcgattgcttttccgatcattgttttacctgttc
cctgtaag

									
								

					

						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: 582
Transcript exons: 21013319-21013411,21013480-21013598,21013689-21013816,21
014279-21014520
CCACTTGCTAGTTAATGAGCTGGCAGATATATAAAAGAAAGTTGCTTTTGCCTCTCCAGCGATT
GCTTTTCCGATCATTGTTTTACCTGTTCCCGGCGGACCAAAAAGAAGGAGACCTCTTCCAGGAG
AACGACAACCTTTGAAAATGTCAGGACGTAATAAAGGCCATATAACCATTTCAGTTACACACTT
TTTTGCATGTTCAAGGCCAGCGATATCATCCCACCGAACATTAGGATCCCTGTCCATAATCTCG
TTGCTAACATGTTCAATAAGTCTAGGCTCCAAGTTCCTTAATTTTTCAGGAAGCTCACCATCAG
GTCCGCACAACATGTCCAAACATCTCTTTGTTGAGTCATCCAAAGCATCTTCACCTTTTCCACC
ACTTCGTGAATTTACCATGTTTCCAGCAGTGCCCCCGGTAGACCTAACAGGAGGGACAAAATTA
CCACGCACTCCACGGCGTGAAGAACCATACGATCGCATCCCATATCCTTTATATGAAACATTAT
CATTGCATTGAGGGGAGACTGAAGTATTTGGTGATCCCGCAAGTCCTCGTTTTTGCTTTGCATC
CATTTC
						
					

						Genomic sequence
						
							CCACTTGCTAGTTAATGAGCTGGCAGATATATAAAAGAAAGTTGCTTTTGCCTCTCCAGCGATT
GCTTTTCCGATCATTGTTTTACCTGTTCCCTGTAAGAAAATTATAGCTTATACCACAAAACTTC
CTGTTTAAAATATTCATGGAGCTTTAAACTCACCGGCGGACCAAAAAGAAGGAGACCTCTTCCA
GGAGAACGACAACCTTTGAAAATGTCAGGACGTAATAAAGGCCATATAACCATTTCAGTTACAC
ACTTTTTTGCATGTTCAAGGCCAGCTACAAATATCCATGCAAGGAATTTAAATCAGCACAATTT
TGTAACCAACGAAACCATATTGAACAATGAAACGAAATGTCTTGTTATACCGATATCATCCCAC
CGAACATTAGGATCCCTGTCCATAATCTCGTTGCTAACATGTTCAATAAGTCTAGGCTCCAAGT
TCCTTAATTTTTCAGGAAGCTCACCATCAGGTCCGCACAACATGTCCAAACTAGAATACAACAT
GAAATGTATCAGAATCTAAATAGTCGCAAGAAGCAGATTATATTGTTGACACATCTAAAGGATT
TCAAGCAAGACTTCTGTAAACCGTTGGAAAGTTTAGTAACAGAAACTATAGTAACTATCTTATA
TCATGTAGAAGAGTTAACAATTCCAGAACGTCAGGCCAACTACTAAAATCTTTATATAGAAAAC
AAAAAATTAGTCGAAGCATCACACACGACAAATGACAAGCCTTTGAGCATTGTAGATGTACACA
GAAGAGTTGCAGAGCCAGTAGCTACAGGGAAATAGAGCATTCAAACAGGAAGAGGAACCTACTA
CCCTCTAGTTTGTCTAGATACTGAGAAAATACTCGATCACTTGGAGATGGTTTGGGGAATAACA
AGATGTAAAGTGAAGTCTGGAACTTTCATCAGCAAACTTTAGATCTTGCAGTTAAAATATTTAC
CATCTCTTTGTTGAGTCATCCAAAGCATCTTCACCTTTTCCACCACTTCGTGAATTTACCATGT
TTCCAGCAGTGCCCCCGGTAGACCTAACAGGAGGGACAAAATTACCACGCACTCCACGGCGTGA
AGAACCATACGATCGCATCCCATATCCTTTATATGAAACATTATCATTGCATTGAGGGGAGACT
GAAGTATTTGGTGATCCCGCAAGTCCTCGTTTTTGCTTTGCATCCATTTC
						
					

			
		

