Plant Circular RNA Database

Detail information of orai.002G055400_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G055400_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000124
					
						Alias
						Chr02:5004970|5007822
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 5004970-5007822  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G055400						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						10
					
						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  
						
							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.002G055400.4:9
Gorai.002G055400.3:10
Gorai.002G055400.5:7
Gorai.002G055400.1:12
Gorai.002G055400.6:7
Gorai.002G055400.2:12

General Information
CircRNA Name	orai.002G055400_circ_g.1
ID in PlantcircBase	gra_circ_000124
Alias	Chr02:5004970\|5007822
Organism	Gossypium raimondii
Position	chrChr02: 5004970-5007822 JBrowse»
Reference genome	Graimondii_221
Type	u-circRNA
Identification method	CIRI
Parent gene	Gorai.002G055400
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	10
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	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.002G055400.4:9 Gorai.002G055400.3:10 Gorai.002G055400.5:7 Gorai.002G055400.1:12 Gorai.002G055400.6:7 Gorai.002G055400.2:12

			
						 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  
						
							ATCCCCACGAGACTCAGGATGCTTGGATTGCTCGTTCAACACGAAACGTGTTATTGTCATCAAA
TCAGTCCTATGAGCATCTGCTGCATGATCCATCTCTatttattcctttttcccttcagcagcat
agagtgctttgatatcttcaacatcatcaaagctgccaagaaatattggagatctctcatgtat
ctttgttg

									
								

					

						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
						
							ATTTATTCCTTTTTCCCTTCAGCAGCATAGAGTGCTTTGATATCTTCAACATCATCAAAGCTGC
CAAGAAATATTGGAGATCTCTCATGTATCTTTGTTGGCACCAAGTCAAGTGCCTGCAAGCAAGA
ACATAATCAAGTAACTATGAGCACAAAAACATCATCTCATACAATCGTTGAAAATGTTTTAGTT
TAAATACCCGTTGTTTTCCGGTGAAGGCCTGACCTCCGGCTTGTTCCATCAGGAACGACATTGG
AAAGACCTCGTACAGAACACTGTTTCACACACATTGCTCAAATTTAGTAATGAGTCCGCAAGTA
AAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAGTGCTATATCCGTA
ATTGCATTTAATATACCGTAGTTTTCCACTGGGGCTCTTCTTATCTGCAGGGTACAAAAAGATA
CCCCCGTAGAGTAATGTACGATGGACATCAGCTACCATGCTGTTTCATCACAAAACCAGAGTCC
ATGTTAAAGAAACAAATCTAGGACTAATACCAAACATACATATGTAGATGTGAGAATTAATATA
