Plant Circular RNA Database

Detail information of Csa5G107060_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa5G107060_circ_g.1
					
						ID in PlantcircBase
						csa_circ_002948
					
						Alias
						Chr5:2919991_2922027
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr5: 2919991-2922027  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa5G107060						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							Csa5G107060_circ_g.2 Chr5_circ_ig.7 Chr5_circ_ig.8 						
					
						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
						Csa5G107060.1:5

General Information
CircRNA Name	Csa5G107060_circ_g.1
ID in PlantcircBase	csa_circ_002948
Alias	Chr5:2919991_2922027
Organism	Cucumis sativus
Position	chrChr5: 2919991-2922027 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa5G107060
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	Csa5G107060_circ_g.2 Chr5_circ_ig.7 Chr5_circ_ig.8
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	Csa5G107060.1:5

			
						 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  
						
							CAGTTCTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCTGGGCCAATCTAGATAAA
ATGCTACTACTTTTGGAAGATTGCTGCTTTGTCGAActttccatgcatgacatcatccctccat
gatccctgaaacatatctccattgttgaagtagactgttccttgacctgatctcataccatatc
gccacata

									
								

					

						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: 991
Transcript exons: 2919991-2920128,2920212-2920316,2921047-2921429,2921563-
2921642,2921743-2922027
CTTTCCATGCATGACATCATCCCTCCATGATCCCTGAAACATATCTCCATTGTTGAAGTAGACT
GTTCCTTGACCTGATCTCATACCATATCGCCACATACCATCATATATGCTCCCATCTGGAAGAA
CTAGACGGCCCTTTCCTTCGGGGAGTCCTCCTTGGCAGCGTCCCCTGTAAACGCCACCTCTATA
CTGCAGCTCCATTACAGGACTCCACTTTTTAGGTGAATCTCGCTCGGCTTCCAGCATCGATGCT
GCACGAACAGACAAAAGTCCTTGCTTCTTAGGAATGTCGGCAGATTTCCCTTTTAAAAATGCAG
ATGAGGTATCGTAAAATTCCTTAATCACTTCTAAACTTGCATCAGTCAATGAATTCTGAGACGA
AAATCTGGAAGTACTAATTGAAGCTTTAGATTTCTTCTCATATTTCATCTCTGGATTTGGCAAA
TCTTTATCATGGACCTCTTCCGAAGGTCTCACTCCGACTGGGAGGTCAAATATGCTTATATTGT
CAAGTGCAGAAGCCAACTCAGCATCAGCAGCTCTTTCTCTGGCCCACTGCTGTGCGATTTGATG
TCCTGGACCCAAATTCCATCTGTGGAGGGGATCTCTGCGTAGAGAAGCTCCTCTACTAATTCCA
TTGCTAAAAGGCAAAGAAGAATTCGTGTCAGTTCCTAACAGTCCAGCCTCAAGTTGCTCAGAAT
CACTTGAACTGACTAAATCACTGCCATTGGATGTTGTTTGGCAATTTTCAGGTTCTGTGCCATG
ATAAGAATCTTTATCTATGCCCTCTGAAGCAATTTTCGTTACATTCACTTCTGAGTCTGATGAC
TGTCTTACATTGGAAGGACTTGCATCTTCAGGCATATTGCTTTCCTCGGCTTCCACCAACAGTT
CTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCTGGGCCAATCTAGATAAAATGCT
ACTACTTTTGGAAGATTGCTGCTTTGTCGAA
						
					

