Plant Circular RNA Database

Detail information of orai.002G186200_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G186200_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000187
					
						Alias
						Chr02:49601269|49602516
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 49601269-49602516  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G186200						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						5/33
					
						Tissues
						leaf/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  
						
							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
						Gorai.002G186200.6:5
Gorai.002G186200.5:5
Gorai.002G186200.1:5
Gorai.002G186200.7:5
Gorai.002G186200.8:5
Gorai.002G186200.2:5
Gorai.002G186200.4:5
Gorai.002G186200.3:5

General Information
CircRNA Name	orai.002G186200_circ_g.1
ID in PlantcircBase	gra_circ_000187
Alias	Chr02:49601269\|49602516
Organism	Gossypium raimondii
Position	chrChr02: 49601269-49602516 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G186200
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	5/33
Tissues	leaf/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	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	Gorai.002G186200.6:5 Gorai.002G186200.5:5 Gorai.002G186200.1:5 Gorai.002G186200.7:5 Gorai.002G186200.8:5 Gorai.002G186200.2:5 Gorai.002G186200.4:5 Gorai.002G186200.3:5

			
						 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  
						
							ATATCTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTCCATTTGGA
GTATTTGAGAAGGTTCTTGCAGATGAAGCAAACAAGatcaacatattcacagaagaaattatcc
gtgctggatcagctgcaactttatcctctctaattaacagacttgatcctgttcttcgagagac
tgctcatc

									
								

					

						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: 49601269-49601375,49601550-49601763,49601843-49601946,49
602082-49602214,49602391-49602516
ATCAACATATTCACAGAAGAAATTATCCGTGCTGGATCAGCTGCAACTTTATCCTCTCTAATTA
ACAGACTTGATCCTGTTCTTCGAGAGACTGCTCATCTTGGCAGTTGGCAGGTTATCAGTCCAGT
TGAGGTTGTTGGATATGTTGAAGTTGTGGATGAGCTGCTTTCTGTGCAGAATAAATCTTATGAT
CGACCTACTATTTTAGTGGCAAAAAGTGTAAAGGGAGAGGAAGAAATTCCGGATGGTACGATTG
CTGTGTTGACCCCTGACATGCCAGATGTTTTGTCACATGTTTCTGTCCGAGCAAGAAATTGCAA
GGTTTGCTTTGCTACTTGTTTTGATCCTAATATTCTGGCTGACCTACAAGCAAAAAAAGGGAAA
CTGTTGCGCCTAAAACCTTCATCTGCAGATGTAGTTTATAGTGAGGTGAAGGAAGGTGAGCTAG
CTGATTCAAGTTCAAGCAACTTGAAGGGAGATGGTCCATCTGTCACTTTGGTCAGAAAGCAGTT
TGTTGGTAAATACGCCATATCAGCAGAGGAGTTTACACCTGAAATGGTTGGTGCTAAATCACGC
AACATCTCATATCTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTC
CATTTGGAGTATTTGAGAAGGTTCTTGCAGATGAAGCAAACAAG
						
					

						Genomic sequence
						
							ATCAACATATTCACAGAAGAAATTATCCGTGCTGGATCAGCTGCAACTTTATCCTCTCTAATTA
ACAGACTTGATCCTGTTCTTCGAGAGACTGCTCATCTTGGCAGGTTGGTATATAATCATTTGTC
TGCTGACTCATTATTAGAATATATTGGCAGTGAAACAAATTTTATGCTACTATACCTAGGCTTA
ATCATTTAAGAAGATTTTTTTCATGGAATTAAGACATGATTCTGTCACTTATTGGAACTTACTA
ATGCAACTTTTCTGTCCTGCAACAGTTGGCAGGTTATCAGTCCAGTTGAGGTTGTTGGATATGT
TGAAGTTGTGGATGAGCTGCTTTCTGTGCAGAATAAATCTTATGATCGACCTACTATTTTAGTG
GCAAAAAGTGTAAAGGGAGAGGAAGAAATTCCGGATGGTACGATTGCTGTGTTGACCCCTGACA
TGCCAGATGTTTTGTCACATGTTTCTGTCCGAGCAAGAAATTGCAAGGTGATTACCTGGTGCTT
TGAGATTTCTTTGTAGCTGATAATTTATTGTGTGTTTAAGATGGATATAATACCAACTGCAGGT
TTGCTTTGCTACTTGTTTTGATCCTAATATTCTGGCTGACCTACAAGCAAAAAAAGGGAAACTG
TTGCGCCTAAAACCTTCATCTGCAGATGTAGTTTATAGGTACTGCTATCTCTAACTTAATTCTG
AATTTGTCTAACGTATCATGAAACCATGACGTGAAGTTAAACAAACCTCTTGTTTTTATACTAG
CAAAGCTAATTTGAATCTTGCTCCTTTTTTCATGCATTATTCAAGTGAGGTGAAGGAAGGTGAG
CTAGCTGATTCAAGTTCAAGCAACTTGAAGGGAGATGGTCCATCTGTCACTTTGGTCAGAAAGC
AGTTTGTTGGTAAATACGCCATATCAGCAGAGGAGTTTACACCTGAAATGGTTAGGCTTGCAAA
ATCTTACTCTTTTTATCTCCAAAACTTTACTTTGTTCTTTATTAACCTACTGAGTTACAATGAG
ATTGAGTATAGAATTTTTTAAGCTTCTGTGTGTTCCTGAACTATGTTTATGAATGGTGCACATC
TAATTTATGCATGGGGACATTTTTTCTGTCCTAGGTTGGTGCTAAATCACGCAACATCTCATAT
CTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTCCATTTGGAGTAT
TTGAGAAGGTTCTTGCAGATGAAGCAAACAAG
						
