Plant Circular RNA Database

Detail information of orai.002G146400_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G146400_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000164
					
						Alias
						Chr02:26954418|26956931
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 26954418-26956931  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G146400						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						ovule
					
						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
						Gorai.002G146400.1:4
Gorai.002G146400.3:4
Gorai.002G146400.4:4
Gorai.002G146400.2:4

General Information
CircRNA Name	orai.002G146400_circ_g.1
ID in PlantcircBase	gra_circ_000164
Alias	Chr02:26954418\|26956931
Organism	Gossypium raimondii
Position	chrChr02: 26954418-26956931 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G146400
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	ovule
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	Gorai.002G146400.1:4 Gorai.002G146400.3:4 Gorai.002G146400.4:4 Gorai.002G146400.2:4

			
						 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  
						
							TATGTACAAATACAAAATTAGAAGATGCTTCTCTTACAGTCAATTCTGGGAAAAGGATATCATG
TTGTGGACAGACCCCCAATCCCTCACGTATCTCTTTcttccacagcatttcaaagaaccatcag
ccatgatggctatccgatcccccagttcatcagcctcatccattgagtgtgttgttagtaatat
tattcttc

									
								

					

						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
						
							CTTCCACAGCATTTCAAAGAACCATCAGCCATGATGGCTATCCGATCCCCCAGTTCATCAGCCT
CATCCATTGAGTGTGTTGTTAGTAATATTATTCTTCCCTTCTTTATTTTTTTTATTAACTGCCA
AGTCAAGCGCATTGAATATGGATCCATGCCACTAGTAGGTTCATCAAGAATAATAACCTGTAAT
AAGAAAAGAAGAAAAACAAGAATTAACAATGACAACTTCCAGAATCAAGAAATATTAATCATGA
CCTGGAACAATTTCACACCTTACTATTTCCTATCAATGCAATTCCAAGAGATAATTTCCTCTTC
ATACCACCAGAAAGTGCCCGCACAACAGTGTTCAGTTTATCCGCTAAACCAACCTGACCATAAA
AGTAGCAGTTAAAAAATGCAGCCATCCAAGGGACAGTCATAGAGAGAGAGAGAGAGAGTAGACA
CCATGTGAAAGGTCCTTTGGACTTTAAGATTGAGACAAAAAGGCATATCAGATTCCTTTTTCTT
TTCCTTATAAGAAATCTAAAACAAATTTCTCAGATGATTGAATTCACAGAGTCTCCCAAAAGAA