						Genomic sequence
						
							CTTTCCATGCATGACATCATCCCTCCATGATCCCTGAAACATATCTCCATTGTTGAAGTAGACT
GTTCCTTGACCTGATCTCATACCATATCGCCACATACCATCATATATGCTCCCATCTGGAAGAA
CTAGACGGCCCTGTACATATAGTAAAAAAGCAGCATTCCATAAAGGTCTGTATAAAATAAGTTT
GCAATTGTCTTCCATGTCAAGGACAGCACCTTTCCTTCGGGGAGTCCTCCTTGGCAGCGTCCCC
TGTAAACGCCACCTCTATACTGCAGCTCCATTACAGGACTCCACTTTTTAGGTGAATCTCGCTC
GGCTTCCTGAATGTAACATGACCATCTTAATTCAAAATTTTGGATTCAGAAAGCTCAATAGCGG
GAAAATTTTGGTAATGACGAACATCTATTAGCTGAGAGCTGTTAAAATCAAATAGATTCGTTAA
CTTATTATAGAAGGAATTTGGAATAGATTCTTGAACTTTTATGAACTACATGGCGTGATCAATT
GATGTAAGTAGAAACATGTCAATTAAATTGGATTTCACTCAAATCAATTGCATATAGAAAATGT
GTCACAAGATACCAAATCTCATCCAAACCAATTTAGAAATAATTATGCTTATTGGCATCAATCA
AGAAAGAATTATAATTACAAAATAATTTATCAATGGAACAAAAAAGAACTCAAACAATGAATGA
CTTCCCAGACCTTCTAGGATGAACCGGGGAGTGCAAACCACTAGACACTGGAAGTATCCAAAAA
GACACCACCACAAAATATTAAATATCAAGCGTAAGAACAATGCAAGAATTAATGTTCTCGAGCG
TTTGACCCTCTAATAGAAAAAGCAGCAGTTAGATCAAGTGTTTTGGCTAAAAAGGATTTGCAAA
ATCTAGCATGATTTGGCCTCCAGCGTCAGTTAATAGGGTGTTAAAAGAGGAAAACAAAAGGCCC
ACACAAAAAAACACATGGACACAGCCACATATGCACAGATGTGACTTTAATTCAAAATATGGAT
GACGAGTGAGCAAGCTATAAGAAATACATCACCAGCATCGATGCTGCACGAACAGACAAAAGTC
CTTGCTTCTTAGGAATGTCGGCAGATTTCCCTTTTAAAAATGCAGATGAGGTATCGTAAAATTC
CTTAATCACTTCTAAACTTGCATCAGTCAATGAATTCTGAGACGAAAATCTGGAAGTACTAATT
GAAGCTTTAGATTTCTTCTCATATTTCATCTCTGGATTTGGCAAATCTTTATCATGGACCTCTT
CCGAAGGTCTCACTCCGACTGGGAGGTCAAATATGCTTATATTGTCAAGTGCAGAAGCCAACTC
AGCATCAGCAGCTCTTTCTCTGGCCCACTGCTGTGCGATTTGATGTCCTGGACCCAAATTCCAT
CTGTGGAGGGGATCTCTGCGTAGAGAAGCTCCTACAAAATGGATTGAATTCAGAAGCTAGAAGT
AATATAAGCAGTGCTCTAGATAATGTCCCGTGTCCCAAGTGATACCACCTATCTGTGCATAAAG
CAAGATATAAACAAGAAATTCCATTGTAGTGCTAACCTCTACTAATTCCATTGCTAAAAGGCAA
AGAAGAATTCGTGTCAGTTCCTAACAGTCCAGCCTCAAGTTGCTCAGAATCACTGTTATTATTC
ACCAAAATTTAACAAAGTTATCAGGTACCAACGACAAGCAAAGGAAGAGACTTAGAAACTGAGC
AAGCTCGGAATAAATGAATTATACCTTGAACTGACTAAATCACTGCCATTGGATGTTGTTTGGC
AATTTTCAGGTTCTGTGCCATGATAAGAATCTTTATCTATGCCCTCTGAAGCAATTTTCGTTAC
ATTCACTTCTGAGTCTGATGACTGTCTTACATTGGAAGGACTTGCATCTTCAGGCATATTGCTT
TCCTCGGCTTCCACCAACAGTTCTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCT
GGGCCAATCTAGATAAAATGCTACTACTTTTGGAAGATTGCTGCTTTGTCGAA
						
					

			
		

