Plant Circular RNA Database

Detail information of orai.005G133300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.005G133300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000487
					
						Alias
						Chr05:33450895|33452603
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr05: 33450895-33452603  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.005G133300						
					
						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  
						
							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.005G133300.3:3
Gorai.005G133300.2:3
Gorai.005G133300.4:3
Gorai.005G133300.1:3

General Information
CircRNA Name	orai.005G133300_circ_g.1
ID in PlantcircBase	gra_circ_000487
Alias	Chr05:33450895\|33452603
Organism	Gossypium raimondii
Position	chrChr05: 33450895-33452603 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.005G133300
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	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.005G133300.3:3 Gorai.005G133300.2:3 Gorai.005G133300.4:3 Gorai.005G133300.1:3

			
						 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  
						
							TATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGAACCCATCGGAACC
ACCAAAGAATGCATTATACACTTCGAATGGATCAACcttttcttatcaacattgccttctccac
gtattcgctttgtgaaaccatcagcaacaccagggggtatgattattctcatactccgttttac
ttttactt

									
								

					

						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: 497
Transcript exons: 33450895-33451070,33451970-33452165,33452479-33452603
CTTTTCTTATCAACATTGCCTTCTCCACGTATTCGCTTTGTGAAACCATCAGCAACACCAGGGG
GTATGATTATTCTCATACTCCGTTTTACTTTTACTTTACAGCAGCCACTACATCTTCGACATTT
GTCAGTGATTATCTTGCCCTTGCCACCACAGCTTGAGCAAGTAGAAACCTCTATTGCCACTCCA
AATGGAGTCCTTTTGGATTTCGTTGACCCTCCTTTACCTCCACAATCAGTACATGATTTTATGC
AACTACTAGTTTTAGCACCTGTTGCGCCGCAATCATTACATGTTTCAAGATAGGATACCATAAT
TTCACGCTCTCCTCCAAAAATAGATTCTTCAAAGTTCAAATGAAGTTCATACCAAATGTCAAGA
TCGTTGCTTCCATTATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGA
ACCCATCGGAACCACCAAAGAATGCATTATACACTTCGAATGGATCAAC
						
					

						Genomic sequence
						
							CTTTTCTTATCAACATTGCCTTCTCCACGTATTCGCTTTGTGAAACCATCAGCAACACCAGGGG
GTATGATTATTCTCATACTCCGTTTTACTTTTACTTTACAGCAGCCACTACATCTTCGACATTT
GTCAGTGATTATCTTGCCCTTGCCACCACAGCTTGAGCAAGTAGAAACCTAGAAATATAACATA
TTATCTATATAACATATGCTAAAGATAAGAACTGAATTCTAAAATTAAATAACAGGTCAGGTAA
CAAAAAGTTAAAGTTAAACAATTGCTCTTGGGCTTACTACTTATAGTTTTGATTAATGACAGAA
ATTGTGCAGCTTATCCTTTTAGCGATGCCCAGGGCGCAAGGTGCAATCTAGACATAGAACCATT
ATATTGCCTAAGGTCTATATACATGTTCTTAGTGTCTAACTCTCATCCAAATTTTCAAAACTCG
TAGAGTCAGCGCAATAGGATACAAGTATATTGTATGTTCAAAGCTAACGGGAAAAAAAATAATT
GCAGAAAGAAAAAGGACTAGGAAATAATCAAATAATATTAATCTAAAAGATTCCTAAGAATCTG
CTAATCTATCCCTACAATCACGTCTACAATCAAGTTATAGTTTGTAACAAAATCCAAGCACATA
GCCACCAAAAAATGGCAGCTCTTTATTCTTTCCTTCGCCCTCCTCGTTCTTCTTTAAATTTTGC
TTCCTTTTTGACTTGTTTTTGCATATCCTCTTTTTCTTTTCCTACTAAATCTAGCTATTTCCCA
CAACATGGAGGTACAAAAGTTTATTCCATGCTTCCCATTTAATATGAGAATGCCAAGTTCAAAT
GTAACACTTGAGTTTTGGTGCCCAATTAGCTCAACAAATAGCATGATTTAATCCTATTATTCAA
TTTTTATATAAAGTATATAGATACTACGAATGCAGAACTATAATTCCTTCCATAAGTTGGCAAG
AAAACTGAAAATAGAAAACAAAAATTTAGAAAACAACAATTTAGAAAAGAAAAATTGGAGAATA
AACAACTATTGCATCATCAATCACTTTAATGTTGTCATGAGGATATAATACCTCTATTGCCACT
CCAAATGGAGTCCTTTTGGATTTCGTTGACCCTCCTTTACCTCCACAATCAGTACATGATTTTA
TGCAACTACTAGTTTTAGCACCTGTTGCGCCGCAATCATTACATGTTTCAAGATAGGATACCAT
AATTTCACGCTCTCCTCCAAAAATAGATTCTTCAAAGTTCAAATGAAGTTCATACCTACAATAT
CATGAAATTCAAAGTTAGAAAATAAGAATTATTTACTCAAAAGTGAGTTGTTGCTCCAAATCAA
CACAAATAATAATATAACAATAATTAAAGTATAGCTTCTATCTCCTTTTTCAATCTAATATTTT
AAACATTAAGGTTATATTGAGAAATATACTTTTATATTACAATTTGTAATTTTAGTTTGCATTT
TATTAGCCATAAGGTTAAGTTTGACAGTTTGCTTTTTGGTGTCTAACATTTTTCATAAAGATCT
AAGTATATTATGTGATGGCCAGAAAAAATCGTCCAAGTAGACAGTTACCAAATGTCAAGATCGT
TGCTTCCATTATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGAACCC
ATCGGAACCACCAAAGAATGCATTATACACTTCGAATGGATCAAC
						
