Plant Circular RNA Database

Detail information of Csa3G219200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa3G219200_circ_g.1
					
						ID in PlantcircBase
						csa_circ_001696
					
						Alias
						Chr3:14576780_14579023
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr3: 14576780-14579023  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2;Find_circ
					
						Parent gene
						
							Csa3G219200						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Csa3G219200_circ_g.2 						
					
						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
						Csa3G219200.1:7

General Information
CircRNA Name	Csa3G219200_circ_g.1
ID in PlantcircBase	csa_circ_001696
Alias	Chr3:14576780_14579023
Organism	Cucumis sativus
Position	chrChr3: 14576780-14579023 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2;Find_circ
Parent gene	Csa3G219200
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Csa3G219200_circ_g.2
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	Csa3G219200.1:7

			
						 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  
						
							TGGTTCTCAAAGAACTGGCATCATCAAAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGG
AGAGTTCTGCAAGAATGGGGGCGAGTCTACTTTGAActatttggaggaaacactaaagattttg
gttcgacattctggatattttcatgaagatgtccgacttcaggcaatcatttctttggaacgtg
agttgtta

									
								

					

						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: 711
Transcript exons: 14576780-14576868,14577312-14577352,14577656-14577686,14
577771-14577893,14577990-14578207,14578299-14578394,1457
8911-14579023
CTATTTGGAGGAAACACTAAAGATTTTGGTTCGACATTCTGGATATTTTCATGAAGATGTCCGA
CTTCAGGCAATCATTTCTTTGGAACATATTCTTAAAGCAGCTCAGGCAATCTCCCAAAGTTACA
ACGATGCATCGACAAAGGCAAAAGAAATTTTTGATACTGTGATGAATATTTATATCAAGACCAT
GGTTGAAGATGAGGACAAAGAAGTAGTTGCTCAAGCTTGTACAAGCATGGCTGACATTATCAAG
GATTATGGCTATGTTGCAGTGGAACCTTATATGCCTCGGCTAGTTGATGCAACATTAGTTCTGC
TTCGTGAGGAATCTGCTTGTCAGCAAGTGGAATCTGATGGTGAAATAGATGAGGATGATACTGA
ACATGATGAAGTGCTTATGGATGCAGTGTCTGATCTGCTTCCCGCATTCGCAAAGGCCATGGGC
TCTTACTTTGCACCCATCTTTGCAAACCTATTTGAACCATTGATGAAATTTTCGAGAGTCTCAC
GACCTCCTCAAGATCGAACTATGGTGGTTGCCTGTCTTGCTGAAGTAGCCCAGGACATGGGGGC
TCCAATTGCTACTTATGTTGATAAAGTAATGCCTTTGGTTCTCAAAGAACTGGCATCATCAAAG
GCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAGTTCTGCAAGAATGGGGGCGAGTCTA
CTTTGAA
						
					