Sequences
Splice junction sequence	GCATCCCATATCCTTTATATGAAACATTATCATTGCATTGAGGGGAGACTGAAGTATTTGGTGA TCCCGCAAGTCCTCGTTTTTGCTTTGCATCCATTTCccacttgctagttaatgagctggcagat atataaaagaaagttgcttttgcctctccagcgattgcttttccgatcattgttttacctgttc cctgtaag
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: 582 Transcript exons: 21013319-21013411,21013480-21013598,21013689-21013816,21 014279-21014520 CCACTTGCTAGTTAATGAGCTGGCAGATATATAAAAGAAAGTTGCTTTTGCCTCTCCAGCGATT GCTTTTCCGATCATTGTTTTACCTGTTCCCGGCGGACCAAAAAGAAGGAGACCTCTTCCAGGAG AACGACAACCTTTGAAAATGTCAGGACGTAATAAAGGCCATATAACCATTTCAGTTACACACTT TTTTGCATGTTCAAGGCCAGCGATATCATCCCACCGAACATTAGGATCCCTGTCCATAATCTCG TTGCTAACATGTTCAATAAGTCTAGGCTCCAAGTTCCTTAATTTTTCAGGAAGCTCACCATCAG GTCCGCACAACATGTCCAAACATCTCTTTGTTGAGTCATCCAAAGCATCTTCACCTTTTCCACC ACTTCGTGAATTTACCATGTTTCCAGCAGTGCCCCCGGTAGACCTAACAGGAGGGACAAAATTA CCACGCACTCCACGGCGTGAAGAACCATACGATCGCATCCCATATCCTTTATATGAAACATTAT CATTGCATTGAGGGGAGACTGAAGTATTTGGTGATCCCGCAAGTCCTCGTTTTTGCTTTGCATC CATTTC
Genomic sequence	CCACTTGCTAGTTAATGAGCTGGCAGATATATAAAAGAAAGTTGCTTTTGCCTCTCCAGCGATT GCTTTTCCGATCATTGTTTTACCTGTTCCCTGTAAGAAAATTATAGCTTATACCACAAAACTTC CTGTTTAAAATATTCATGGAGCTTTAAACTCACCGGCGGACCAAAAAGAAGGAGACCTCTTCCA GGAGAACGACAACCTTTGAAAATGTCAGGACGTAATAAAGGCCATATAACCATTTCAGTTACAC ACTTTTTTGCATGTTCAAGGCCAGCTACAAATATCCATGCAAGGAATTTAAATCAGCACAATTT TGTAACCAACGAAACCATATTGAACAATGAAACGAAATGTCTTGTTATACCGATATCATCCCAC CGAACATTAGGATCCCTGTCCATAATCTCGTTGCTAACATGTTCAATAAGTCTAGGCTCCAAGT TCCTTAATTTTTCAGGAAGCTCACCATCAGGTCCGCACAACATGTCCAAACTAGAATACAACAT GAAATGTATCAGAATCTAAATAGTCGCAAGAAGCAGATTATATTGTTGACACATCTAAAGGATT TCAAGCAAGACTTCTGTAAACCGTTGGAAAGTTTAGTAACAGAAACTATAGTAACTATCTTATA TCATGTAGAAGAGTTAACAATTCCAGAACGTCAGGCCAACTACTAAAATCTTTATATAGAAAAC AAAAAATTAGTCGAAGCATCACACACGACAAATGACAAGCCTTTGAGCATTGTAGATGTACACA GAAGAGTTGCAGAGCCAGTAGCTACAGGGAAATAGAGCATTCAAACAGGAAGAGGAACCTACTA CCCTCTAGTTTGTCTAGATACTGAGAAAATACTCGATCACTTGGAGATGGTTTGGGGAATAACA AGATGTAAAGTGAAGTCTGGAACTTTCATCAGCAAACTTTAGATCTTGCAGTTAAAATATTTAC CATCTCTTTGTTGAGTCATCCAAAGCATCTTCACCTTTTCCACCACTTCGTGAATTTACCATGT TTCCAGCAGTGCCCCCGGTAGACCTAACAGGAGGGACAAAATTACCACGCACTCCACGGCGTGA AGAACCATACGATCGCATCCCATATCCTTTATATGAAACATTATCATTGCATTGAGGGGAGACT GAAGTATTTGGTGATCCCGCAAGTCCTCGTTTTTGCTTTGCATCCATTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.162049078

Conservation Information
Conserved circRNAs	NA
PMCS	1.162049078

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21014519-21013321(-)
						
						Potential amino acid sequence
						
							MDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNMVNSR
SGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAGLEHA
KKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASSLTSK
WEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNMVN
SRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAGLE
HAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASSLT
SKWEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNM
VNSRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAG
LEHAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASS
LTSKWEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAG
NMVNSRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDI
AGLEHAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISA
SSLTSKW
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to salt stress in leaf

Functional Information
Coding potential	Y
Potential coding position	21014519-21013321(-)
Potential amino acid sequence	MDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNMVNSR SGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAGLEHA KKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASSLTSK WEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNMVN SRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAGLE HAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASSLT SKWEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAGNM VNSRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDIAG LEHAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISASS LTSKWEMDAKQKRGLAGSPNTSVSPQCNDNVSYKGYGMRSYGSSRRGVRGNFVPPVRSTGGTAG NMVNSRSGGKGEDALDDSTKRCLDMLCGPDGELPEKLRNLEPRLIEHVSNEIMDRDPNVRWDDI AGLEHAKKCVTEMVIWPLLRPDIFKGCRSPGRGLLLFGPPGTGKTMIGKAIAGEAKATFFYISA SSLTSKW
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in leaf

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

circRNA

Detail information of Csa2G406700_circ_g.1

Address

Any questions?

Supported by