TTAGAGATTTCTGTTATGTGTAACCCCTAGAATTTTTGCAGAACACATTTATAAAAAATATATA
TCAAATTAATTGATTCAGATCCTATCATATTAAACAGTTCATTTTCAGAAAGCCTCACAGTGCA
GAATACACTGTCTATACAAGGTCCCCAGCTACCCTCAGTTCAATTAAAACCTCTGATGCATATA
GAATCCGAGCCCAACAGAATTGCAATAAAAGAACTATTCTGAGGATTAGGTATTAGGTATTCAT
CAGATAAAAGAAAAGTTAATAAATAAAGGCAAACGAATCTAATTTGAACATAAGGCTACAACAA
ACTCAACAAAAATGGGTTAATGCCACATGGAAATCCACAGTTCAAAAACACCCAAACCTTATAA
ACCTAAAACAACCTGAAATTAAACAATTAACCTTAAACTGTTATGAAAGCTAATTGACCTAAAC
ATTCAGCTGCTCTCGAAAACTTAAATTTGAAAGAAGAAATTTGGATTTTAAATATAAGAATTAA
ATAAATAATTCATAAAATGATGATTTTCTTGATATCAAATTTAATGATTTGCTGTATCTCTATT
TAGTGATGGACTTTATGGACTTTGAAGTTTATCTATTTATACGCTATAAAATACACTATTGCAA
TTTCATGTTCTCAAGCATAGCTTCATAGATTTCAAAATAACAGATCTCATTTGCTGCTCTATAA
AAATGAAAATAAAGATTCAGAATACTAAGTGAAGACATGAACATGAATCCAGCAAGGCAGACAG
GAACTCACTTCATCAACCATCTCAGTTACAGCACTCTCTAAACCATCCTCCTTCACACCCTTCA
ATATAGCAAACATTTCCAAATGCTCTCTGACCTGAAAATAGGAATCAATCAAAATATCAAATTA
ATCTTTGCTACTTCAAGTCACCATAATTGCCAATCAGAAACTTCAAAGAATGTAGAGATATCAA
GGAAATGAAACAAAATTTGGAAATCTAGATTTTTCAAAAGGAAGTTGCGTGCAACAGGATTAGA
GTTAGTTTACAAGAAATTATTCTACCGTGCAAAATTTAAGCATGCTAACTTCCAAAAACAGCAT
CAGAAGAAGGCTTACAAAAACTGTTGTAAGGGAGGATAACCATTTCAGTTGAGGGAGACAATCT
ACAAAATAGATGGGGGGGGGGGACTTCTAGTATCAATGCCATATATACAGACCTACATTCTCGA
CTCTACCTTTTTCTTAAAATACCTGTGTTGAACACTTATTCGACACCTCAAAGTGGAAACTAAT
GCAGGCATCAACATTCCACTTAGTAACTACCGGACCAATTCCTGTGTCCAAAACTTAGTCCTAA
GTTCGAGAAACATATACATACACCTATATGACTAAGATTAGCGGGCACATACATATTATTTGCA
TTTACTTATGGACGCCCATACACACATTGAGATGAATGAGGAAAGATCTTACAAATATAATGAT
AACCCCATGACTCAAAATATTTCCAGTACCATCTAATGAGTAATGAGAGAAAAATGAACCAGAA
CTGAGTAGAGTTTGATATGAACCTGCATCCAAACCTATATAACCACACAGCTTTTTCATAGACA
TGTGATAAAAAGGATATAACATGCAAAGCAAGACAATGTAAGAAAGAATAATCAAATAGATGTA
TATCATATTAGCCTCCTTGTGGCAAAAGCTTGTTTCTTCTACCATACAATCCAAAAGTGCCCTT
GAAGTAACATTTGTTATGCATGAAGAACCAAATTTTTAACACTTCTGGCATGCACTTAGAATGC
TCAACGTGAACCAATTTAATTAAACAAAAAATACCACAAATTTAAATATGTACAAATACAAAAT
TAGAAGATGCTTCTCTTACAGTCAATTCTGGGAAAAGGATATCATGTTGTGGACAGACCCCCAA
TCCCTCACGTATCTCTTT
						
