Plant Circular RNA Database

Detail information of Csa1G652290_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa1G652290_circ_g.1
					
						ID in PlantcircBase
						csa_circ_000667
					
						Alias
						Chr1:25970551_25973020
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr1: 25970551-25973020  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa1G652290						
					
						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
						Csa1G652290.1:5

General Information
CircRNA Name	Csa1G652290_circ_g.1
ID in PlantcircBase	csa_circ_000667
Alias	Chr1:25970551_25973020
Organism	Cucumis sativus
Position	chrChr1: 25970551-25973020 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa1G652290
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	Csa1G652290.1:5

			
						 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  
						
							AGAAACAAGATATACCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTGCAGCATCA
ACATCCCCCACATAAGCTCTGATGTTACTTCTAACCtgtgatatagaagtgactacaggacagt
ccaggctgcatccagacgctgaagatgaccggctatcacgatacagtatcctgtcacaccaagc
agggacac

									
								

					

						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: 684
Transcript exons: 25970551-25970674,25971039-25971306,25971452-25971492,25
971587-25971752,25972936-25973020
TGTGATATAGAAGTGACTACAGGACAGTCCAGGCTGCATCCAGACGCTGAAGATGACCGGCTAT
CACGATACAGTATCCTGTCACACCAAGCAGGGACACGCTTCTTCTCCCCAGAATCATACCCTGA
TAAACCTTGTTGTTGCCTCTCAAATTTATATGTTGGAGGAAATGTAATAACTGCTTCGCGCATT
CCTTGGAAAACATTTCCAGATTCCATCTCTGTACGAAGTTGATCCTTTTCTTTGAGCCAATCAA
AGCATCTTTGAGAAATAAAATCCCTAGCTTCATCATATGATACCCCATTGAGCCGATAATTAAA
ATCACCAAGAAAAATGATCAGATCCGACTCAGACAATTCAGGTGTCATTTCGACGGAGGACCCA
ACAAAAGCATTTGAACTGCGAACTGTCTGAGCAGTGGGTGAAGAACAAGCAGCTGTGGTACCAA
AAGGATTGGATGGCCGGTGAAATGACATATTCCGATACACGTGATCAAAATCTGCATTGCGACG
GTTGACTGCTTCCAAATGTGCAGCAAAATGACAGTTAACAAAGCACAACACTCGGTCGAACACT
CTTATCCTTAAACCAACTGCCCCCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTG
CAGCATCAACATCCCCCACATAAGCTCTGATGTTACTTCTAACC
						
					

