Plant Circular RNA Database

Detail information of orai.002G148000_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.002G148000_circ_g.2
					
						ID in PlantcircBase
						gra_circ_000169
					
						Alias
						Chr02:27917776|27919407
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 27917776-27919407  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G148000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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.002G148000.3:4
Gorai.002G148000.1:4
Gorai.002G148000.2:4

General Information
CircRNA Name	orai.002G148000_circ_g.2
ID in PlantcircBase	gra_circ_000169
Alias	Chr02:27917776\|27919407
Organism	Gossypium raimondii
Position	chrChr02: 27917776-27919407 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G148000
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	leaf
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.002G148000.3:4 Gorai.002G148000.1:4 Gorai.002G148000.2:4

			
						 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  
						
							CTTTGAGTCTGACACAAACTATTTGTTTTACTGATATGAATGATCTCTCTGCAGGTCAAGAAAG
AAATCTTAGTGAAGCTTGGCATGTCAGTTTCACCAGgaggagcctggtgaaaacctctcagatt
gtgataaagatgaagaggaggaaagttgcgaaggatgctccaaagccaatgatgaagatgaaag
tgaagatg

									
								

					

						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: 736
Transcript exons: 27917776-27917913,27918024-27918437,27918643-27918780,27
919362-27919407
GAGGAGCCTGGTGAAAACCTCTCAGATTGTGATAAAGATGAAGAGGAGGAAAGTTGCGAAGGAT
GCTCCAAAGCCAATGATGAAGATGAAAGTGAAGATGGCTTTTTTGTACCAGATGGATATCTCTC
GGAAGATGAGGGTGTACAAGTTGACAGGATGGAATCTGATGTTCCAGTTCAGGATATCCAAAGT
TCCCATATCAGTGAGCAAGATGGGTGGAATGAGGAGTTTAGTGCATTGCTTCGGCAACAGAAGT
GTCTAAACAATATAACTGAGCAAGCACTAAGGAAAAATCAAGTGCTGATTATATTAAATTTGTT
GCATGAAAAGGCGTCATTGCTAATGGCTGAAGATCTTAATGGTACTCCTAAATTGGAGCAGACA
TGTTTACAAGCCCTGAGCATGCGGGCATATCCTGGTGGCCATTCTATAGAGATATCAATTGATA
GCAAGGTACATGACAATCAAGAAGCTTGTTTGTCAAGTGTGAAGGCTGGAGTAACACCGGTCCT
ATCTTTGGTACCAATTCCGGACTCAGATTTGCCTCTTATCGTATCTACAATCCAGTCATGCTCC
CATGGTATCAAAAGCTTGGTAGAGTCTTTGCAAGAGAAGTTTCCTTCAATTCCAAAGTCTCAGT
TAAAGGACACAGTGCATGAAATTTCAGAATTCTCAGATAATCGTTGGCAGGTCAAGAAAGAAAT
CTTAGTGAAGCTTGGCATGTCAGTTTCACCAG
						
					