						Genomic sequence
						
							CTATTTGGAGGAAACACTAAAGATTTTGGTTCGACATTCTGGATATTTTCATGAAGATGTCCGA
CTTCAGGCAATCATTTCTTTGGAACGTGAGTTGTTAGCTCTTCTTTCTTTGAAATTATTCTGTA
GCCACTGGATAGCTCGTCTTTTTTCAAGTTATTCTTTATGGTTGGTAAATATATCTTTTCTTTT
CTTAGACTTTATTCTCTGTGCAACTTATTTATAATAAACAATAAATGCTAAGGGAGCATTACTA
GTGTTAAGCTTATAAATTTTATTTGTTTGTTATGTTTTCCAATTATTTTATTTGTTTATCATGT
TTTCCGTTTATTTTATTTGTTTATTATGTTTTCCGTTTATTTTATTTGGACTAGAACGTGAGGG
AATCAGTAACCTTCTTAATTATCGTTATTTATTTATTTTTTATTTTTTTTGGATCTATTCTTCT
TTCCGTTTTTATATCTTATACTTGTTTAGGGCTGTTTATTATGGTAACTACGTTTTTATTCATT
TTCATTGTATGCGACTGCAGATATTCTTAAAGCAGCTCAGGCAATCTCCCAAAGTTACAACGTG
AGTACTTATCAACACACCTCTCCTCACATTTGGAGTTAGACATATGCACATAATAGTTGTTTCG
TGCCCCATTTTTGCCGTCAATTTATTAATTGTATATTTGATGGTTAATTATTGGTGAATTTTAA
ATTCTTTAATTTTACATATTTTTGTGTTTTGGCATTTGTGTATGAATTTATTGCTTTTTTCTTC
CCTCAACAAGACAGGATATTGGTTACCTTTTTTTACAAGGAAATTTTATTCCTACATGATGTGT
TATTTGTATTCTCACTTTTCCTCATCTTTTTCCCCGTTGTTCAGGATGCATCGACAAAGGCAAA
AGAAATTTTTGGTAAGACTGTCAGAGCATGCTATGGCACTCTATGTACATGTTTAATTTTGTTG
GAGTGGCAATTAAGTTCTTCATTTGTTCTAGATACTGTGATGAATATTTATATCAAGACCATGG
TTGAAGATGAGGACAAAGAAGTAGTTGCTCAAGCTTGTACAAGCATGGCTGACATTATCAAGGA
TTATGGCTATGTTGCAGTGGAACCTTGTAAGTTTTGGTATTAAGTCTCAGATTGCTGTGATGAA
TTTTTATTGACCCATTCTATCTGATTCTTATGGTTTGTTGTTATGGTATAAACATTAGATATGC
CTCGGCTAGTTGATGCAACATTAGTTCTGCTTCGTGAGGAATCTGCTTGTCAGCAAGTGGAATC
TGATGGTGAAATAGATGAGGATGATACTGAACATGATGAAGTGCTTATGGATGCAGTGTCTGAT
CTGCTTCCCGCATTCGCAAAGGCCATGGGCTCTTACTTTGCACCCATCTTTGCAAACCTATTTG
AACCATTGATGAAATTTTCGGTGAGTTAGCTACTGGGTTTCATAGTTCTTAAAAGATTTACAAG
CGAGTAACTTATGAACTGTTGCCTAATTTTCCTTTGTGTTCATCCAGAGAGTCTCACGACCTCC
TCAAGATCGAACTATGGTGGTTGCCTGTCTTGCTGAAGTAGCCCAGGACATGGGGGCTCCAATT
GCTACTTATGTTGATGTAACTATTGATTACCACAGTTAATTTTGATTTTGCTTCTTTATGTTGT
GGACCGATTATTTTAGGAGGTGCTTGGGGCAAGGAGTTGAGTTACTCATGAGGCAACAATATAG
GGAGTTAATAATGCATGAAATTGATGTTTTCTAGTGGTGGACCCACAAACTCCTTTAGCCAAAC
AAGGAGTGAACTCCACACTTCCCAACTCCTTGGCCCAAACACCTCCATTAAGTGATCTAGAAAA
TTTGATAATATTTGGTGAAAATACTAAATTGTGACTTTAAAAAAACAAATGTTTTTCACTAATT
AGAAGCATTCAGGAATCCAAGATTTCAATGATGAAAGTGGCTTGAAAATTTCTAAGAATAGTGA
TAAAAATACTCTAGTAGCAGTACGTTTAGGAAAAACATTTAACTACTATCTTTCCAACTTCACC
TAAAAATATTTTTTTTCAAAAGACATGCAAACGATTGAAAACGTTTCAAGTGGCTATTTTCTAA
TGCTATGCGTAACTTTCAGAAAGTAATGCCTTTGGTTCTCAAAGAACTGGCATCATCAAAGGCA
ACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAGTTCTGCAAGAATGGGGGCGAGTCTACTT
TGAA
						
					

			
		

