Plant Circular RNA Database

Detail information of orai.011G119600_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.011G119600_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001215
					
						Alias
						Chr11:16425307|16427460
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr11: 16425307-16427460  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.011G119600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.011G119600_circ_g.2 						
					
						Support reads
						3
					
						Tissues
						ovule
					
						Exon boundary  
						
							Yes-No							"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
						Gorai.011G119600.2:2
Gorai.011G119600.3:2
Gorai.011G119600.4:2
Gorai.011G119600.1:2

General Information
CircRNA Name	orai.011G119600_circ_g.1
ID in PlantcircBase	gra_circ_001215
Alias	Chr11:16425307\|16427460
Organism	Gossypium raimondii
Position	chrChr11: 16425307-16427460 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.011G119600
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.011G119600_circ_g.2
Support reads	3
Tissues	ovule
Exon boundary	Yes-No "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	Gorai.011G119600.2:2 Gorai.011G119600.3:2 Gorai.011G119600.4:2 Gorai.011G119600.1:2

			
						 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  
						
							TAAGTGGGGCAATTTTGCAATTTAAAACAGGGATAAAGTTACCCATAATGACCCCTTGTGCGCC
TCTGTAGTAAGAACTTGTCAATGTTCTGAACCTTTCcttgtcaactttgttcccaacaagcatc
ttgatgcagtcttgatttgttgagtagagttcaatttccttggcccagacttcagaaaggttag
taaatgtc

									
								

					

						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
						
							CTTGTCAACTTTGTTCCCAACAAGCATCTTGATGCAGTCTTGATTTGTTGAGTAGAGTTCAATT
TCCTTGGCCCAGACTTCAGAAAGGTTAGTAAATGTCTCCCTCCGTGTTACATCATAAACTGTTA
AGATCAAAGAAAATCTCATATTGTAATTCTCCAAACAAATTAAGAGCAGAAATACATGCAGAGT
CATAAAATTGACCAGAATGATATAAGCAAAATGTCACATTATTGCACACTTAAAAGAGGTTAGA
ATTGAAGAGGCATCTAATCTTAGTCATTTATACTGACTACAGCGAAAAAAAGCTTTAGCAGAGT
AAAACTTTTTACAGATAAAAAGGAAGAAGAAAACATCTAACCATTTAATCCAGGCCAAGGCAAT
ATGTAACACAGTAGCTACAGCAAAAAAAAAAAAAAAAAAAACCCAAGACTATAAGAGGGGGAAA
AAAGAAGAAAAAGAAAAAAGAATGTATTGTAAGTTGACATAAACATGATTTTACCTGTGACATA
TGAGCTACAACTATTATGATATTTTATTATTTAAGTTTTATTTATTATTCATTAGGCCTATGGA
TTGATGGCTAGGATTATGAGTTATCTTTAAATTGTTAATCCAATGTTAGCATTAAAGCTTTATT
AATTAATAGAATTCAGAAACTAGAGGTATATATAACCCTACCATTATTACTTAATATTTAATAG
AATTCAGCAATTAGAGGTATATATCCCTACTATTATTAATTAGTGAAAGTACCTGCCAAGTCCC
TTTATTATAGGGACTGGATCAAATTAGCCCCTCTACAATTAAACGTATCAATTTAATCATAGTA
CTATTAAAAAATCAAATAAGACCAAACTGCAATAGAGTTAACATTTATACTATGCTTGGATTGG
GGTAAGGGGAAAGAAAGTTAAGTAACTCAAGGGAAAAGATTCTTTTTTTTCTTGTTTGCATAAC
CTATTTTTTACATGGTAGGAAAATTGAAGGGAGTTGAGAATCCCTCACTTTCCCTTGTTTTCCC
TCATTTTCTTAATACCCCAATTTGGGGGAAAGTGAGAGGAAAGAATTTTTTTTTTTAAATGTAA
TTTTTATTCTTTGTTAATTTTAATGACTTTTGTTTACTTTGAATTTTCTCCTACTAATGCATTG
AAATTTTTCTCATTTTTTAACACCTTATTACTTTGTTGTAAATGGTTTTATTATTTTTTAAATT
ATTTTCTCTTTTTTTATTTACTTTTTTGAATTATTACAACTCATTAAGAATATTGAACTCTTTT
TACATTTTAATTTTGTAACAAATTAACAAATTATCAAAATCATTTTCTACATTTTTGAATTATT
AGGACTCTTTATTTTTTAAAAGTTTGTATCAAATTAACAATTTTATCAAATTATTTTATAATTT
TTTATTAACACTTGTAACTATCATTTTATGAAAAATATCAATTTTCATAATTTATAATTTAAGT
TAATTTAATTATTATATGTTATTCAAGTAAAGTTAAATTGGAAAAATTATTTAAACAAATCATT
TACTTTACTTCCACGTCTTAACCAAACAGAAAATGTTAAAATTCCTTTCATTTCCTTTCCTTTC
CTTTATTAATTTTAGCTATCAAACAAGAAATAAATATTTCCTTACCTTTCTTTCACCTTCCTTC
CCTTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCTTTTTCTTTATTTTTAAT
TATTCAAACATAAGGTTACAGTTTAAAAAATGACATGAAAATTATTTTTCAATTGCAATTCAAC
TCTAACAAAAGATCTCACTTGCAGAATTATAAAAAGCTTTCAAAATATTAACTTTGTTAACAGT
AATTGACATTTTTTAAACAGTAAATGTTAACTCTATTGAAATTTAGACTTATTTGATTCTTTTT
AATAGTACAGGGACTAAATTGATAGGCAAAACAATGCTTATCTCACTTCCACAATTTTACAAAG
GATCAGCTCAAATGAGAAATTAAAGTAGTAATTTTCCCAATAGAATAAAGAATGAAGGGCACAA
GTTTTGTAAGTGGGGCAATTTTGCAATTTAAAACAGGGATAAAGTTACCCATAATGACCCCTTG
TGCGCCTCTGTAGTAAGAACTTGTCAATGTTCTGAACCTTTC
						