GTCACTGTTGATGAATACTTGCCCAAAAACAATGCACTATCCTAGTAACCTAATGAAAAACATA
CAAGTGCTCCGAAAAAGAGAGTAATTCAATTACAGGTTCATAAGGTCAGAATTGTTCAAACTTC
AAAGTATTCAATGATAACCGGAAATAAAACAGGCAGTAAGGATAGAATCCGTGATACCTTCCAA
TGTATCTCAGAGACTTTGAAGAAGAACCATCCTTGGGAAACTTGCACTTTTCCACATACCTGAA
GTTAAAAAGAAAAAGAAACTGAGACAACTGCAGAGAAAAATAAGACATTTCTGAACTGAATTAA
GACATACTTGGCCGTTGGACCATCCCAGTTCTTAGCATTTCCTTCATTAACTGAATAGATCTTC
CCTTTCTTTGGAATCTTTGAAAAAGACATGATAAATCAAAGCTTGTAAGTTGTCTCAAACAAAT
CAGAGTCGTTATACAGAGACAAAATCCGGACCTTATAAAGTAACACAACTAAAAATGGAACATA
TTAACCATTTTGATCATGTTTTCTGTAAATCATGAATGGTTTAAGAAACTACAGAATTTCTTGT
AATTATAATTTATAATTTCGTAAACCAGAAGCAAACAAAGCTAGAGTCGTCATATTCAGTCCTC
AGGTGAAAGAAGCAAATCGAGTAAATAGCTAATCACGTGATTATTCCAATATTTACATAATGAT
TATACCTTTATACCTGGGTGAGTTAGTATGAACTCTCCAAGAGATGGATCAAGGGTGAATCCGT
TAACTCCTTCTCCGGTGCTCAAAACAAGCTGAAAAATCATTATTACAAGTGCAAGGCATAGTAC
ATAAGCAATCAATCACATTATAATTTGAAATAGGTCAACAAATATGCAAATAGAAATGAAATTC
CTTTTTAACAGAAATGTAATTTTATCATTACCCCAGTTCCCAACTCTCTTTGCATGAGAAAAGA
AAGTAAAAAGTAATGAAAAAGGAAAAGAATTAAAAGGGACAAACTAAATGAAAGGGAAATTTTA
ATTATCCCCAAAGAAAAACAAAGAGAAAACATAAGTTCATAGCAAAAGCTAGACATATATAAAC
AAGTAAACATTTTACCGTGCAAGAGCTTCCATACATGCAATAGCCAGCTGCCAGCATTTGCTTA
CCAGGTTGCAGTACATCATCTAGAGTTGGTTCATGGTTATCTTTCATCATGTAAATCCCAAAAA
TCTAGATGAAAGAGAACACATTAAGTTGACCACTGCAATATCAAGTTATCTTAGAACAATAATT
ATCCCCATGAAAACAAAGTATGGCATTGCATTTCTGGGTTTGGGATGAGGAGCCATACTGTTCC
AATGGAAACTCCACAGTCAATGTTGGAGGAACCATCTAGAGGATCAAAAACAACACAGTACCTG
CGTTACTTAAGATAAATTCAAATCAAATATACACGAGGAAGAATCTTATATAGACACATTTAAT
ACATCTAAATATAATGGAAGTAACATAATGAAGAACAACTAAAAGCACCTCCCACGCTTTGAGG
GATCTACAAAAGTCGCCTCTTCATCTTCTTCTGAGACAAGGATGCACTGGTATAACATACAAAT
ATGTTAAGAGAAAATCATAACATCTCCAACGCTTACTAAAAAGTCATCCAACTACTCACTGTTC
TGCCACTGCTTACTAAAGCCTTGACAAAGACTTCATTTGAAAGCACATCCAATTTCTTTTGTTC
TTCACCCTTTAGTCATAATAGATAACGTACTTAGTATGAAATATTAATACCATAAAAGAGAAGC
AAATTCCATATCTGGCATTTGGCAACTACTTGCCTGAACATTAGTCTCCCCAGCGAGTCCGATG
AGTTTGGCTAGACCAGCCTGCACCAGTAAACGGCAAATACATTAAAATCACCAATAAGAAAACG
ACCGATAATAAAATAAATTTATAGTTGAGACTGAAAATAGAGACTAACTATCCCAATAGCATAA
TCTGATAGAAAAAATATGACCCAACTTTTACTTGTTTAAACAGAACATGACCCAGAGCTTACTT
GGGAAAAGAAATCAAAGGAGAAAAGGTTCAAAGAAAACCACATTAAGAAGAATATATAAAAGAG
ACCTTGTTAACAGCAGAGCAAACAAACTTGCAACCAAGAACGATGTGATTAAGCAAGATGGTGA
AATCCCCACGAGACTCAGGATGCTTGGATTGCTCGTTCAACACGAAACGTGTTATTGTCATCAA
ATCAGTCCTATGAGCATCTGCTGCATGATCCATCTCT
						