Sequences
Splice junction sequence	CAGTTCTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCTGGGCCAATCTAGATAAA ATGCTACTACTTTTGGAAGATTGCTGCTTTGTCGAActttccatgcatgacatcatccctccat gatccctgaaacatatctccattgttgaagtagactgttccttgacctgatctcataccatatc gccacata
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: 991 Transcript exons: 2919991-2920128,2920212-2920316,2921047-2921429,2921563- 2921642,2921743-2922027 CTTTCCATGCATGACATCATCCCTCCATGATCCCTGAAACATATCTCCATTGTTGAAGTAGACT GTTCCTTGACCTGATCTCATACCATATCGCCACATACCATCATATATGCTCCCATCTGGAAGAA CTAGACGGCCCTTTCCTTCGGGGAGTCCTCCTTGGCAGCGTCCCCTGTAAACGCCACCTCTATA CTGCAGCTCCATTACAGGACTCCACTTTTTAGGTGAATCTCGCTCGGCTTCCAGCATCGATGCT GCACGAACAGACAAAAGTCCTTGCTTCTTAGGAATGTCGGCAGATTTCCCTTTTAAAAATGCAG ATGAGGTATCGTAAAATTCCTTAATCACTTCTAAACTTGCATCAGTCAATGAATTCTGAGACGA AAATCTGGAAGTACTAATTGAAGCTTTAGATTTCTTCTCATATTTCATCTCTGGATTTGGCAAA TCTTTATCATGGACCTCTTCCGAAGGTCTCACTCCGACTGGGAGGTCAAATATGCTTATATTGT CAAGTGCAGAAGCCAACTCAGCATCAGCAGCTCTTTCTCTGGCCCACTGCTGTGCGATTTGATG TCCTGGACCCAAATTCCATCTGTGGAGGGGATCTCTGCGTAGAGAAGCTCCTCTACTAATTCCA TTGCTAAAAGGCAAAGAAGAATTCGTGTCAGTTCCTAACAGTCCAGCCTCAAGTTGCTCAGAAT CACTTGAACTGACTAAATCACTGCCATTGGATGTTGTTTGGCAATTTTCAGGTTCTGTGCCATG ATAAGAATCTTTATCTATGCCCTCTGAAGCAATTTTCGTTACATTCACTTCTGAGTCTGATGAC TGTCTTACATTGGAAGGACTTGCATCTTCAGGCATATTGCTTTCCTCGGCTTCCACCAACAGTT CTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCTGGGCCAATCTAGATAAAATGCT ACTACTTTTGGAAGATTGCTGCTTTGTCGAA
Genomic sequence	CTTTCCATGCATGACATCATCCCTCCATGATCCCTGAAACATATCTCCATTGTTGAAGTAGACT GTTCCTTGACCTGATCTCATACCATATCGCCACATACCATCATATATGCTCCCATCTGGAAGAA CTAGACGGCCCTGTACATATAGTAAAAAAGCAGCATTCCATAAAGGTCTGTATAAAATAAGTTT GCAATTGTCTTCCATGTCAAGGACAGCACCTTTCCTTCGGGGAGTCCTCCTTGGCAGCGTCCCC TGTAAACGCCACCTCTATACTGCAGCTCCATTACAGGACTCCACTTTTTAGGTGAATCTCGCTC GGCTTCCTGAATGTAACATGACCATCTTAATTCAAAATTTTGGATTCAGAAAGCTCAATAGCGG GAAAATTTTGGTAATGACGAACATCTATTAGCTGAGAGCTGTTAAAATCAAATAGATTCGTTAA CTTATTATAGAAGGAATTTGGAATAGATTCTTGAACTTTTATGAACTACATGGCGTGATCAATT GATGTAAGTAGAAACATGTCAATTAAATTGGATTTCACTCAAATCAATTGCATATAGAAAATGT GTCACAAGATACCAAATCTCATCCAAACCAATTTAGAAATAATTATGCTTATTGGCATCAATCA AGAAAGAATTATAATTACAAAATAATTTATCAATGGAACAAAAAAGAACTCAAACAATGAATGA CTTCCCAGACCTTCTAGGATGAACCGGGGAGTGCAAACCACTAGACACTGGAAGTATCCAAAAA GACACCACCACAAAATATTAAATATCAAGCGTAAGAACAATGCAAGAATTAATGTTCTCGAGCG TTTGACCCTCTAATAGAAAAAGCAGCAGTTAGATCAAGTGTTTTGGCTAAAAAGGATTTGCAAA ATCTAGCATGATTTGGCCTCCAGCGTCAGTTAATAGGGTGTTAAAAGAGGAAAACAAAAGGCCC ACACAAAAAAACACATGGACACAGCCACATATGCACAGATGTGACTTTAATTCAAAATATGGAT GACGAGTGAGCAAGCTATAAGAAATACATCACCAGCATCGATGCTGCACGAACAGACAAAAGTC CTTGCTTCTTAGGAATGTCGGCAGATTTCCCTTTTAAAAATGCAGATGAGGTATCGTAAAATTC CTTAATCACTTCTAAACTTGCATCAGTCAATGAATTCTGAGACGAAAATCTGGAAGTACTAATT GAAGCTTTAGATTTCTTCTCATATTTCATCTCTGGATTTGGCAAATCTTTATCATGGACCTCTT CCGAAGGTCTCACTCCGACTGGGAGGTCAAATATGCTTATATTGTCAAGTGCAGAAGCCAACTC AGCATCAGCAGCTCTTTCTCTGGCCCACTGCTGTGCGATTTGATGTCCTGGACCCAAATTCCAT CTGTGGAGGGGATCTCTGCGTAGAGAAGCTCCTACAAAATGGATTGAATTCAGAAGCTAGAAGT AATATAAGCAGTGCTCTAGATAATGTCCCGTGTCCCAAGTGATACCACCTATCTGTGCATAAAG CAAGATATAAACAAGAAATTCCATTGTAGTGCTAACCTCTACTAATTCCATTGCTAAAAGGCAA AGAAGAATTCGTGTCAGTTCCTAACAGTCCAGCCTCAAGTTGCTCAGAATCACTGTTATTATTC ACCAAAATTTAACAAAGTTATCAGGTACCAACGACAAGCAAAGGAAGAGACTTAGAAACTGAGC AAGCTCGGAATAAATGAATTATACCTTGAACTGACTAAATCACTGCCATTGGATGTTGTTTGGC AATTTTCAGGTTCTGTGCCATGATAAGAATCTTTATCTATGCCCTCTGAAGCAATTTTCGTTAC ATTCACTTCTGAGTCTGATGACTGTCTTACATTGGAAGGACTTGCATCTTCAGGCATATTGCTT TCCTCGGCTTCCACCAACAGTTCTTGAGGCTTCCATAAAAGCTTAAAAACCAAAGGGAAACGCT GGGCCAATCTAGATAAAATGCTACTACTTTTGGAAGATTGCTGCTTTGTCGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.971959458

