Plant Circular RNA Database

Detail information of orai.006G253200_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G253200_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000676
					
						Alias
						Chr06:49629329|49630975
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 49629329-49630975  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G253200						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.006G253200_circ_g.2 						
					
						Support reads
						3
					
						Tissues
						leaf
					
						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.006G253200.2:4
Gorai.006G253200.3:4
Gorai.006G253200.4:4
Gorai.006G253200.1:4

General Information
CircRNA Name	orai.006G253200_circ_g.1
ID in PlantcircBase	gra_circ_000676
Alias	Chr06:49629329\|49630975
Organism	Gossypium raimondii
Position	chrChr06: 49629329-49630975 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.006G253200
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.006G253200_circ_g.2
Support reads	3
Tissues	leaf
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.006G253200.2:4 Gorai.006G253200.3:4 Gorai.006G253200.4:4 Gorai.006G253200.1:4

			
						 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  
						
							CATTTTAGCTACCCTTTTCATCAACAATCTTATTCTCAGAGACCAAATCTTGCAGACTTTTAGC
TCGTCACTGTTTACCGAAATATCCAACAAACAAGTTctatgaatataattatgtttgtggattg
attcaattgccaggacagtttctccaacgtaaaacctggcctcatcttcagttaatatatcctt
ccgcatca

									
								

					

						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
						
							CTATGAATATAATTATGTTTGTGGATTGATTCAATTGCCAGGACAGTTTCTCCAACGTAAAACC
TGGCCTCATCTTCAGTTAATATATCCTTCCGCATCAGTAAAGTCATCATATCCCCCCCAGGTAA
ATATTCCATAATGAGATATAGATACTCATCATCTTGGAAGGAGCAATATAGTTTGACAATGCAA
TTACTGTCAACCTCCGCAAGTAGATTCCTCTCAGCTTTCACATGTTCGACCTGAAAATTATAAA
TGCAATTAGAAAGTTAGCATCGTGATTCAAAATGCATTTACGCAATTATATAGCAGGGTTGAAA
TAGTGTACCTGGCCTCTGCGAAGCATTTCTGACTTCTTAAGCTTCTTCATGGCATAAACATGAC
CAGTTGCTTTCTCCTTGCAGATTCTAACCTGTGATGAGAAGATGCGAAGTTAAAAGTTATTATC
GTAAAATTCATTCTCATGGGTTTTATAAACTCAGAAAAAGGTGAGTCACAAGAGAGTGTTAACA
CTACATCCAAAGAACCCACAAGCTTTAGTAACTTGCCACTATTCAACAAATACAGTACATATGT
AGGAGCCTGTCCTTCCAGAAGTTTACTAGATGCATTGTCTCAAGAAAATAAAGTGCTGATGGCA
GGCACAACAATTTTTTTAAGCCAAACAGGCAGAACAATTTAAAAACACTATTTTAGCAACAGAA
AAATCTAGTGGTAGTCATAACTCGCCAAAAATTTCTAAATTTTGGCAAGAGTGTCAAAGCAAGA
GCACAAATAGAAGACAAGAACCTATGTGATGATGTATAGTATGATGAAGATATAATTACCTCAC
CAAATGCACCCTTGCCTATCATGGTCAATGGCTCAAAATCATCAGCACCCATTTTATGCCGCTG
GAGTCGCATGTATTCTGTTTCCTTCTTCTCAAAACACTTTAGTAAGTTGTTTTGTTCTTCTTCA
GAGACTTCAGCATCAGCCAACTTCTTTTCTAGAATATCACGTCTGCAAAAAATCATAATTAACC
ATCATTCCTATTCTTCAAAATGAACTACCATAACTTTCCCCACAGTCCTAATCATGTTATATAT
TTTACAGATGATACAGAAAGCACTGGCAAAATTAAGTTTTCTGTATGAAGTTTTGAACCAAAAC
ATGCTACTAAGCATCTCAACATGAGATAATTCCACCAAATTGTCGATCTAAAATATGGAACACA
GTATAAAATTGCTTGCAACATTATATATGCAGAAAAACAATTTCCATGAGGGAAGAATTTAAAT
CATACCGCTCCTTTCTTTCCTGGAGGCTTTTCATCTGCTTCTTGTAATGGTTTTCAATATATTG
CTTTGCAGCTTCTACCCGCTGTTTGGTGACTTTTGACGGTGCCTCTTCACTTGCTGGTGGTTTA
GACCCCTCCTTTCCATTTGCAGCCTCTTTCTTCTTTGAAGGCCTTAACTTATCTTTAGATTTCA
ATTTGTTGAGCCAACACCTTGCAGTTTCCATTGGTTTATAAACACGACCCTTACAATGTCACAC
TTCTAGATGTACATTTTAGCTACCCTTTTCATCAACAATCTTATTCTCAGAGACCAAATCTTGC
AGACTTTTAGCTCGTCACTGTTTACCGAAATATCCAACAAACAAGTT
						
					

			
		