Sequences
Splice junction sequence	TGGTTCTCAAAGAACTGGCATCATCAAAGGCAACTAATAGAAGGAATGCTGCATTTTGTGTTGG AGAGTTCTGCAAGAATGGGGGCGAGTCTACTTTGAActatttggaggaaacactaaagattttg gttcgacattctggatattttcatgaagatgtccgacttcaggcaatcatttctttggaacgtg agttgtta
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: 711 Transcript exons: 14576780-14576868,14577312-14577352,14577656-14577686,14 577771-14577893,14577990-14578207,14578299-14578394,1457 8911-14579023 CTATTTGGAGGAAACACTAAAGATTTTGGTTCGACATTCTGGATATTTTCATGAAGATGTCCGA CTTCAGGCAATCATTTCTTTGGAACATATTCTTAAAGCAGCTCAGGCAATCTCCCAAAGTTACA ACGATGCATCGACAAAGGCAAAAGAAATTTTTGATACTGTGATGAATATTTATATCAAGACCAT GGTTGAAGATGAGGACAAAGAAGTAGTTGCTCAAGCTTGTACAAGCATGGCTGACATTATCAAG GATTATGGCTATGTTGCAGTGGAACCTTATATGCCTCGGCTAGTTGATGCAACATTAGTTCTGC TTCGTGAGGAATCTGCTTGTCAGCAAGTGGAATCTGATGGTGAAATAGATGAGGATGATACTGA ACATGATGAAGTGCTTATGGATGCAGTGTCTGATCTGCTTCCCGCATTCGCAAAGGCCATGGGC TCTTACTTTGCACCCATCTTTGCAAACCTATTTGAACCATTGATGAAATTTTCGAGAGTCTCAC GACCTCCTCAAGATCGAACTATGGTGGTTGCCTGTCTTGCTGAAGTAGCCCAGGACATGGGGGC TCCAATTGCTACTTATGTTGATAAAGTAATGCCTTTGGTTCTCAAAGAACTGGCATCATCAAAG GCAACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAGTTCTGCAAGAATGGGGGCGAGTCTA CTTTGAA
Genomic sequence	CTATTTGGAGGAAACACTAAAGATTTTGGTTCGACATTCTGGATATTTTCATGAAGATGTCCGA CTTCAGGCAATCATTTCTTTGGAACGTGAGTTGTTAGCTCTTCTTTCTTTGAAATTATTCTGTA GCCACTGGATAGCTCGTCTTTTTTCAAGTTATTCTTTATGGTTGGTAAATATATCTTTTCTTTT CTTAGACTTTATTCTCTGTGCAACTTATTTATAATAAACAATAAATGCTAAGGGAGCATTACTA GTGTTAAGCTTATAAATTTTATTTGTTTGTTATGTTTTCCAATTATTTTATTTGTTTATCATGT TTTCCGTTTATTTTATTTGTTTATTATGTTTTCCGTTTATTTTATTTGGACTAGAACGTGAGGG AATCAGTAACCTTCTTAATTATCGTTATTTATTTATTTTTTATTTTTTTTGGATCTATTCTTCT TTCCGTTTTTATATCTTATACTTGTTTAGGGCTGTTTATTATGGTAACTACGTTTTTATTCATT TTCATTGTATGCGACTGCAGATATTCTTAAAGCAGCTCAGGCAATCTCCCAAAGTTACAACGTG AGTACTTATCAACACACCTCTCCTCACATTTGGAGTTAGACATATGCACATAATAGTTGTTTCG TGCCCCATTTTTGCCGTCAATTTATTAATTGTATATTTGATGGTTAATTATTGGTGAATTTTAA ATTCTTTAATTTTACATATTTTTGTGTTTTGGCATTTGTGTATGAATTTATTGCTTTTTTCTTC CCTCAACAAGACAGGATATTGGTTACCTTTTTTTACAAGGAAATTTTATTCCTACATGATGTGT TATTTGTATTCTCACTTTTCCTCATCTTTTTCCCCGTTGTTCAGGATGCATCGACAAAGGCAAA AGAAATTTTTGGTAAGACTGTCAGAGCATGCTATGGCACTCTATGTACATGTTTAATTTTGTTG GAGTGGCAATTAAGTTCTTCATTTGTTCTAGATACTGTGATGAATATTTATATCAAGACCATGG TTGAAGATGAGGACAAAGAAGTAGTTGCTCAAGCTTGTACAAGCATGGCTGACATTATCAAGGA TTATGGCTATGTTGCAGTGGAACCTTGTAAGTTTTGGTATTAAGTCTCAGATTGCTGTGATGAA TTTTTATTGACCCATTCTATCTGATTCTTATGGTTTGTTGTTATGGTATAAACATTAGATATGC CTCGGCTAGTTGATGCAACATTAGTTCTGCTTCGTGAGGAATCTGCTTGTCAGCAAGTGGAATC TGATGGTGAAATAGATGAGGATGATACTGAACATGATGAAGTGCTTATGGATGCAGTGTCTGAT CTGCTTCCCGCATTCGCAAAGGCCATGGGCTCTTACTTTGCACCCATCTTTGCAAACCTATTTG AACCATTGATGAAATTTTCGGTGAGTTAGCTACTGGGTTTCATAGTTCTTAAAAGATTTACAAG CGAGTAACTTATGAACTGTTGCCTAATTTTCCTTTGTGTTCATCCAGAGAGTCTCACGACCTCC TCAAGATCGAACTATGGTGGTTGCCTGTCTTGCTGAAGTAGCCCAGGACATGGGGGCTCCAATT GCTACTTATGTTGATGTAACTATTGATTACCACAGTTAATTTTGATTTTGCTTCTTTATGTTGT GGACCGATTATTTTAGGAGGTGCTTGGGGCAAGGAGTTGAGTTACTCATGAGGCAACAATATAG GGAGTTAATAATGCATGAAATTGATGTTTTCTAGTGGTGGACCCACAAACTCCTTTAGCCAAAC AAGGAGTGAACTCCACACTTCCCAACTCCTTGGCCCAAACACCTCCATTAAGTGATCTAGAAAA TTTGATAATATTTGGTGAAAATACTAAATTGTGACTTTAAAAAAACAAATGTTTTTCACTAATT AGAAGCATTCAGGAATCCAAGATTTCAATGATGAAAGTGGCTTGAAAATTTCTAAGAATAGTGA TAAAAATACTCTAGTAGCAGTACGTTTAGGAAAAACATTTAACTACTATCTTTCCAACTTCACC TAAAAATATTTTTTTTCAAAAGACATGCAAACGATTGAAAACGTTTCAAGTGGCTATTTTCTAA TGCTATGCGTAACTTTCAGAAAGTAATGCCTTTGGTTCTCAAAGAACTGGCATCATCAAAGGCA ACTAATAGAAGGAATGCTGCATTTTGTGTTGGAGAGTTCTGCAAGAATGGGGGCGAGTCTACTT TGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							gma_circ_003996 gma_circ_002065* 						
					
