Plant Circular RNA Database

Detail information of orai.002G222900_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G222900_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000200
					
						Alias
						Chr02:57776300|57777365
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 57776300-57777365  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G222900						
					
						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.002G222900.7:4
Gorai.002G222900.8:3
Gorai.002G222900.2:4
Gorai.002G222900.5:4
Gorai.002G222900.1:4
Gorai.002G222900.4:4
Gorai.002G222900.3:4
Gorai.002G222900.6:4

General Information
CircRNA Name	orai.002G222900_circ_g.1
ID in PlantcircBase	gra_circ_000200
Alias	Chr02:57776300\|57777365
Organism	Gossypium raimondii
Position	chrChr02: 57776300-57777365 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.002G222900
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.002G222900.7:4 Gorai.002G222900.8:3 Gorai.002G222900.2:4 Gorai.002G222900.5:4 Gorai.002G222900.1:4 Gorai.002G222900.4:4 Gorai.002G222900.3:4 Gorai.002G222900.6:4

			
						 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  
						
							CAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCAGGTTTC
AAATCATTCACACCCTCACCCACACTCTCCACGATCcttgttcaaatatttgtcgacaaccatg
ggaatatcagtgcgtggtttatagttgccataaaaagcacccttaagggtcctctcacttagta
gattcatt

									
								

					

						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: 808
Transcript exons: 57776300-57776461,57776546-57776703,57776794-57776869,57
776954-57777365
CTTGTTCAAATATTTGTCGACAACCATGGGAATATCAGTGCGTGGTTTATAGTTGCCATAAAAA
GCACCCTTAAGGGTCCTCTCACTTAGTAGATTCATTGGATGAGTTTTGAATGCATCGTCTTTCT
TTGGCACACCCACCAGCACACAAACACCCCAACCATCATGGACGCATTCAAAAGCGGAAATCAT
GGCTTGGACGCTCCCTGTACACTCCACACTGCGATCCACTCCTCCGCCGGTCATCTCCACAATC
ACCTCTTGAACAGGCTTGTCGTAGTCTTTTGGATTCACAAATTCTGTAATCCCAAACCTCTTAG
CTTCTTCAAATCTTCTGGGGTTCACATCAACAGCGATGATCCGAGAAGCCCCACAAACCCTTGC
ACCTTCAGCGGCGGCAAGACCAACGGCACCCAGTCCAAAAACTGCAACAGTTTGACCCTTTTTG
GGTTTAGCAACATTCACAGTGGCCCCAAAACCTGTACATATCCCACAGCTAATGGGACAGACTT
TATCAAGAGGGGCCGTTGGACTGATCTTGGCAACCTGGCCAACATGGACGACAGTATATTGGCT
AAAGGTCGAGGTTCCAACAAAGTGATAGATAGGCTTGCCGTTGATGGAAAATCTGGTTTTCCCA
TCAGCAAGCATAACACCTCGGTCGCAGTTGATCCTAAGCAGTTCGCACATGTTATTGCTTTCTT
CTGACAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCAGG
TTTCAAATCATTCACACCCTCACCCACACTCTCCACGATC
						
					

						Genomic sequence
						
							CTTGTTCAAATATTTGTCGACAACCATGGGAATATCAGTGCGTGGTTTATAGTTGCCATAAAAA
GCACCCTTAAGGGTCCTCTCACTTAGTAGATTCATTGGATGAGTTTTGAATGCATCGTCTTTCT
TTGGCACACCCACCAGCACACAAACACCCCAACCCTGTAATTCAAGAAGCATCATATATGCGTG
TGACAATTAATGCAAAGAGGTAGTATAGTTTTTTATTGGAAGAAGCTAAATTACATCATGGACG
CATTCAAAAGCGGAAATCATGGCTTGGACGCTCCCTGTACACTCCACACTGCGATCCACTCCTC
CGCCGGTCATCTCCACAATCACCTCTTGAACAGGCTTGTCGTAGTCTTTTGGATTCACAAATTC
TGTAATCCCAAACCTCTTAGCTGGTGGGCAGGCAAAGAAATATGATCCATATATTAGTATTTTT
AGTGAGAAACAACGACAAATCATATAAATGATGCTATGAGAGGTACCTTCTTCAAATCTTCTGG
GGTTCACATCAACAGCGATGATCCGAGAAGCCCCACAAACCCTTGCACCTTCAGCGGCCTAATT
TATATGGATAAAAGTGAATCAAACACATTTACCAAATAGCCTAGAGAAAAACCATAGGTGAAAC
AAGAATAAACTCACGGCAAGACCAACGGCACCCAGTCCAAAAACTGCAACAGTTTGACCCTTTT
TGGGTTTAGCAACATTCACAGTGGCCCCAAAACCTGTACATATCCCACAGCTAATGGGACAGAC
TTTATCAAGAGGGGCCGTTGGACTGATCTTGGCAACCTGGCCAACATGGACGACAGTATATTGG
CTAAAGGTCGAGGTTCCAACAAAGTGATAGATAGGCTTGCCGTTGATGGAAAATCTGGTTTTCC
CATCAGCAAGCATAACACCTCGGTCGCAGTTGATCCTAAGCAGTTCGCACATGTTATTGCTTTC
TTCTGACAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCA
GGTTTCAAATCATTCACACCCTCACCCACACTCTCCACGATC
						
					

			
		