					

			
		

Sequences
Splice junction sequence	TATGTACAAATACAAAATTAGAAGATGCTTCTCTTACAGTCAATTCTGGGAAAAGGATATCATG TTGTGGACAGACCCCCAATCCCTCACGTATCTCTTTcttccacagcatttcaaagaaccatcag ccatgatggctatccgatcccccagttcatcagcctcatccattgagtgtgttgttagtaatat tattcttc
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	CTTCCACAGCATTTCAAAGAACCATCAGCCATGATGGCTATCCGATCCCCCAGTTCATCAGCCT CATCCATTGAGTGTGTTGTTAGTAATATTATTCTTCCCTTCTTTATTTTTTTTATTAACTGCCA AGTCAAGCGCATTGAATATGGATCCATGCCACTAGTAGGTTCATCAAGAATAATAACCTGTAAT AAGAAAAGAAGAAAAACAAGAATTAACAATGACAACTTCCAGAATCAAGAAATATTAATCATGA CCTGGAACAATTTCACACCTTACTATTTCCTATCAATGCAATTCCAAGAGATAATTTCCTCTTC ATACCACCAGAAAGTGCCCGCACAACAGTGTTCAGTTTATCCGCTAAACCAACCTGACCATAAA AGTAGCAGTTAAAAAATGCAGCCATCCAAGGGACAGTCATAGAGAGAGAGAGAGAGAGTAGACA CCATGTGAAAGGTCCTTTGGACTTTAAGATTGAGACAAAAAGGCATATCAGATTCCTTTTTCTT TTCCTTATAAGAAATCTAAAACAAATTTCTCAGATGATTGAATTCACAGAGTCTCCCAAAAGAA TTAGAGATTTCTGTTATGTGTAACCCCTAGAATTTTTGCAGAACACATTTATAAAAAATATATA TCAAATTAATTGATTCAGATCCTATCATATTAAACAGTTCATTTTCAGAAAGCCTCACAGTGCA GAATACACTGTCTATACAAGGTCCCCAGCTACCCTCAGTTCAATTAAAACCTCTGATGCATATA GAATCCGAGCCCAACAGAATTGCAATAAAAGAACTATTCTGAGGATTAGGTATTAGGTATTCAT CAGATAAAAGAAAAGTTAATAAATAAAGGCAAACGAATCTAATTTGAACATAAGGCTACAACAA ACTCAACAAAAATGGGTTAATGCCACATGGAAATCCACAGTTCAAAAACACCCAAACCTTATAA ACCTAAAACAACCTGAAATTAAACAATTAACCTTAAACTGTTATGAAAGCTAATTGACCTAAAC ATTCAGCTGCTCTCGAAAACTTAAATTTGAAAGAAGAAATTTGGATTTTAAATATAAGAATTAA ATAAATAATTCATAAAATGATGATTTTCTTGATATCAAATTTAATGATTTGCTGTATCTCTATT TAGTGATGGACTTTATGGACTTTGAAGTTTATCTATTTATACGCTATAAAATACACTATTGCAA TTTCATGTTCTCAAGCATAGCTTCATAGATTTCAAAATAACAGATCTCATTTGCTGCTCTATAA AAATGAAAATAAAGATTCAGAATACTAAGTGAAGACATGAACATGAATCCAGCAAGGCAGACAG GAACTCACTTCATCAACCATCTCAGTTACAGCACTCTCTAAACCATCCTCCTTCACACCCTTCA ATATAGCAAACATTTCCAAATGCTCTCTGACCTGAAAATAGGAATCAATCAAAATATCAAATTA ATCTTTGCTACTTCAAGTCACCATAATTGCCAATCAGAAACTTCAAAGAATGTAGAGATATCAA GGAAATGAAACAAAATTTGGAAATCTAGATTTTTCAAAAGGAAGTTGCGTGCAACAGGATTAGA GTTAGTTTACAAGAAATTATTCTACCGTGCAAAATTTAAGCATGCTAACTTCCAAAAACAGCAT CAGAAGAAGGCTTACAAAAACTGTTGTAAGGGAGGATAACCATTTCAGTTGAGGGAGACAATCT ACAAAATAGATGGGGGGGGGGGACTTCTAGTATCAATGCCATATATACAGACCTACATTCTCGA CTCTACCTTTTTCTTAAAATACCTGTGTTGAACACTTATTCGACACCTCAAAGTGGAAACTAAT GCAGGCATCAACATTCCACTTAGTAACTACCGGACCAATTCCTGTGTCCAAAACTTAGTCCTAA GTTCGAGAAACATATACATACACCTATATGACTAAGATTAGCGGGCACATACATATTATTTGCA TTTACTTATGGACGCCCATACACACATTGAGATGAATGAGGAAAGATCTTACAAATATAATGAT AACCCCATGACTCAAAATATTTCCAGTACCATCTAATGAGTAATGAGAGAAAAATGAACCAGAA CTGAGTAGAGTTTGATATGAACCTGCATCCAAACCTATATAACCACACAGCTTTTTCATAGACA TGTGATAAAAAGGATATAACATGCAAAGCAAGACAATGTAAGAAAGAATAATCAAATAGATGTA TATCATATTAGCCTCCTTGTGGCAAAAGCTTGTTTCTTCTACCATACAATCCAAAAGTGCCCTT GAAGTAACATTTGTTATGCATGAAGAACCAAATTTTTAACACTTCTGGCATGCACTTAGAATGC TCAACGTGAACCAATTTAATTAAACAAAAAATACCACAAATTTAAATATGTACAAATACAAAAT TAGAAGATGCTTCTCTTACAGTCAATTCTGGGAAAAGGATATCATGTTGTGGACAGACCCCCAA TCCCTCACGTATCTCTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000850* 						
					