						Genomic sequence
						
							TGTGATATAGAAGTGACTACAGGACAGTCCAGGCTGCATCCAGACGCTGAAGATGACCGGCTAT
CACGATACAGTATCCTGTCACACCAAGCAGGGACACGCTTCTTCTCCCCAGAATCATACCCTGT
TAGACAGGCAAAATAAAATTGATATCAAACCATCAGAAAACTCAAGTAACCTACATTGCAGGAT
AGAAACAAAAAAGCTTCCATGAGCATAATTGTCTTTATTTTTTCTTTCTTTCTTTTTATATGAA
GGAATCCACTCTTTTCACCCGAGCCAGGTTTTGATAATAGAACCTGTGGGTCCTCTCATTTTCT
ATTGCTCGCTAATAAGGCAGTTTCAAGTATGCGTCCAAATAGGAGCACAAGAAAACAAACAGAT
GCTGCTACTGATACATACTTTTAACTGGCATACCAGCAACTGATACTAAAGCAGCTTTAACCAA
ACTTTAAACTCAACTCCACTGAACAGCATCGAAAAGATACCTGATAAACCTTGTTGTTGCCTCT
CAAATTTATATGTTGGAGGAAATGTAATAACTGCTTCGCGCATTCCTTGGAAAACATTTCCAGA
TTCCATCTCTGTACGAAGTTGATCCTTTTCTTTGAGCCAATCAAAGCATCTTTGAGAAATAAAA
TCCCTAGCTTCATCATATGATACCCCATTGAGCCGATAATTAAAATCACCAAGAAAAATGATCA
GATCCGACTCAGACAATTCAGGTGTCATTTCGACGGAGGACCCAACAAAAGCCTGGGAAAGAAA
ACTCCATCATTTGTACGCCAAATAAAAAGAAGGAACAAGAAATTTTCAGTATACGTTAATTACA
AATTATAATGACAGTTAGAAGTAATTTGAACGACGGAGTGGACCATGCAACAATTAATTCTACA
CATACATTTGAACTGCGAACTGTCTGAGCAGTGGGTGAAGAACAAGCTGCACAAAAAAAGAGCA
ATGGCAAACCAGGCCTTTTGTAAAACATATGAATCAAGAAGTCAACTGCAAGTGTGAATAAGAA
GAGCCACTATACCAGCTGTGGTACCAAAAGGATTGGATGGCCGGTGAAATGACATATTCCGATA
CACGTGATCAAAATCTGCATTGCGACGGTTGACTGCTTCCAAATGTGCAGCAAAATGACAGTTA
ACAAAGCACAACACTCGGTCGAACACTCTTATCCTTAAACCAACTGCCCCCTGGTCAGACAACC
TTTAATCATGTCAAAATTTACAATTATGAGATATTAAAAACCATAAGATGTATGGTAAAAATGA
ACATTTTATACTTAAGTCAGAATCTCCATGAATGGTCATACATTCAACATAAATCCAAACAGTA
ATCTATGTCATCCTGCCAAAAACATTCAGCTACTATAGTCTGCAACATAATTCCTGAAAACATC
CTTTTTCAACTACCATCCCACAGATCTTGAAAGGGAACAAAGGAGATATGAAAATGATAAAGAG
GTTAGCTTATTTTTCACATTTGGAGAAGATAAATTCCCAACTAGCCCATGGAGAATTTATATGG
GTTCTAAAATGTGGAACTATTTACACTAGCTCACCAGAGAGGTTTTGATGAAGACAATTTCTCC
CTTACAAGTATCAAGACCAAAGGCTTTTGCTAATATCCGAAGGGTTTAAAAATGACATGGAAGA
GCACAAACATGACATAGAACACATCATTATACTAAATGAGAGAATTTTATTACTGTTTAAAAGT
TGTGAATACGAGAAGACAAGTACTCTATTTATAATTCAAAAGGAAACTAATGAATAAAAAAACT
AACCCTAATCCTAATTAATAAAAGAAACTAATCCTAATAGATTAAGGATTTAACCATAATACCC
TATTCCTACTACATCATGACACAATCACAACACAACATGGACATGGCGACACCAATTTCTGGAA
ATGTAAGACACAAATACTTCCGAGATACATAATTTAATATATATTTTTTTTAGATAACATTATG
TGGTTCAATTTTTGATTTGGAAGAAACAGAAATTAAAAAAAAAAAAAACAAAAACAGAAAAAGC
AAGTAAACTCTCTAACGCACGTTTTTCTTTTTACTTATATATATATATATATCATGCAATCCTG
TTCTGTTTGGTTTTGGGCTTAGGGTTTTGGACCCCGAACCAAACCTTATAAACTATAAAAACCA
AAATTTCAATTTGGTCGTGCATTCCTACAAAACAGCCAATCTAAAAAAAAAGAAAAAATCATTC
AAATATGAAAAGAGGTTAATGCTCAAAATACAAAATGTACAAAAATAATTGTTTAGTTGGTAAC
AATATTTTTCAAAATACAACATACAGAAAAAAGCGATGCTGGAAGCAGTAGTATTGTTGTGAAC
AAAGAAACAAGATATACCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTGCAGCAT
CAACATCCCCCACATAAGCTCTGATGTTACTTCTAACC
						
					

			
		

