Plant Circular RNA Database

Detail information of Csa2G075360_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa2G075360_circ_g.1
					
						ID in PlantcircBase
						csa_circ_000900
					
						Alias
						Chr2:6137347_6142958
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr2: 6137347-6142958  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Csa2G075360						
					
						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  
						
							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
						Csa2G075360.1:4

General Information
CircRNA Name	Csa2G075360_circ_g.1
ID in PlantcircBase	csa_circ_000900
Alias	Chr2:6137347_6142958
Organism	Cucumis sativus
Position	chrChr2: 6137347-6142958 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2
Parent gene	Csa2G075360
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	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	Csa2G075360.1:4

			
						 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  
						
							ATATATTGAAGTTCTGGTGGCAAATGACCAAACGAAAAGAGTTCTTCATGTGCAGAGTATATCA
TCTTGGGCACCTAGTTGCATTGGACCATATAGCCAGgttgcagcaatgggattggatcctgtga
agcacttggggaaagaattaacatctttggattcagatttacacaagttgaacaggtaattaat
gatgatat

						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	ATATATTGAAGTTCTGGTGGCAAATGACCAAACGAAAAGAGTTCTTCATGTGCAGAGTATATCA TCTTGGGCACCTAGTTGCATTGGACCATATAGCCAGgttgcagcaatgggattggatcctgtga agcacttggggaaagaattaacatctttggattcagatttacacaagttgaacaggtaattaat gatgatat
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
						0.100635246

Conservation Information
Conserved circRNAs	NA
PMCS	0.100635246

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6137357-6142955(+)
6142856-6137371(+)
						
						Potential amino acid sequence
						
							MGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKNARIVLDKFEVVMHS
SDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGDCFQNCDILQSVADV
SSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVLRKIESELLARGCGW
KNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQLGNAYIEVLVANDQ
TKRVLHVQSISSWAPSCIGPYSQVAAMGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEY
ETLTLDCPLFKNARIVLDKFEVVMHSSDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDH
EKGGLLFEIQGDCFQNCDILQSVADVSSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGT
SPGLQDDLKTVLRKIESELLARGCGWKNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPS
RSTVELPLQQVQLGNAYIEVLVANDQTKRVLHVQSISSWAPSCIGPYSQVAAMGLDPVKHLGKE
LTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKNARIVLDKFEVVMHSSDSIAPVGILHP
VSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGDCFQNCDILQSVADVSSDNHILDEVPD
DRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVLRKIESELLARGCGWKNVLYIHLYLAD
MNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQLGNAYIEVLVANDQTKRVLHVQSISS
WAPSCIGPYSQVAAMGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKN
ARIVLDKFEVVMHSSDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGD
CFQNCDILQSVADVSSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVL
RKIESELLARGCGWKNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQ
LGNAYIEVLVANDQTKRVLHVQSISSWAPSCIGPYSQ
MHILKFWWQMTKRKEFFMCRVYHLGHLVALDHIARLQQWDWIL*
						
						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	6137357-6142955(+) 6142856-6137371(+)
Potential amino acid sequence	MGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKNARIVLDKFEVVMHS SDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGDCFQNCDILQSVADV SSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVLRKIESELLARGCGW KNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQLGNAYIEVLVANDQ TKRVLHVQSISSWAPSCIGPYSQVAAMGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEY ETLTLDCPLFKNARIVLDKFEVVMHSSDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDH EKGGLLFEIQGDCFQNCDILQSVADVSSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGT SPGLQDDLKTVLRKIESELLARGCGWKNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPS RSTVELPLQQVQLGNAYIEVLVANDQTKRVLHVQSISSWAPSCIGPYSQVAAMGLDPVKHLGKE LTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKNARIVLDKFEVVMHSSDSIAPVGILHP VSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGDCFQNCDILQSVADVSSDNHILDEVPD DRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVLRKIESELLARGCGWKNVLYIHLYLAD MNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQLGNAYIEVLVANDQTKRVLHVQSISS WAPSCIGPYSQVAAMGLDPVKHLGKELTSLDSDLHKLNRLYGINVCGEGGEYETLTLDCPLFKN ARIVLDKFEVVMHSSDSIAPVGILHPVSFHLKYKAKTSSLGSICDNTNLVDHEKGGLLFEIQGD CFQNCDILQSVADVSSDNHILDEVPDDRLQISCSRMQNTFLICCWLQNSCGTSPGLQDDLKTVL RKIESELLARGCGWKNVLYIHLYLADMNGFGLANETYVSFITQEKCPFGVPSRSTVELPLQQVQ LGNAYIEVLVANDQTKRVLHVQSISSWAPSCIGPYSQ MHILKFWWQMTKRKEFFMCRVYHLGHLVALDHIARLQQWDWIL*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root

			
						 Other Information
					
						References
						Zhu et al., 2019

circRNA

Detail information of Csa2G075360_circ_g.1

Address

Any questions?

Supported by