					

			
		

Sequences
Splice junction sequence	TAAGTGGGGCAATTTTGCAATTTAAAACAGGGATAAAGTTACCCATAATGACCCCTTGTGCGCC TCTGTAGTAAGAACTTGTCAATGTTCTGAACCTTTCcttgtcaactttgttcccaacaagcatc ttgatgcagtcttgatttgttgagtagagttcaatttccttggcccagacttcagaaaggttag taaatgtc
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	CTTGTCAACTTTGTTCCCAACAAGCATCTTGATGCAGTCTTGATTTGTTGAGTAGAGTTCAATT TCCTTGGCCCAGACTTCAGAAAGGTTAGTAAATGTCTCCCTCCGTGTTACATCATAAACTGTTA AGATCAAAGAAAATCTCATATTGTAATTCTCCAAACAAATTAAGAGCAGAAATACATGCAGAGT CATAAAATTGACCAGAATGATATAAGCAAAATGTCACATTATTGCACACTTAAAAGAGGTTAGA ATTGAAGAGGCATCTAATCTTAGTCATTTATACTGACTACAGCGAAAAAAAGCTTTAGCAGAGT AAAACTTTTTACAGATAAAAAGGAAGAAGAAAACATCTAACCATTTAATCCAGGCCAAGGCAAT ATGTAACACAGTAGCTACAGCAAAAAAAAAAAAAAAAAAAACCCAAGACTATAAGAGGGGGAAA AAAGAAGAAAAAGAAAAAAGAATGTATTGTAAGTTGACATAAACATGATTTTACCTGTGACATA TGAGCTACAACTATTATGATATTTTATTATTTAAGTTTTATTTATTATTCATTAGGCCTATGGA TTGATGGCTAGGATTATGAGTTATCTTTAAATTGTTAATCCAATGTTAGCATTAAAGCTTTATT AATTAATAGAATTCAGAAACTAGAGGTATATATAACCCTACCATTATTACTTAATATTTAATAG AATTCAGCAATTAGAGGTATATATCCCTACTATTATTAATTAGTGAAAGTACCTGCCAAGTCCC TTTATTATAGGGACTGGATCAAATTAGCCCCTCTACAATTAAACGTATCAATTTAATCATAGTA CTATTAAAAAATCAAATAAGACCAAACTGCAATAGAGTTAACATTTATACTATGCTTGGATTGG GGTAAGGGGAAAGAAAGTTAAGTAACTCAAGGGAAAAGATTCTTTTTTTTCTTGTTTGCATAAC CTATTTTTTACATGGTAGGAAAATTGAAGGGAGTTGAGAATCCCTCACTTTCCCTTGTTTTCCC TCATTTTCTTAATACCCCAATTTGGGGGAAAGTGAGAGGAAAGAATTTTTTTTTTTAAATGTAA TTTTTATTCTTTGTTAATTTTAATGACTTTTGTTTACTTTGAATTTTCTCCTACTAATGCATTG AAATTTTTCTCATTTTTTAACACCTTATTACTTTGTTGTAAATGGTTTTATTATTTTTTAAATT ATTTTCTCTTTTTTTATTTACTTTTTTGAATTATTACAACTCATTAAGAATATTGAACTCTTTT TACATTTTAATTTTGTAACAAATTAACAAATTATCAAAATCATTTTCTACATTTTTGAATTATT AGGACTCTTTATTTTTTAAAAGTTTGTATCAAATTAACAATTTTATCAAATTATTTTATAATTT TTTATTAACACTTGTAACTATCATTTTATGAAAAATATCAATTTTCATAATTTATAATTTAAGT TAATTTAATTATTATATGTTATTCAAGTAAAGTTAAATTGGAAAAATTATTTAAACAAATCATT TACTTTACTTCCACGTCTTAACCAAACAGAAAATGTTAAAATTCCTTTCATTTCCTTTCCTTTC CTTTATTAATTTTAGCTATCAAACAAGAAATAAATATTTCCTTACCTTTCTTTCACCTTCCTTC CCTTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCCCTTCTTTTTCTTTATTTTTAAT TATTCAAACATAAGGTTACAGTTTAAAAAATGACATGAAAATTATTTTTCAATTGCAATTCAAC TCTAACAAAAGATCTCACTTGCAGAATTATAAAAAGCTTTCAAAATATTAACTTTGTTAACAGT AATTGACATTTTTTAAACAGTAAATGTTAACTCTATTGAAATTTAGACTTATTTGATTCTTTTT AATAGTACAGGGACTAAATTGATAGGCAAAACAATGCTTATCTCACTTCCACAATTTTACAAAG GATCAGCTCAAATGAGAAATTAAAGTAGTAATTTTCCCAATAGAATAAAGAATGAAGGGCACAA GTTTTGTAAGTGGGGCAATTTTGCAATTTAAAACAGGGATAAAGTTACCCATAATGACCCCTTG TGCGCCTCTGTAGTAAGAACTTGTCAATGTTCTGAACCTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000368* gar_circ_001026* 						
					
						PMCS
						0.448643655

Conservation Information
Conserved circRNAs	ghi_circ_000368* gar_circ_001026*
PMCS	0.448643655

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.011G119600_circ_g.1

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