					

			
		

Sequences
Splice junction sequence	ATATCTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTCCATTTGGA GTATTTGAGAAGGTTCTTGCAGATGAAGCAAACAAGatcaacatattcacagaagaaattatcc gtgctggatcagctgcaactttatcctctctaattaacagacttgatcctgttcttcgagagac tgctcatc
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: 49601269-49601375,49601550-49601763,49601843-49601946,49 602082-49602214,49602391-49602516 ATCAACATATTCACAGAAGAAATTATCCGTGCTGGATCAGCTGCAACTTTATCCTCTCTAATTA ACAGACTTGATCCTGTTCTTCGAGAGACTGCTCATCTTGGCAGTTGGCAGGTTATCAGTCCAGT TGAGGTTGTTGGATATGTTGAAGTTGTGGATGAGCTGCTTTCTGTGCAGAATAAATCTTATGAT CGACCTACTATTTTAGTGGCAAAAAGTGTAAAGGGAGAGGAAGAAATTCCGGATGGTACGATTG CTGTGTTGACCCCTGACATGCCAGATGTTTTGTCACATGTTTCTGTCCGAGCAAGAAATTGCAA GGTTTGCTTTGCTACTTGTTTTGATCCTAATATTCTGGCTGACCTACAAGCAAAAAAAGGGAAA CTGTTGCGCCTAAAACCTTCATCTGCAGATGTAGTTTATAGTGAGGTGAAGGAAGGTGAGCTAG CTGATTCAAGTTCAAGCAACTTGAAGGGAGATGGTCCATCTGTCACTTTGGTCAGAAAGCAGTT TGTTGGTAAATACGCCATATCAGCAGAGGAGTTTACACCTGAAATGGTTGGTGCTAAATCACGC AACATCTCATATCTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTC CATTTGGAGTATTTGAGAAGGTTCTTGCAGATGAAGCAAACAAG
Genomic sequence	ATCAACATATTCACAGAAGAAATTATCCGTGCTGGATCAGCTGCAACTTTATCCTCTCTAATTA ACAGACTTGATCCTGTTCTTCGAGAGACTGCTCATCTTGGCAGGTTGGTATATAATCATTTGTC TGCTGACTCATTATTAGAATATATTGGCAGTGAAACAAATTTTATGCTACTATACCTAGGCTTA ATCATTTAAGAAGATTTTTTTCATGGAATTAAGACATGATTCTGTCACTTATTGGAACTTACTA ATGCAACTTTTCTGTCCTGCAACAGTTGGCAGGTTATCAGTCCAGTTGAGGTTGTTGGATATGT TGAAGTTGTGGATGAGCTGCTTTCTGTGCAGAATAAATCTTATGATCGACCTACTATTTTAGTG GCAAAAAGTGTAAAGGGAGAGGAAGAAATTCCGGATGGTACGATTGCTGTGTTGACCCCTGACA TGCCAGATGTTTTGTCACATGTTTCTGTCCGAGCAAGAAATTGCAAGGTGATTACCTGGTGCTT TGAGATTTCTTTGTAGCTGATAATTTATTGTGTGTTTAAGATGGATATAATACCAACTGCAGGT TTGCTTTGCTACTTGTTTTGATCCTAATATTCTGGCTGACCTACAAGCAAAAAAAGGGAAACTG TTGCGCCTAAAACCTTCATCTGCAGATGTAGTTTATAGGTACTGCTATCTCTAACTTAATTCTG AATTTGTCTAACGTATCATGAAACCATGACGTGAAGTTAAACAAACCTCTTGTTTTTATACTAG CAAAGCTAATTTGAATCTTGCTCCTTTTTTCATGCATTATTCAAGTGAGGTGAAGGAAGGTGAG CTAGCTGATTCAAGTTCAAGCAACTTGAAGGGAGATGGTCCATCTGTCACTTTGGTCAGAAAGC AGTTTGTTGGTAAATACGCCATATCAGCAGAGGAGTTTACACCTGAAATGGTTAGGCTTGCAAA ATCTTACTCTTTTTATCTCCAAAACTTTACTTTGTTCTTTATTAACCTACTGAGTTACAATGAG ATTGAGTATAGAATTTTTTAAGCTTCTGTGTGTTCCTGAACTATGTTTATGAATGGTGCACATC TAATTTATGCATGGGGACATTTTTTCTGTCCTAGGTTGGTGCTAAATCACGCAACATCTCATAT CTAAAAGGAAAAGTGCCATCTTGGGTTGGGATTCCCACATCAGTTGCCCTTCCATTTGGAGTAT TTGAGAAGGTTCTTGCAGATGAAGCAAACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.547485617