Sequences
Splice junction sequence	CAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCAGGTTTC AAATCATTCACACCCTCACCCACACTCTCCACGATCcttgttcaaatatttgtcgacaaccatg ggaatatcagtgcgtggtttatagttgccataaaaagcacccttaagggtcctctcacttagta gattcatt
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: 808 Transcript exons: 57776300-57776461,57776546-57776703,57776794-57776869,57 776954-57777365 CTTGTTCAAATATTTGTCGACAACCATGGGAATATCAGTGCGTGGTTTATAGTTGCCATAAAAA GCACCCTTAAGGGTCCTCTCACTTAGTAGATTCATTGGATGAGTTTTGAATGCATCGTCTTTCT TTGGCACACCCACCAGCACACAAACACCCCAACCATCATGGACGCATTCAAAAGCGGAAATCAT GGCTTGGACGCTCCCTGTACACTCCACACTGCGATCCACTCCTCCGCCGGTCATCTCCACAATC ACCTCTTGAACAGGCTTGTCGTAGTCTTTTGGATTCACAAATTCTGTAATCCCAAACCTCTTAG CTTCTTCAAATCTTCTGGGGTTCACATCAACAGCGATGATCCGAGAAGCCCCACAAACCCTTGC ACCTTCAGCGGCGGCAAGACCAACGGCACCCAGTCCAAAAACTGCAACAGTTTGACCCTTTTTG GGTTTAGCAACATTCACAGTGGCCCCAAAACCTGTACATATCCCACAGCTAATGGGACAGACTT TATCAAGAGGGGCCGTTGGACTGATCTTGGCAACCTGGCCAACATGGACGACAGTATATTGGCT AAAGGTCGAGGTTCCAACAAAGTGATAGATAGGCTTGCCGTTGATGGAAAATCTGGTTTTCCCA TCAGCAAGCATAACACCTCGGTCGCAGTTGATCCTAAGCAGTTCGCACATGTTATTGCTTTCTT CTGACAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCAGG TTTCAAATCATTCACACCCTCACCCACACTCTCCACGATC
Genomic sequence	CTTGTTCAAATATTTGTCGACAACCATGGGAATATCAGTGCGTGGTTTATAGTTGCCATAAAAA GCACCCTTAAGGGTCCTCTCACTTAGTAGATTCATTGGATGAGTTTTGAATGCATCGTCTTTCT TTGGCACACCCACCAGCACACAAACACCCCAACCCTGTAATTCAAGAAGCATCATATATGCGTG TGACAATTAATGCAAAGAGGTAGTATAGTTTTTTATTGGAAGAAGCTAAATTACATCATGGACG CATTCAAAAGCGGAAATCATGGCTTGGACGCTCCCTGTACACTCCACACTGCGATCCACTCCTC CGCCGGTCATCTCCACAATCACCTCTTGAACAGGCTTGTCGTAGTCTTTTGGATTCACAAATTC TGTAATCCCAAACCTCTTAGCTGGTGGGCAGGCAAAGAAATATGATCCATATATTAGTATTTTT AGTGAGAAACAACGACAAATCATATAAATGATGCTATGAGAGGTACCTTCTTCAAATCTTCTGG GGTTCACATCAACAGCGATGATCCGAGAAGCCCCACAAACCCTTGCACCTTCAGCGGCCTAATT TATATGGATAAAAGTGAATCAAACACATTTACCAAATAGCCTAGAGAAAAACCATAGGTGAAAC AAGAATAAACTCACGGCAAGACCAACGGCACCCAGTCCAAAAACTGCAACAGTTTGACCCTTTT TGGGTTTAGCAACATTCACAGTGGCCCCAAAACCTGTACATATCCCACAGCTAATGGGACAGAC TTTATCAAGAGGGGCCGTTGGACTGATCTTGGCAACCTGGCCAACATGGACGACAGTATATTGG CTAAAGGTCGAGGTTCCAACAAAGTGATAGATAGGCTTGCCGTTGATGGAAAATCTGGTTTTCC CATCAGCAAGCATAACACCTCGGTCGCAGTTGATCCTAAGCAGTTCGCACATGTTATTGCTTTC TTCTGACAGACAGTGGCGACATTCTTTGCATTCTCCGGTGAAGATAGGGAGCACATGATCTCCA GGTTTCAAATCATTCACACCCTCACCCACACTCTCCACGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.546201266

Conservation Information
Conserved circRNAs	NA
PMCS	0.546201266

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							57777248-57777347(-)
57777314-57776370(+)
						
						Potential amino acid sequence
						
							MCELLRINCDRGVMLADGKTRFSINGKPIYHFVGTSTFSQYTVVHVGQVAKISPTAPLDKVCPI
SCGICTGFGATVNVAKPKKGQTVAVFGLGAVGLAAAEGARVCGASRIIAVDVNPRRFEEEFVNP
KDYDKPVQEVIVEMTGGGVDRSVECTGSVQAMISAFECVHDGWGVCVLVGVPKKDDAFKTHPMN
LLSERTLKGAFYGNYKPRTDIPMVVDKYLNKDRGECG*(-)
MISRFQIIHTLTHTLHDPCSNICRQPWEYQCVVYSCHKKHP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	57777248-57777347(-) 57777314-57776370(+)
Potential amino acid sequence	MCELLRINCDRGVMLADGKTRFSINGKPIYHFVGTSTFSQYTVVHVGQVAKISPTAPLDKVCPI SCGICTGFGATVNVAKPKKGQTVAVFGLGAVGLAAAEGARVCGASRIIAVDVNPRRFEEEFVNP KDYDKPVQEVIVEMTGGGVDRSVECTGSVQAMISAFECVHDGWGVCVLVGVPKKDDAFKTHPMN LLSERTLKGAFYGNYKPRTDIPMVVDKYLNKDRGECG(-) MISRFQIIHTLTHTLHDPCSNICRQPWEYQCVVYSCHKKHP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G222900_circ_g.1

Address

Any questions?

Supported by