					

			
		

Sequences
Splice junction sequence	ATCCCCACGAGACTCAGGATGCTTGGATTGCTCGTTCAACACGAAACGTGTTATTGTCATCAAA TCAGTCCTATGAGCATCTGCTGCATGATCCATCTCTatttattcctttttcccttcagcagcat agagtgctttgatatcttcaacatcatcaaagctgccaagaaatattggagatctctcatgtat ctttgttg
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	ATTTATTCCTTTTTCCCTTCAGCAGCATAGAGTGCTTTGATATCTTCAACATCATCAAAGCTGC CAAGAAATATTGGAGATCTCTCATGTATCTTTGTTGGCACCAAGTCAAGTGCCTGCAAGCAAGA ACATAATCAAGTAACTATGAGCACAAAAACATCATCTCATACAATCGTTGAAAATGTTTTAGTT TAAATACCCGTTGTTTTCCGGTGAAGGCCTGACCTCCGGCTTGTTCCATCAGGAACGACATTGG AAAGACCTCGTACAGAACACTGTTTCACACACATTGCTCAAATTTAGTAATGAGTCCGCAAGTA AAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAGTGCTATATCCGTA ATTGCATTTAATATACCGTAGTTTTCCACTGGGGCTCTTCTTATCTGCAGGGTACAAAAAGATA CCCCCGTAGAGTAATGTACGATGGACATCAGCTACCATGCTGTTTCATCACAAAACCAGAGTCC ATGTTAAAGAAACAAATCTAGGACTAATACCAAACATACATATGTAGATGTGAGAATTAATATA GTCACTGTTGATGAATACTTGCCCAAAAACAATGCACTATCCTAGTAACCTAATGAAAAACATA CAAGTGCTCCGAAAAAGAGAGTAATTCAATTACAGGTTCATAAGGTCAGAATTGTTCAAACTTC AAAGTATTCAATGATAACCGGAAATAAAACAGGCAGTAAGGATAGAATCCGTGATACCTTCCAA TGTATCTCAGAGACTTTGAAGAAGAACCATCCTTGGGAAACTTGCACTTTTCCACATACCTGAA GTTAAAAAGAAAAAGAAACTGAGACAACTGCAGAGAAAAATAAGACATTTCTGAACTGAATTAA GACATACTTGGCCGTTGGACCATCCCAGTTCTTAGCATTTCCTTCATTAACTGAATAGATCTTC CCTTTCTTTGGAATCTTTGAAAAAGACATGATAAATCAAAGCTTGTAAGTTGTCTCAAACAAAT CAGAGTCGTTATACAGAGACAAAATCCGGACCTTATAAAGTAACACAACTAAAAATGGAACATA TTAACCATTTTGATCATGTTTTCTGTAAATCATGAATGGTTTAAGAAACTACAGAATTTCTTGT AATTATAATTTATAATTTCGTAAACCAGAAGCAAACAAAGCTAGAGTCGTCATATTCAGTCCTC AGGTGAAAGAAGCAAATCGAGTAAATAGCTAATCACGTGATTATTCCAATATTTACATAATGAT TATACCTTTATACCTGGGTGAGTTAGTATGAACTCTCCAAGAGATGGATCAAGGGTGAATCCGT TAACTCCTTCTCCGGTGCTCAAAACAAGCTGAAAAATCATTATTACAAGTGCAAGGCATAGTAC ATAAGCAATCAATCACATTATAATTTGAAATAGGTCAACAAATATGCAAATAGAAATGAAATTC CTTTTTAACAGAAATGTAATTTTATCATTACCCCAGTTCCCAACTCTCTTTGCATGAGAAAAGA AAGTAAAAAGTAATGAAAAAGGAAAAGAATTAAAAGGGACAAACTAAATGAAAGGGAAATTTTA ATTATCCCCAAAGAAAAACAAAGAGAAAACATAAGTTCATAGCAAAAGCTAGACATATATAAAC AAGTAAACATTTTACCGTGCAAGAGCTTCCATACATGCAATAGCCAGCTGCCAGCATTTGCTTA CCAGGTTGCAGTACATCATCTAGAGTTGGTTCATGGTTATCTTTCATCATGTAAATCCCAAAAA TCTAGATGAAAGAGAACACATTAAGTTGACCACTGCAATATCAAGTTATCTTAGAACAATAATT ATCCCCATGAAAACAAAGTATGGCATTGCATTTCTGGGTTTGGGATGAGGAGCCATACTGTTCC AATGGAAACTCCACAGTCAATGTTGGAGGAACCATCTAGAGGATCAAAAACAACACAGTACCTG CGTTACTTAAGATAAATTCAAATCAAATATACACGAGGAAGAATCTTATATAGACACATTTAAT ACATCTAAATATAATGGAAGTAACATAATGAAGAACAACTAAAAGCACCTCCCACGCTTTGAGG GATCTACAAAAGTCGCCTCTTCATCTTCTTCTGAGACAAGGATGCACTGGTATAACATACAAAT ATGTTAAGAGAAAATCATAACATCTCCAACGCTTACTAAAAAGTCATCCAACTACTCACTGTTC TGCCACTGCTTACTAAAGCCTTGACAAAGACTTCATTTGAAAGCACATCCAATTTCTTTTGTTC TTCACCCTTTAGTCATAATAGATAACGTACTTAGTATGAAATATTAATACCATAAAAGAGAAGC AAATTCCATATCTGGCATTTGGCAACTACTTGCCTGAACATTAGTCTCCCCAGCGAGTCCGATG AGTTTGGCTAGACCAGCCTGCACCAGTAAACGGCAAATACATTAAAATCACCAATAAGAAAACG ACCGATAATAAAATAAATTTATAGTTGAGACTGAAAATAGAGACTAACTATCCCAATAGCATAA TCTGATAGAAAAAATATGACCCAACTTTTACTTGTTTAAACAGAACATGACCCAGAGCTTACTT GGGAAAAGAAATCAAAGGAGAAAAGGTTCAAAGAAAACCACATTAAGAAGAATATATAAAAGAG ACCTTGTTAACAGCAGAGCAAACAAACTTGCAACCAAGAACGATGTGATTAAGCAAGATGGTGA AATCCCCACGAGACTCAGGATGCTTGGATTGCTCGTTCAACACGAAACGTGTTATTGTCATCAA ATCAGTCCTATGAGCATCTGCTGCATGATCCATCTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.53445663

Conservation Information
Conserved circRNAs	NA
PMCS	0.53445663

			
						 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.002G055400_circ_g.1

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