					

			
		

Sequences
Splice junction sequence	TATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGAACCCATCGGAACC ACCAAAGAATGCATTATACACTTCGAATGGATCAACcttttcttatcaacattgccttctccac gtattcgctttgtgaaaccatcagcaacaccagggggtatgattattctcatactccgttttac ttttactt
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: 497 Transcript exons: 33450895-33451070,33451970-33452165,33452479-33452603 CTTTTCTTATCAACATTGCCTTCTCCACGTATTCGCTTTGTGAAACCATCAGCAACACCAGGGG GTATGATTATTCTCATACTCCGTTTTACTTTTACTTTACAGCAGCCACTACATCTTCGACATTT GTCAGTGATTATCTTGCCCTTGCCACCACAGCTTGAGCAAGTAGAAACCTCTATTGCCACTCCA AATGGAGTCCTTTTGGATTTCGTTGACCCTCCTTTACCTCCACAATCAGTACATGATTTTATGC AACTACTAGTTTTAGCACCTGTTGCGCCGCAATCATTACATGTTTCAAGATAGGATACCATAAT TTCACGCTCTCCTCCAAAAATAGATTCTTCAAAGTTCAAATGAAGTTCATACCAAATGTCAAGA TCGTTGCTTCCATTATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGA ACCCATCGGAACCACCAAAGAATGCATTATACACTTCGAATGGATCAAC
Genomic sequence	CTTTTCTTATCAACATTGCCTTCTCCACGTATTCGCTTTGTGAAACCATCAGCAACACCAGGGG GTATGATTATTCTCATACTCCGTTTTACTTTTACTTTACAGCAGCCACTACATCTTCGACATTT GTCAGTGATTATCTTGCCCTTGCCACCACAGCTTGAGCAAGTAGAAACCTAGAAATATAACATA TTATCTATATAACATATGCTAAAGATAAGAACTGAATTCTAAAATTAAATAACAGGTCAGGTAA CAAAAAGTTAAAGTTAAACAATTGCTCTTGGGCTTACTACTTATAGTTTTGATTAATGACAGAA ATTGTGCAGCTTATCCTTTTAGCGATGCCCAGGGCGCAAGGTGCAATCTAGACATAGAACCATT ATATTGCCTAAGGTCTATATACATGTTCTTAGTGTCTAACTCTCATCCAAATTTTCAAAACTCG TAGAGTCAGCGCAATAGGATACAAGTATATTGTATGTTCAAAGCTAACGGGAAAAAAAATAATT GCAGAAAGAAAAAGGACTAGGAAATAATCAAATAATATTAATCTAAAAGATTCCTAAGAATCTG CTAATCTATCCCTACAATCACGTCTACAATCAAGTTATAGTTTGTAACAAAATCCAAGCACATA GCCACCAAAAAATGGCAGCTCTTTATTCTTTCCTTCGCCCTCCTCGTTCTTCTTTAAATTTTGC TTCCTTTTTGACTTGTTTTTGCATATCCTCTTTTTCTTTTCCTACTAAATCTAGCTATTTCCCA CAACATGGAGGTACAAAAGTTTATTCCATGCTTCCCATTTAATATGAGAATGCCAAGTTCAAAT GTAACACTTGAGTTTTGGTGCCCAATTAGCTCAACAAATAGCATGATTTAATCCTATTATTCAA TTTTTATATAAAGTATATAGATACTACGAATGCAGAACTATAATTCCTTCCATAAGTTGGCAAG AAAACTGAAAATAGAAAACAAAAATTTAGAAAACAACAATTTAGAAAAGAAAAATTGGAGAATA AACAACTATTGCATCATCAATCACTTTAATGTTGTCATGAGGATATAATACCTCTATTGCCACT CCAAATGGAGTCCTTTTGGATTTCGTTGACCCTCCTTTACCTCCACAATCAGTACATGATTTTA TGCAACTACTAGTTTTAGCACCTGTTGCGCCGCAATCATTACATGTTTCAAGATAGGATACCAT AATTTCACGCTCTCCTCCAAAAATAGATTCTTCAAAGTTCAAATGAAGTTCATACCTACAATAT CATGAAATTCAAAGTTAGAAAATAAGAATTATTTACTCAAAAGTGAGTTGTTGCTCCAAATCAA CACAAATAATAATATAACAATAATTAAAGTATAGCTTCTATCTCCTTTTTCAATCTAATATTTT AAACATTAAGGTTATATTGAGAAATATACTTTTATATTACAATTTGTAATTTTAGTTTGCATTT TATTAGCCATAAGGTTAAGTTTGACAGTTTGCTTTTTGGTGTCTAACATTTTTCATAAAGATCT AAGTATATTATGTGATGGCCAGAAAAAATCGTCCAAGTAGACAGTTACCAAATGTCAAGATCGT TGCTTCCATTATTTCTCAAATTGAAGTTAAAGCCTCCTGGTTCACCCATTCCACCGAAGAACCC ATCGGAACCACCAAAGAATGCATTATACACTTCGAATGGATCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.430959665

