Plant Circular RNA Database

Detail information of orai.003G003000_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.003G003000_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000223
					
						Alias
						Chr03:176941|178953
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr03: 176941-178953  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.003G003000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						Exon boundary  
						
							No-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  
						
							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.003G003000.1:9
Gorai.003G003000.2:9

General Information
CircRNA Name	orai.003G003000_circ_g.1
ID in PlantcircBase	gra_circ_000223
Alias	Chr03:176941\|178953
Organism	Gossypium raimondii
Position	chrChr03: 176941-178953 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.003G003000
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	leaf
Exon boundary	No-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	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.003G003000.1:9 Gorai.003G003000.2:9

			
						 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  
						
							GTTATTGAGGATGTTTTCTTTTTTGCAGAGAATGTTCAAGATTTATGGTTGGTTTCCATGAAAA
AGCAGCAACGGGGAAACTAACAGGGGTACATAGAAAacacacacgaaacaatcaacaatggaac
gtatatctgatgagaacaatcctaatctcaccaaacccacaaattttcaaggtattcttccttt
attccaaa

									
								

					

						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
						
							ACACACACGAAACAATCAACAATGGAACGTATATCTGATGAGAACAATCCTAATCTCACCAAAC
CCACAAATTTTCAAGGTATTCTTCCTTTATTCCAAAAATGGGTTTCAACTTTCAAATCTTTACA
CTTAAACCCCCATGATCTAACATGGTTGTGGTACAACAGGTTGCAGAAAATTTGGACAAGAGAT
CAAACACAACAGGAGAGCTTTAAGTGTGATTAATCACAACTTAGTAGGAGCTAAAGCATACCCT
TGTGTTGTTAATAAGAGAGGCTTATCACAGTATACATCTCTCAATCTCATTCACTTTGATTCAT
TTACATCTTTGATTGTTTCTCAATGATGAGTTTGTTTCTTCTTTTTTTCAGAAGAAATGAATGT
ATTGAAAACAAGCAGCTTGATCCTGTTCATAGACCTATTACCAGGTTAGAGTTTTTAAATTTTT
GAAAATTTTAAATTTTAATCCCCCTTTTTTTTTTTTTTTTTCACTTTTGCTTTCCAGCTTTGCT
TACCAAATGAGTAAAGCTACAAAAGGAAAGAAAGTTCAAATTTTGGATCTTAAAACTCAGTCAA
TTCAAAATACCATAACAAGTTTTTATTTTTTTATTTTTTGCTTCATTTTGACATTTCAGGAAGT
TTGCTGCTCAAATTTCCAGTACCAGTCAACGGCATTGCCCCGAGGTACCAGTCGAGTTTTTTTT
TTTTTTTAAGAGCATTGATTATTTTCTTACATACTGATGGCTTTTTGTCCTTCGTAGCAGGAAA
CTAAGAAGCTGAAACCATCAGTTCCAAGCTCAAATGAGTTTGGTGATTGTATATTCATAGATGT
GGAAGAAAACAAGACATCCTTAGACCAACCAGTACCGATGTTCTTAGAAGAAACAGAAGTGGAA
ATGGAAGATATTATAATTGAAGAACCAATTGTTGATATTGATGGTTGTGATACAAAGAATCCGT
TAGCAGTTGTTGAATATGTTGAAGATTTGCATGCTTATTACAAAAACATGGAGGTAACATAATA
CTAGAATGTATTAATACCCCTTTATTCATTGAGATTTTATTACTTACCATGAAACATGTTCTAA
AACCAGTTTCATTTGTAATGCAGAAATTTAGTTGTGTTTCACCTAATTACATGGACCAACAATC
TGATGTTAACGAGAAAATGAGGGCTATTTTGATTGACTGGCTTATTGAGGTAAATAGCAGAATT
GTTCCTTACTGAACCAATGCCATAAATGGTGAATAGTTGGTTTCTGGTTCATAATTGGGTTGTA
AAAATGAACAGGTGCACGACAAATTTGACCTCATGGGGGAGACATTATTTCTTACAGTTAATCT
CATAGACAGATTTTTGTCTCAACAAACAGTGATGAGAAAAAAGCTTCAACTGGTTGGATTAGTT
GCTATGCTCTTAGCATGCAAGTACGAGGAGGTTTCTGTTCCTATTGTAGGAGATTTAATCCTTA
TATCAGATAAAGCTTATTCTAGGAAAGAAGTTCTCGAAATGGTATGGTACTATATCCTTCTGTT
CTGCCATTTATGTTCAATGGAGCAGCTTTAATGGTTAACACACGTTATTACAGGAGAGATTAAT
GCTCAACACATTACAATTCAACATGTCTTTCCCAACACCATATGTTTTCATGAAGAGGTTCCTT
AAGGCAGCTCAATCCGACAAGAAGCTTGAACTTCTGTCTTTCTTTTTGATTGAACTTGCCTTAG
TGGAATATGAAATGCTTAAATTCCAACCATCACTACTAGCAGCTGCTGCAATCTACACTGCTCA
ATGCAGTCTAAATGGGTACAAACAATGGAGCAAGACATGCGAGTGGCATAGCAGCTACACAGAA
GATCAACTACTGTAAGTTGTTGCTTCACATCTTTTAATTTTCTGGCCAAACAAACAAGTTATTG
AGGATGTTTTCTTTTTTGCAGAGAATGTTCAAGATTTATGGTTGGTTTCCATGAAAAAGCAGCA
ACGGGGAAACTAACAGGGGTACATAGAAA
						