						Genomic sequence
						
							GAGGAGCCTGGTGAAAACCTCTCAGATTGTGATAAAGATGAAGAGGAGGAAAGTTGCGAAGGAT
GCTCCAAAGCCAATGATGAAGATGAAAGTGAAGATGGCTTTTTTGTACCAGATGGATATCTCTC
GGAAGATGAGGTAAAAACTTGGAAGATACTCCACCTTGTTAACTTCTGAACTAAAAAAGAATCA
CCTACCATTACTCGAAAACCACAGGCTTAAAGTGCTTATTTGAGGCTTATATGCAGGGTGTACA
AGTTGACAGGATGGAATCTGATGTTCCAGTTCAGGATATCCAAAGTTCCCATATCAGTGAGCAA
GATGGGTGGAATGAGGAGTTTAGTGCATTGCTTCGGCAACAGAAGTGTCTAAACAATATAACTG
AGCAAGCACTAAGGAAAAATCAAGTGCTGATTATATTAAATTTGTTGCATGAAAAGGCGTCATT
GCTAATGGCTGAAGATCTTAATGGTACTCCTAAATTGGAGCAGACATGTTTACAAGCCCTGAGC
ATGCGGGCATATCCTGGTGGCCATTCTATAGAGATATCAATTGATAGCAAGGTACATGACAATC
AAGAAGCTTGTTTGTCAAGTGTGAAGGCTGGAGTAACACCGGTCCTATCTTTGGTACCAATTCC
GGACTCAGATTTGCCTCTTATCGTAAGTTGCACTTCTAACCACAGTTTAATGTAAAACATCCTT
TGGTTATAATGTTCAGGAATATATTCTCCCTGCTATTCTTGAATCTCATCATGATAGTAGCAGC
GAGGTGATATTATGACATGTTAGGTGCTTGAAAATTAATTTCTGTTAAAAATTCTAAACTGCTG
TGGTTTGCTGCTAATTTTGATATTGCTGGTTTTAGGTATCTACAATCCAGTCATGCTCCCATGG
TATCAAAAGCTTGGTAGAGTCTTTGCAAGAGAAGTTTCCTTCAATTCCAAAGTCTCAGTTAAAG
GACACAGTGCATGAAATTTCAGAATTCTCAGATAATCGTTGGCAGGTTAGTGTCTCATTCCTGA
ATTTAGATCTCGCTCTTTGCTAGTGGCATTTATTTCTATATTTATTTTGGGGTGCTTACATGGA
TGACATTAGGATCGCACCCCTTTTTGAAAATACTATTGTACCATGCTTGGTTTAAGTAGTTGAA
TTAACCTCTTAACGAAGTAGAATGGATATGTTAGACCAGGGAAATGTGAAATTAATGATTTAAT
GCTTGAAATTCATTTTCATGAATTAGTTAGCTGAATGTTCGGTGTTCCTTTTTTGGTCTTACCC
TTCAGTAAATTTACCTTCTCTTGCCTTCTCAACAGTTGCAAGGGTTCTGATTAATTTTGACTAT
CCCCAGTCCTTGGTAAGAGGGTTAAATTTTAGGCCATGAATTTCCAACAAGCTGATGATTACAT
AATATTCCAAGCATGCCTTTATATCAAGCTGCAACTGTCATGCCTTCTGATACCACACCGCACC
TAGTTTACTTCATCAACCAATTCCATGCCTGTCTGTGTTAAAATAGCGATGTAAGTTATGCTTT
GAGTCTGACACAAACTATTTGTTTTACTGATATGAATGATCTCTCTGCAGGTCAAGAAAGAAAT
CTTAGTGAAGCTTGGCATGTCAGTTTCACCAG
						
					

			
		