Sequences
Splice junction sequence	CATTTTAGCTACCCTTTTCATCAACAATCTTATTCTCAGAGACCAAATCTTGCAGACTTTTAGC TCGTCACTGTTTACCGAAATATCCAACAAACAAGTTctatgaatataattatgtttgtggattg attcaattgccaggacagtttctccaacgtaaaacctggcctcatcttcagttaatatatcctt ccgcatca
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	CTATGAATATAATTATGTTTGTGGATTGATTCAATTGCCAGGACAGTTTCTCCAACGTAAAACC TGGCCTCATCTTCAGTTAATATATCCTTCCGCATCAGTAAAGTCATCATATCCCCCCCAGGTAA ATATTCCATAATGAGATATAGATACTCATCATCTTGGAAGGAGCAATATAGTTTGACAATGCAA TTACTGTCAACCTCCGCAAGTAGATTCCTCTCAGCTTTCACATGTTCGACCTGAAAATTATAAA TGCAATTAGAAAGTTAGCATCGTGATTCAAAATGCATTTACGCAATTATATAGCAGGGTTGAAA TAGTGTACCTGGCCTCTGCGAAGCATTTCTGACTTCTTAAGCTTCTTCATGGCATAAACATGAC CAGTTGCTTTCTCCTTGCAGATTCTAACCTGTGATGAGAAGATGCGAAGTTAAAAGTTATTATC GTAAAATTCATTCTCATGGGTTTTATAAACTCAGAAAAAGGTGAGTCACAAGAGAGTGTTAACA CTACATCCAAAGAACCCACAAGCTTTAGTAACTTGCCACTATTCAACAAATACAGTACATATGT AGGAGCCTGTCCTTCCAGAAGTTTACTAGATGCATTGTCTCAAGAAAATAAAGTGCTGATGGCA GGCACAACAATTTTTTTAAGCCAAACAGGCAGAACAATTTAAAAACACTATTTTAGCAACAGAA AAATCTAGTGGTAGTCATAACTCGCCAAAAATTTCTAAATTTTGGCAAGAGTGTCAAAGCAAGA GCACAAATAGAAGACAAGAACCTATGTGATGATGTATAGTATGATGAAGATATAATTACCTCAC CAAATGCACCCTTGCCTATCATGGTCAATGGCTCAAAATCATCAGCACCCATTTTATGCCGCTG GAGTCGCATGTATTCTGTTTCCTTCTTCTCAAAACACTTTAGTAAGTTGTTTTGTTCTTCTTCA GAGACTTCAGCATCAGCCAACTTCTTTTCTAGAATATCACGTCTGCAAAAAATCATAATTAACC ATCATTCCTATTCTTCAAAATGAACTACCATAACTTTCCCCACAGTCCTAATCATGTTATATAT TTTACAGATGATACAGAAAGCACTGGCAAAATTAAGTTTTCTGTATGAAGTTTTGAACCAAAAC ATGCTACTAAGCATCTCAACATGAGATAATTCCACCAAATTGTCGATCTAAAATATGGAACACA GTATAAAATTGCTTGCAACATTATATATGCAGAAAAACAATTTCCATGAGGGAAGAATTTAAAT CATACCGCTCCTTTCTTTCCTGGAGGCTTTTCATCTGCTTCTTGTAATGGTTTTCAATATATTG CTTTGCAGCTTCTACCCGCTGTTTGGTGACTTTTGACGGTGCCTCTTCACTTGCTGGTGGTTTA GACCCCTCCTTTCCATTTGCAGCCTCTTTCTTCTTTGAAGGCCTTAACTTATCTTTAGATTTCA ATTTGTTGAGCCAACACCTTGCAGTTTCCATTGGTTTATAAACACGACCCTTACAATGTCACAC TTCTAGATGTACATTTTAGCTACCCTTTTCATCAACAATCTTATTCTCAGAGACCAAATCTTGC AGACTTTTAGCTCGTCACTGTTTACCGAAATATCCAACAAACAAGTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.877828906

Conservation Information
Conserved circRNAs	NA
PMCS	0.877828906

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							49630832-49630869(-)
49629402-49630952(-)
49630871-49629331(+)
						
						Potential amino acid sequence
						
							METARCWLNKLKSKDKLRPSKKKEAANGKEGSKPPASEEAPSKVTKQRVEAAKQYIENHYKKQM
KSLQERKERRDILEKKLADAEVSEEEQNNLLKCFEKKETEYMRLQRHKMGADDFEPLTMIGKGA
FGEVRICKEKATGHVYAMKKLKKSEMLRRGQVEHVKAERNLLAEVDSNCIVKLYCSFQDDEYLY
LIMEYLPGGDMMTLLMRKDILTEDEARFYVGETVLAIESIHKHNYIHRTCLLDISVNSDELKVC
KIWSLRIRLLMKRVAKMYI*(-)
MRPGFTLEKLSWQLNQSTNIIIFIELVCWIFR*(-)
MYILATLFINNLILRDQILQTFSSSLFTEISNKQVL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	49630832-49630869(-) 49629402-49630952(-) 49630871-49629331(+)
Potential amino acid sequence	METARCWLNKLKSKDKLRPSKKKEAANGKEGSKPPASEEAPSKVTKQRVEAAKQYIENHYKKQM KSLQERKERRDILEKKLADAEVSEEEQNNLLKCFEKKETEYMRLQRHKMGADDFEPLTMIGKGA FGEVRICKEKATGHVYAMKKLKKSEMLRRGQVEHVKAERNLLAEVDSNCIVKLYCSFQDDEYLY LIMEYLPGGDMMTLLMRKDILTEDEARFYVGETVLAIESIHKHNYIHRTCLLDISVNSDELKVC KIWSLRIRLLMKRVAKMYI(-) MRPGFTLEKLSWQLNQSTNIIIFIELVCWIFR(-) MYILATLFINNLILRDQILQTFSSSLFTEISNKQVL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G253200_circ_g.1

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