Sequences
Splice junction sequence	AGAAACAAGATATACCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTGCAGCATCA ACATCCCCCACATAAGCTCTGATGTTACTTCTAACCtgtgatatagaagtgactacaggacagt ccaggctgcatccagacgctgaagatgaccggctatcacgatacagtatcctgtcacaccaagc agggacac
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: 684 Transcript exons: 25970551-25970674,25971039-25971306,25971452-25971492,25 971587-25971752,25972936-25973020 TGTGATATAGAAGTGACTACAGGACAGTCCAGGCTGCATCCAGACGCTGAAGATGACCGGCTAT CACGATACAGTATCCTGTCACACCAAGCAGGGACACGCTTCTTCTCCCCAGAATCATACCCTGA TAAACCTTGTTGTTGCCTCTCAAATTTATATGTTGGAGGAAATGTAATAACTGCTTCGCGCATT CCTTGGAAAACATTTCCAGATTCCATCTCTGTACGAAGTTGATCCTTTTCTTTGAGCCAATCAA AGCATCTTTGAGAAATAAAATCCCTAGCTTCATCATATGATACCCCATTGAGCCGATAATTAAA ATCACCAAGAAAAATGATCAGATCCGACTCAGACAATTCAGGTGTCATTTCGACGGAGGACCCA ACAAAAGCATTTGAACTGCGAACTGTCTGAGCAGTGGGTGAAGAACAAGCAGCTGTGGTACCAA AAGGATTGGATGGCCGGTGAAATGACATATTCCGATACACGTGATCAAAATCTGCATTGCGACG GTTGACTGCTTCCAAATGTGCAGCAAAATGACAGTTAACAAAGCACAACACTCGGTCGAACACT CTTATCCTTAAACCAACTGCCCCCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTG CAGCATCAACATCCCCCACATAAGCTCTGATGTTACTTCTAACC
Genomic sequence	TGTGATATAGAAGTGACTACAGGACAGTCCAGGCTGCATCCAGACGCTGAAGATGACCGGCTAT CACGATACAGTATCCTGTCACACCAAGCAGGGACACGCTTCTTCTCCCCAGAATCATACCCTGT TAGACAGGCAAAATAAAATTGATATCAAACCATCAGAAAACTCAAGTAACCTACATTGCAGGAT AGAAACAAAAAAGCTTCCATGAGCATAATTGTCTTTATTTTTTCTTTCTTTCTTTTTATATGAA GGAATCCACTCTTTTCACCCGAGCCAGGTTTTGATAATAGAACCTGTGGGTCCTCTCATTTTCT ATTGCTCGCTAATAAGGCAGTTTCAAGTATGCGTCCAAATAGGAGCACAAGAAAACAAACAGAT GCTGCTACTGATACATACTTTTAACTGGCATACCAGCAACTGATACTAAAGCAGCTTTAACCAA ACTTTAAACTCAACTCCACTGAACAGCATCGAAAAGATACCTGATAAACCTTGTTGTTGCCTCT CAAATTTATATGTTGGAGGAAATGTAATAACTGCTTCGCGCATTCCTTGGAAAACATTTCCAGA TTCCATCTCTGTACGAAGTTGATCCTTTTCTTTGAGCCAATCAAAGCATCTTTGAGAAATAAAA TCCCTAGCTTCATCATATGATACCCCATTGAGCCGATAATTAAAATCACCAAGAAAAATGATCA GATCCGACTCAGACAATTCAGGTGTCATTTCGACGGAGGACCCAACAAAAGCCTGGGAAAGAAA ACTCCATCATTTGTACGCCAAATAAAAAGAAGGAACAAGAAATTTTCAGTATACGTTAATTACA AATTATAATGACAGTTAGAAGTAATTTGAACGACGGAGTGGACCATGCAACAATTAATTCTACA CATACATTTGAACTGCGAACTGTCTGAGCAGTGGGTGAAGAACAAGCTGCACAAAAAAAGAGCA ATGGCAAACCAGGCCTTTTGTAAAACATATGAATCAAGAAGTCAACTGCAAGTGTGAATAAGAA GAGCCACTATACCAGCTGTGGTACCAAAAGGATTGGATGGCCGGTGAAATGACATATTCCGATA CACGTGATCAAAATCTGCATTGCGACGGTTGACTGCTTCCAAATGTGCAGCAAAATGACAGTTA ACAAAGCACAACACTCGGTCGAACACTCTTATCCTTAAACCAACTGCCCCCTGGTCAGACAACC TTTAATCATGTCAAAATTTACAATTATGAGATATTAAAAACCATAAGATGTATGGTAAAAATGA ACATTTTATACTTAAGTCAGAATCTCCATGAATGGTCATACATTCAACATAAATCCAAACAGTA ATCTATGTCATCCTGCCAAAAACATTCAGCTACTATAGTCTGCAACATAATTCCTGAAAACATC CTTTTTCAACTACCATCCCACAGATCTTGAAAGGGAACAAAGGAGATATGAAAATGATAAAGAG GTTAGCTTATTTTTCACATTTGGAGAAGATAAATTCCCAACTAGCCCATGGAGAATTTATATGG GTTCTAAAATGTGGAACTATTTACACTAGCTCACCAGAGAGGTTTTGATGAAGACAATTTCTCC CTTACAAGTATCAAGACCAAAGGCTTTTGCTAATATCCGAAGGGTTTAAAAATGACATGGAAGA GCACAAACATGACATAGAACACATCATTATACTAAATGAGAGAATTTTATTACTGTTTAAAAGT TGTGAATACGAGAAGACAAGTACTCTATTTATAATTCAAAAGGAAACTAATGAATAAAAAAACT AACCCTAATCCTAATTAATAAAAGAAACTAATCCTAATAGATTAAGGATTTAACCATAATACCC TATTCCTACTACATCATGACACAATCACAACACAACATGGACATGGCGACACCAATTTCTGGAA ATGTAAGACACAAATACTTCCGAGATACATAATTTAATATATATTTTTTTTAGATAACATTATG TGGTTCAATTTTTGATTTGGAAGAAACAGAAATTAAAAAAAAAAAAAACAAAAACAGAAAAAGC AAGTAAACTCTCTAACGCACGTTTTTCTTTTTACTTATATATATATATATATCATGCAATCCTG TTCTGTTTGGTTTTGGGCTTAGGGTTTTGGACCCCGAACCAAACCTTATAAACTATAAAAACCA AAATTTCAATTTGGTCGTGCATTCCTACAAAACAGCCAATCTAAAAAAAAAGAAAAAATCATTC AAATATGAAAAGAGGTTAATGCTCAAAATACAAAATGTACAAAAATAATTGTTTAGTTGGTAAC AATATTTTTCAAAATACAACATACAGAAAAAAGCGATGCTGGAAGCAGTAGTATTGTTGTGAAC AAAGAAACAAGATATACCTTATTACCAATTGCACGTCCAAAGCCACACGGAACTGCTGCAGCAT CAACATCCCCCACATAAGCTCTGATGTTACTTCTAACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.49747195