Conservation Information
Conserved circRNAs	NA
PMCS	0.430959665

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							33452544-33452512(-)
33452482-33450934(+)
33452576-33451055(+)
33452153-33452099(+)
						
						Potential amino acid sequence
						
							MGEPGGFNFNLRNNGSNDLDIWYELHLNFEESIFGGEREIMVSYLETCNDCGATGAKTSSCIKS
CTDCGGKGGSTKSKRTPFGVAIEVSTCSSCGGKGKIITDKCRRCSGCCKVKVKRSMRIIIPPGV
ADGFTKRIRGEGNVDKKRLIHSKCIMHSLVVPMGSSVEWVNQEALTSI*(-)
MSRSLLPLFLKLKLKPPGSPIPPKNPSEPPKNALYTSNGSTFSYQHCLLHVFAL*(+)
MHYTLRMDQPFLINIAFSTYSLCETISNTRGYDYSHTPFYFYFTAATTSSTFVSDYLALATTA*
(+)
MKFIPNVKIVASIISQIEVKASWFTHSTEEPIGTTKECIIHFEWINLFLSTLPSPRIRFVKPSA
TPGGMIILILRFTFTLQQPLHLRHLSVIILPLPPQLEQVETSIATPNGVLLDFVDPPLPPQSVH
DFMQLLVLAPVAPQSLHVSR*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	33452544-33452512(-) 33452482-33450934(+) 33452576-33451055(+) 33452153-33452099(+)
Potential amino acid sequence	MGEPGGFNFNLRNNGSNDLDIWYELHLNFEESIFGGEREIMVSYLETCNDCGATGAKTSSCIKS CTDCGGKGGSTKSKRTPFGVAIEVSTCSSCGGKGKIITDKCRRCSGCCKVKVKRSMRIIIPPGV ADGFTKRIRGEGNVDKKRLIHSKCIMHSLVVPMGSSVEWVNQEALTSI(-) MSRSLLPLFLKLKLKPPGSPIPPKNPSEPPKNALYTSNGSTFSYQHCLLHVFAL(+) MHYTLRMDQPFLINIAFSTYSLCETISNTRGYDYSHTPFYFYFTAATTSSTFVSDYLALATTA* (+) MKFIPNVKIVASIISQIEVKASWFTHSTEEPIGTTKECIIHFEWINLFLSTLPSPRIRFVKPSA TPGGMIILILRFTFTLQQPLHLRHLSVIILPLPPQLEQVETSIATPNGVLLDFVDPPLPPQSVH DFMQLLVLAPVAPQSLHVSR*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.005G133300_circ_g.1

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