						PMCS
						0.875821476

Conservation Information
Conserved circRNAs	gma_circ_003996 gma_circ_002065*
PMCS	0.875821476

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14577780-14579020(+)
						
						Potential amino acid sequence
						
							MNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESACQQVESDG
EIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRTMVVACLA
EVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAFCVGEFCKNGGESTLNYLEETLKILVR
HSGYFHEDVRLQAIISLEHILKAAQAISQSYNDASTKAKEIFDTVMNIYIKTMVEDEDKEVVAQ
ACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESACQQVESDGEIDEDDTEHDEVLMDAVSD
LLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRTMVVACLAEVAQDMGAPIATYVDKVMP
LVLKELASSKATNRRNAAFCVGEFCKNGGESTLNYLEETLKILVRHSGYFHEDVRLQAIISLEH
ILKAAQAISQSYNDASTKAKEIFDTVMNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEP
YMPRLVDATLVLLREESACQQVESDGEIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFAN
LFEPLMKFSRVSRPPQDRTMVVACLAEVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAF
CVGEFCKNGGESTLNYLEETLKILVRHSGYFHEDVRLQAIISLEHILKAAQAISQSYNDASTKA
KEIFDTVMNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESAC
QQVESDGEIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRT
MVVACLAEVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAFCVGEFCKNGGESTL
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14577780-14579020(+)
Potential amino acid sequence	MNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESACQQVESDG EIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRTMVVACLA EVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAFCVGEFCKNGGESTLNYLEETLKILVR HSGYFHEDVRLQAIISLEHILKAAQAISQSYNDASTKAKEIFDTVMNIYIKTMVEDEDKEVVAQ ACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESACQQVESDGEIDEDDTEHDEVLMDAVSD LLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRTMVVACLAEVAQDMGAPIATYVDKVMP LVLKELASSKATNRRNAAFCVGEFCKNGGESTLNYLEETLKILVRHSGYFHEDVRLQAIISLEH ILKAAQAISQSYNDASTKAKEIFDTVMNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEP YMPRLVDATLVLLREESACQQVESDGEIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFAN LFEPLMKFSRVSRPPQDRTMVVACLAEVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAF CVGEFCKNGGESTLNYLEETLKILVRHSGYFHEDVRLQAIISLEHILKAAQAISQSYNDASTKA KEIFDTVMNIYIKTMVEDEDKEVVAQACTSMADIIKDYGYVAVEPYMPRLVDATLVLLREESAC QQVESDGEIDEDDTEHDEVLMDAVSDLLPAFAKAMGSYFAPIFANLFEPLMKFSRVSRPPQDRT MVVACLAEVAQDMGAPIATYVDKVMPLVLKELASSKATNRRNAAFCVGEFCKNGGESTL
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 Csa3G219200_circ_g.1

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