Conservation Information
Conserved circRNAs	NA
PMCS	0.547485617

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							49601716-49602513(+)
49602503-49601326(+)
49601277-49601943(-)
						
						Potential amino acid sequence
						
							MPDVLSHVSVRARNCKVCFATCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSS
NLKGDGPSVTLVRKQFVGKYAISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFE
KVLADEANKINIFTEEIIRAGSAATLSSLINRLDPVLRETAHLGSWQVISPVEVVGYVEVVDEL
LSVQNKSYDRPTILVAKSVKGEEEIPDGTIAVLTPDMPDVLSHVSVRARNCKVCFATCFDPNIL
ADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSSNLKGDGPSVTLVRKQFVGKYAISAEEFT
PEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFEKVLADEANKINIFTEEIIRAGSAATLSS
LINRLDPVLRETAHLGSWQVISPVEVVGYVEVVDELLSVQNKSYDRPTILVAKSVKGEEEIPDG
TIAVLTPDMPDVLSHVSVRARNCKVCFATCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEG
ELADSSSSNLKGDGPSVTLVRKQFVGKYAISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSV
ALPFGVFEKVLADEANKINIFTEEIIRAGSAATLSSLINRLDPVLRETAHLGSWQVISPVEVVG
YVEVVDELLSVQNKSYDRPTILVAKSVKGEEEIPDGTIAVLTPDMPDVLSHVSVRARNCKVCFA
TCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSSNLKGDGPSVTLVRKQFVGKY
AISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFEKVLADEANK(+)
MKQTRSTYSQKKLSVLDQLQLYPL*(+)
MLILFASSARTFSNTPNGRATDVGIPTQDGTFPFRYEMLRDLAPTISGVNSSADMAYLPTNCFL
TKVTDGPSPFKLLELESASSPSFTSL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	49601716-49602513(+) 49602503-49601326(+) 49601277-49601943(-)
Potential amino acid sequence	MPDVLSHVSVRARNCKVCFATCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSS NLKGDGPSVTLVRKQFVGKYAISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFE KVLADEANKINIFTEEIIRAGSAATLSSLINRLDPVLRETAHLGSWQVISPVEVVGYVEVVDEL LSVQNKSYDRPTILVAKSVKGEEEIPDGTIAVLTPDMPDVLSHVSVRARNCKVCFATCFDPNIL ADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSSNLKGDGPSVTLVRKQFVGKYAISAEEFT PEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFEKVLADEANKINIFTEEIIRAGSAATLSS LINRLDPVLRETAHLGSWQVISPVEVVGYVEVVDELLSVQNKSYDRPTILVAKSVKGEEEIPDG TIAVLTPDMPDVLSHVSVRARNCKVCFATCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEG ELADSSSSNLKGDGPSVTLVRKQFVGKYAISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSV ALPFGVFEKVLADEANKINIFTEEIIRAGSAATLSSLINRLDPVLRETAHLGSWQVISPVEVVG YVEVVDELLSVQNKSYDRPTILVAKSVKGEEEIPDGTIAVLTPDMPDVLSHVSVRARNCKVCFA TCFDPNILADLQAKKGKLLRLKPSSADVVYSEVKEGELADSSSSNLKGDGPSVTLVRKQFVGKY AISAEEFTPEMVGAKSRNISYLKGKVPSWVGIPTSVALPFGVFEKVLADEANK(+) MKQTRSTYSQKKLSVLDQLQLYPL(+) MLILFASSARTFSNTPNGRATDVGIPTQDGTFPFRYEMLRDLAPTISGVNSSADMAYLPTNCFL TKVTDGPSPFKLLELESASSPSFTSL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G186200_circ_g.1

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