Conservation Information
Conserved circRNAs	NA
PMCS	0.971959458

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2921905-2922000(-)
2920042-2922000(-)
						
						Potential amino acid sequence
						
							MPEDASPSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLL
GTDTNSSLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPV
GVRPSEEVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSAD
IPKKQGLLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDG
MWRYGMRSGQGTVYFNNGDMFQGSWRDDVMHGKFDKAAIFQK*
MEICFRDHGGMMSCMESSTKQQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDAS
PSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNS
SLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSE
EVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQG
LLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGM
RSGQGTVYFNNGDMFQGSWRDDVMHGKFDKAAIFQK*
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2921905-2922000(-) 2920042-2922000(-)
Potential amino acid sequence	MPEDASPSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLL GTDTNSSLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPV GVRPSEEVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSAD IPKKQGLLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDG MWRYGMRSGQGTVYFNNGDMFQGSWRDDVMHGKFDKAAIFQK* MEICFRDHGGMMSCMESSTKQQSSKSSSILSRLAQRFPLVFKLLWKPQELLVEAEESNMPEDAS PSNVRQSSDSEVNVTKIASEGIDKDSYHGTEPENCQTTSNGSDLVSSSDSEQLEAGLLGTDTNS SLPFSNGISRGASLRRDPLHRWNLGPGHQIAQQWARERAADAELASALDNISIFDLPVGVRPSE EVHDKDLPNPEMKYEKKSKASISTSRFSSQNSLTDASLEVIKEFYDTSSAFLKGKSADIPKKQG LLSVRAASMLEAERDSPKKWSPVMELQYRGGVYRGRCQGGLPEGKGRLVLPDGSIYDGMWRYGM RSGQGTVYFNNGDMFQGSWRDDVMHGKFDKAAIFQK*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Csa5G107060_circ_g.1

Address

Any questions?

Supported by