Conservation Information
Conserved circRNAs	NA
PMCS	0.49747195

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25971631-25970553(-)
						
						Potential amino acid sequence
						
							MSFHRPSNPFGTTAACSSPTAQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDE
ARDFISQRCFDWLKEKDQLRTEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVP
AWCDRILYRDSRSSSASGCSLDCPVVTSISQVRSNIRAYVGDVDAAAVPCGFGRAIGNKGAVGL
RIRVFDRVLCFVNCHFAAHLEAVNRRNADFDHVYRNMSFHRPSNPFGTTAACSSPTAQTVRSSN
AFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDEARDFISQRCFDWLKEKDQLRTEMESGNV
FQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVPAWCDRILYRDSRSSSASGCSLDCPVVTS
ISQVRSNIRAYVGDVDAAAVPCGFGRAIGNKGAVGLRIRVFDRVLCFVNCHFAAHLEAVNRRNA
DFDHVYRNMSFHRPSNPFGTTAACSSPTAQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYR
LNGVSYDEARDFISQRCFDWLKEKDQLRTEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYD
SGEKKRVPAWCDRILYRDSRSSSASGCSLDCPVVTSISQVRSNIRAYVGDVDAAAVPCGFGRAI
GNKGAVGLRIRVFDRVLCFVNCHFAAHLEAVNRRNADFDHVYRNMSFHRPSNPFGTTAACSSPT
AQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDEARDFISQRCFDWLKEKDQLR
TEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVPAWCDRILYRDSRSSSASGCS
LDCPVVTSIS
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to salt stress in root, responsive to salt stress in leaf

Functional Information
Coding potential	Y
Potential coding position	25971631-25970553(-)
Potential amino acid sequence	MSFHRPSNPFGTTAACSSPTAQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDE ARDFISQRCFDWLKEKDQLRTEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVP AWCDRILYRDSRSSSASGCSLDCPVVTSISQVRSNIRAYVGDVDAAAVPCGFGRAIGNKGAVGL RIRVFDRVLCFVNCHFAAHLEAVNRRNADFDHVYRNMSFHRPSNPFGTTAACSSPTAQTVRSSN AFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDEARDFISQRCFDWLKEKDQLRTEMESGNV FQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVPAWCDRILYRDSRSSSASGCSLDCPVVTS ISQVRSNIRAYVGDVDAAAVPCGFGRAIGNKGAVGLRIRVFDRVLCFVNCHFAAHLEAVNRRNA DFDHVYRNMSFHRPSNPFGTTAACSSPTAQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYR LNGVSYDEARDFISQRCFDWLKEKDQLRTEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYD SGEKKRVPAWCDRILYRDSRSSSASGCSLDCPVVTSISQVRSNIRAYVGDVDAAAVPCGFGRAI GNKGAVGLRIRVFDRVLCFVNCHFAAHLEAVNRRNADFDHVYRNMSFHRPSNPFGTTAACSSPT AQTVRSSNAFVGSSVEMTPELSESDLIIFLGDFNYRLNGVSYDEARDFISQRCFDWLKEKDQLR TEMESGNVFQGMREAVITFPPTYKFERQQQGLSGYDSGEKKRVPAWCDRILYRDSRSSSASGCS LDCPVVTSIS
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root, responsive to salt stress in leaf

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

circRNA

Detail information of Csa1G652290_circ_g.1

Address

Any questions?

Supported by