						PMCS
						0.100627857

Conservation Information
Conserved circRNAs	gar_circ_000850*
PMCS	0.100627857

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26955839-26956873(-)
26954430-26956873(-)
26954448-26954448(+)
26955845-26954448(+)
						
						Potential amino acid sequence
						
							MFAILKGVKEDGLESAVTEMVDEVGLADKLNTVVRALSGGMKRKLSLGIALIGNSKVIILDEPT
SGMDPYSMRLTWQLIKKIKKGRIILLTTHSMDEADELGDRIAIMADGSLKCCGRKRYVRDWGSV
HNMISFSQN*(-)
MLWKKEIREGLGVCPQHDILFPELTVREHLEMFAILKGVKEDGLESAVTEMVDEVGLADKLNTV
VRALSGGMKRKLSLGIALIGNSKVIILDEPTSGMDPYSMRLTWQLIKKIKKGRIILLTTHSMDE
ADELGDRIAIMADGSLKCCGRKRYVRDWGSVHNMISFSQN*(-)
MMAIRSPSSSASSIECVVSNIILPFFIFFINCQVKRIEYGSMPLVGSSRIITLLFPINAIPRDN
FLFIPPESARTTVFSLSAKPTSSTISVTALSKPSSFTPFNIANISKCSLTVNSGKRISCCGQTP
NPSRISFFHSISKNHQP*(+)
MLSDSQFWEKDIMLWTDPQSLTYLFLPQHFKEPSAMMAIRSPSSSASSIECVVSNIILPFFIFF
INCQVKRIEYGSMPLVGSSRIITLLFPINAIPRDNFLFIPPESARTTVFSLSAKPTSSTISVTA
LSKPSSFTPFNIANISKCSLTVNSGKRISCCGQTPNPSRISFFHSISKNHQP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26955839-26956873(-) 26954430-26956873(-) 26954448-26954448(+) 26955845-26954448(+)
Potential amino acid sequence	MFAILKGVKEDGLESAVTEMVDEVGLADKLNTVVRALSGGMKRKLSLGIALIGNSKVIILDEPT SGMDPYSMRLTWQLIKKIKKGRIILLTTHSMDEADELGDRIAIMADGSLKCCGRKRYVRDWGSV HNMISFSQN(-) MLWKKEIREGLGVCPQHDILFPELTVREHLEMFAILKGVKEDGLESAVTEMVDEVGLADKLNTV VRALSGGMKRKLSLGIALIGNSKVIILDEPTSGMDPYSMRLTWQLIKKIKKGRIILLTTHSMDE ADELGDRIAIMADGSLKCCGRKRYVRDWGSVHNMISFSQN(-) MMAIRSPSSSASSIECVVSNIILPFFIFFINCQVKRIEYGSMPLVGSSRIITLLFPINAIPRDN FLFIPPESARTTVFSLSAKPTSSTISVTALSKPSSFTPFNIANISKCSLTVNSGKRISCCGQTP NPSRISFFHSISKNHQP(+) MLSDSQFWEKDIMLWTDPQSLTYLFLPQHFKEPSAMMAIRSPSSSASSIECVVSNIILPFFIFF INCQVKRIEYGSMPLVGSSRIITLLFPINAIPRDNFLFIPPESARTTVFSLSAKPTSSTISVTA LSKPSSFTPFNIANISKCSLTVNSGKRISCCGQTPNPSRISFFHSISKNHQP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G146400_circ_g.1

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