Sequences
Splice junction sequence	CTTTGAGTCTGACACAAACTATTTGTTTTACTGATATGAATGATCTCTCTGCAGGTCAAGAAAG AAATCTTAGTGAAGCTTGGCATGTCAGTTTCACCAGgaggagcctggtgaaaacctctcagatt gtgataaagatgaagaggaggaaagttgcgaaggatgctccaaagccaatgatgaagatgaaag tgaagatg
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: 736 Transcript exons: 27917776-27917913,27918024-27918437,27918643-27918780,27 919362-27919407 GAGGAGCCTGGTGAAAACCTCTCAGATTGTGATAAAGATGAAGAGGAGGAAAGTTGCGAAGGAT GCTCCAAAGCCAATGATGAAGATGAAAGTGAAGATGGCTTTTTTGTACCAGATGGATATCTCTC GGAAGATGAGGGTGTACAAGTTGACAGGATGGAATCTGATGTTCCAGTTCAGGATATCCAAAGT TCCCATATCAGTGAGCAAGATGGGTGGAATGAGGAGTTTAGTGCATTGCTTCGGCAACAGAAGT GTCTAAACAATATAACTGAGCAAGCACTAAGGAAAAATCAAGTGCTGATTATATTAAATTTGTT GCATGAAAAGGCGTCATTGCTAATGGCTGAAGATCTTAATGGTACTCCTAAATTGGAGCAGACA TGTTTACAAGCCCTGAGCATGCGGGCATATCCTGGTGGCCATTCTATAGAGATATCAATTGATA GCAAGGTACATGACAATCAAGAAGCTTGTTTGTCAAGTGTGAAGGCTGGAGTAACACCGGTCCT ATCTTTGGTACCAATTCCGGACTCAGATTTGCCTCTTATCGTATCTACAATCCAGTCATGCTCC CATGGTATCAAAAGCTTGGTAGAGTCTTTGCAAGAGAAGTTTCCTTCAATTCCAAAGTCTCAGT TAAAGGACACAGTGCATGAAATTTCAGAATTCTCAGATAATCGTTGGCAGGTCAAGAAAGAAAT CTTAGTGAAGCTTGGCATGTCAGTTTCACCAG
Genomic sequence	GAGGAGCCTGGTGAAAACCTCTCAGATTGTGATAAAGATGAAGAGGAGGAAAGTTGCGAAGGAT GCTCCAAAGCCAATGATGAAGATGAAAGTGAAGATGGCTTTTTTGTACCAGATGGATATCTCTC GGAAGATGAGGTAAAAACTTGGAAGATACTCCACCTTGTTAACTTCTGAACTAAAAAAGAATCA CCTACCATTACTCGAAAACCACAGGCTTAAAGTGCTTATTTGAGGCTTATATGCAGGGTGTACA AGTTGACAGGATGGAATCTGATGTTCCAGTTCAGGATATCCAAAGTTCCCATATCAGTGAGCAA GATGGGTGGAATGAGGAGTTTAGTGCATTGCTTCGGCAACAGAAGTGTCTAAACAATATAACTG AGCAAGCACTAAGGAAAAATCAAGTGCTGATTATATTAAATTTGTTGCATGAAAAGGCGTCATT GCTAATGGCTGAAGATCTTAATGGTACTCCTAAATTGGAGCAGACATGTTTACAAGCCCTGAGC ATGCGGGCATATCCTGGTGGCCATTCTATAGAGATATCAATTGATAGCAAGGTACATGACAATC AAGAAGCTTGTTTGTCAAGTGTGAAGGCTGGAGTAACACCGGTCCTATCTTTGGTACCAATTCC GGACTCAGATTTGCCTCTTATCGTAAGTTGCACTTCTAACCACAGTTTAATGTAAAACATCCTT TGGTTATAATGTTCAGGAATATATTCTCCCTGCTATTCTTGAATCTCATCATGATAGTAGCAGC GAGGTGATATTATGACATGTTAGGTGCTTGAAAATTAATTTCTGTTAAAAATTCTAAACTGCTG TGGTTTGCTGCTAATTTTGATATTGCTGGTTTTAGGTATCTACAATCCAGTCATGCTCCCATGG TATCAAAAGCTTGGTAGAGTCTTTGCAAGAGAAGTTTCCTTCAATTCCAAAGTCTCAGTTAAAG GACACAGTGCATGAAATTTCAGAATTCTCAGATAATCGTTGGCAGGTTAGTGTCTCATTCCTGA ATTTAGATCTCGCTCTTTGCTAGTGGCATTTATTTCTATATTTATTTTGGGGTGCTTACATGGA TGACATTAGGATCGCACCCCTTTTTGAAAATACTATTGTACCATGCTTGGTTTAAGTAGTTGAA TTAACCTCTTAACGAAGTAGAATGGATATGTTAGACCAGGGAAATGTGAAATTAATGATTTAAT GCTTGAAATTCATTTTCATGAATTAGTTAGCTGAATGTTCGGTGTTCCTTTTTTGGTCTTACCC TTCAGTAAATTTACCTTCTCTTGCCTTCTCAACAGTTGCAAGGGTTCTGATTAATTTTGACTAT CCCCAGTCCTTGGTAAGAGGGTTAAATTTTAGGCCATGAATTTCCAACAAGCTGATGATTACAT AATATTCCAAGCATGCCTTTATATCAAGCTGCAACTGTCATGCCTTCTGATACCACACCGCACC TAGTTTACTTCATCAACCAATTCCATGCCTGTCTGTGTTAAAATAGCGATGTAAGTTATGCTTT GAGTCTGACACAAACTATTTGTTTTACTGATATGAATGATCTCTCTGCAGGTCAAGAAAGAAAT CTTAGTGAAGCTTGGCATGTCAGTTTCACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.448228248

Conservation Information
Conserved circRNAs	NA
PMCS	0.448228248

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27918042-27917786(+)
						
						Potential amino acid sequence
						
							MESDVPVQDIQSSHISEQDGWNEEFSALLRQQKCLNNITEQALRKNQVLIILNLLHEKASLLMA
EDLNGTPKLEQTCLQALSMRAYPGGHSIEISIDSKVHDNQEACLSSVKAGVTPVLSLVPIPDSD
LPLIVSTIQSCSHGIKSLVESLQEKFPSIPKSQLKDTVHEISEFSDNRWQVKKEILVKLGMSVS
PGGAW*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27918042-27917786(+)
Potential amino acid sequence	MESDVPVQDIQSSHISEQDGWNEEFSALLRQQKCLNNITEQALRKNQVLIILNLLHEKASLLMA EDLNGTPKLEQTCLQALSMRAYPGGHSIEISIDSKVHDNQEACLSSVKAGVTPVLSLVPIPDSD LPLIVSTIQSCSHGIKSLVESLQEKFPSIPKSQLKDTVHEISEFSDNRWQVKKEILVKLGMSVS PGGAW*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G148000_circ_g.2

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