					

			
		

Sequences
Splice junction sequence	GTTATTGAGGATGTTTTCTTTTTTGCAGAGAATGTTCAAGATTTATGGTTGGTTTCCATGAAAA AGCAGCAACGGGGAAACTAACAGGGGTACATAGAAAacacacacgaaacaatcaacaatggaac gtatatctgatgagaacaatcctaatctcaccaaacccacaaattttcaaggtattcttccttt attccaaa
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	ACACACACGAAACAATCAACAATGGAACGTATATCTGATGAGAACAATCCTAATCTCACCAAAC CCACAAATTTTCAAGGTATTCTTCCTTTATTCCAAAAATGGGTTTCAACTTTCAAATCTTTACA CTTAAACCCCCATGATCTAACATGGTTGTGGTACAACAGGTTGCAGAAAATTTGGACAAGAGAT CAAACACAACAGGAGAGCTTTAAGTGTGATTAATCACAACTTAGTAGGAGCTAAAGCATACCCT TGTGTTGTTAATAAGAGAGGCTTATCACAGTATACATCTCTCAATCTCATTCACTTTGATTCAT TTACATCTTTGATTGTTTCTCAATGATGAGTTTGTTTCTTCTTTTTTTCAGAAGAAATGAATGT ATTGAAAACAAGCAGCTTGATCCTGTTCATAGACCTATTACCAGGTTAGAGTTTTTAAATTTTT GAAAATTTTAAATTTTAATCCCCCTTTTTTTTTTTTTTTTTCACTTTTGCTTTCCAGCTTTGCT TACCAAATGAGTAAAGCTACAAAAGGAAAGAAAGTTCAAATTTTGGATCTTAAAACTCAGTCAA TTCAAAATACCATAACAAGTTTTTATTTTTTTATTTTTTGCTTCATTTTGACATTTCAGGAAGT TTGCTGCTCAAATTTCCAGTACCAGTCAACGGCATTGCCCCGAGGTACCAGTCGAGTTTTTTTT TTTTTTTAAGAGCATTGATTATTTTCTTACATACTGATGGCTTTTTGTCCTTCGTAGCAGGAAA CTAAGAAGCTGAAACCATCAGTTCCAAGCTCAAATGAGTTTGGTGATTGTATATTCATAGATGT GGAAGAAAACAAGACATCCTTAGACCAACCAGTACCGATGTTCTTAGAAGAAACAGAAGTGGAA ATGGAAGATATTATAATTGAAGAACCAATTGTTGATATTGATGGTTGTGATACAAAGAATCCGT TAGCAGTTGTTGAATATGTTGAAGATTTGCATGCTTATTACAAAAACATGGAGGTAACATAATA CTAGAATGTATTAATACCCCTTTATTCATTGAGATTTTATTACTTACCATGAAACATGTTCTAA AACCAGTTTCATTTGTAATGCAGAAATTTAGTTGTGTTTCACCTAATTACATGGACCAACAATC TGATGTTAACGAGAAAATGAGGGCTATTTTGATTGACTGGCTTATTGAGGTAAATAGCAGAATT GTTCCTTACTGAACCAATGCCATAAATGGTGAATAGTTGGTTTCTGGTTCATAATTGGGTTGTA AAAATGAACAGGTGCACGACAAATTTGACCTCATGGGGGAGACATTATTTCTTACAGTTAATCT CATAGACAGATTTTTGTCTCAACAAACAGTGATGAGAAAAAAGCTTCAACTGGTTGGATTAGTT GCTATGCTCTTAGCATGCAAGTACGAGGAGGTTTCTGTTCCTATTGTAGGAGATTTAATCCTTA TATCAGATAAAGCTTATTCTAGGAAAGAAGTTCTCGAAATGGTATGGTACTATATCCTTCTGTT CTGCCATTTATGTTCAATGGAGCAGCTTTAATGGTTAACACACGTTATTACAGGAGAGATTAAT GCTCAACACATTACAATTCAACATGTCTTTCCCAACACCATATGTTTTCATGAAGAGGTTCCTT AAGGCAGCTCAATCCGACAAGAAGCTTGAACTTCTGTCTTTCTTTTTGATTGAACTTGCCTTAG TGGAATATGAAATGCTTAAATTCCAACCATCACTACTAGCAGCTGCTGCAATCTACACTGCTCA ATGCAGTCTAAATGGGTACAAACAATGGAGCAAGACATGCGAGTGGCATAGCAGCTACACAGAA GATCAACTACTGTAAGTTGTTGCTTCACATCTTTTAATTTTCTGGCCAAACAAACAAGTTATTG AGGATGTTTTCTTTTTTGCAGAGAATGTTCAAGATTTATGGTTGGTTTCCATGAAAAAGCAGCA ACGGGGAAACTAACAGGGGTACATAGAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.124576892

Conservation Information
Conserved circRNAs	NA
PMCS	0.124576892

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.003G003000_circ_g.1

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