Plant Circular RNA Database

Detail information of orai.009G316000_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G316000_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001005
					
						Alias
						Chr09:29804639|29808294
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 29804639-29808294  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G316000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						Tissues
						ovule
					
						Exon boundary  
						
							No-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.009G316000.1:9

General Information
CircRNA Name	orai.009G316000_circ_g.1
ID in PlantcircBase	gra_circ_001005
Alias	Chr09:29804639\|29808294
Organism	Gossypium raimondii
Position	chrChr09: 29804639-29808294 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G316000
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	4
Tissues	ovule
Exon boundary	No-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.009G316000.1:9

			
						 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  
						
							GTCTTTTACCCCATACCATATAACTCCATTAAAGCAAGTGCAGTCCTAAAAAGCATGACACGAT
TTCCTTCATATAGGAGCACATCCCAGACTCGAAGCActgtaattctctcattccttatcttgaa
cttcgacgctattcgtttccttgccatgaacttcgacgctattcgtttccttgccatgaacttc
aacactgt

									
								

					

						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
						
							CTGTAATTCTCTCATTCCTTATCTTGAACTTCGACGCTATTCGTTTCCTTGCCATGAACTTCGA
CGCTATTCGTTTCCTTGCCATGAACTTCAACACTGTTTGTTTCCTTGCCATTTGTTTCCTTAGC
GATTGTGTCTTTTTGCTGGATTTCGGTATTCTGATCTGCGTTTGGGAGCTTTCCGTCCTGCAAC
GAATCTGGACTCGGCTGTCCCTGTTTTGTTTGATATTGTTAAGTCATCCCAACATTTTAAACAA
GCAAAGCAGTCATCTGATCATCCCACAACTTCTAAGAAAGTAAATCTATGAAAACAAACCTTGT
TTCTGTCACGCCAGCCAAGTCCAAATGGTCGGGCAAGTAAGCTAATCTTACGGGCAGGGATTTC
TTGTTGAGGCTCTTGATTGCTTCGTGCTGGTGAATCTGGATGCGGCGATCTGCAATCTTATTTT
TATTAGAAGGGAGAAACCAATCCAGAAGCATGATGAGCAAAACGAAAATAGAAGCTCATAACAG
CATAACATCTTTGCATTGGGCGTAGCTTTAGAATGGTATTGCAAGAAATAGAAAGAATAAAATC
AGAGAAAAACAATGTATTGCTTTGCCGCCAAATCTTTGCCTCCTGACATACATAAGACATCTGG
CACACTGACTAAAAAGTTCTCATGCAAGCATAAAAGACTTGAAATTGGCAAAAGGTCGATTACA
CACCGTGGAGAAGATAGGGCTTTAATTTGTCCAGACTGGTACTGTAAGGTAGCCTCCAACATCG
ATTCTGCCATTACCACTCTTTTCTCCATTTCAGCAAGTGAAGCAATGGCCTCTTCATACTTTTC
CTGCATTAACATAAAAGTTAAACCCACAAATGGCAATGAAAAGATATAAGAACTCAAAATCCCC
CCCACACCCCCAGAAAGGTATTGTGAGGGGCAGAATTTTATGCAGAAATGGAAAAGAGCATTTT
CTTAACCAATTTTCTAGTTAGAGTACTTCAATAAACATTGTTATGAACGTGTCTCAGTGCTTGG
TTAGTGACAGCTTGACAGGTGCCTAAATTTCTTTTCCTAGTTTGCAACTATATTGCATAGTTGG
TCTGACTCTTCATTTTTTTTTTTTTTAAAGTACTTGTATCAGACATCCATGTTCAATGCATTTT
TGGACATGGATATGGAGACATGATCCTATAAGGACCCTCCAAATACATAGAAAAAATAGGAATA
CTTGTGTCAAATAAGTACCCTTATCCAACACTCACACCCAAGTCAAAGTAACAAAGGCTTACAG
CAATAAGTGATTAGACCTATAGTTTTTAAACCATTATCATTAATTCAATGATTTCCACTCAAGA
ACAAAAGGAAATATTTACTGATGAAAGTTTCATGGCAAAACAAGAGCTTTGAGCACGATGAGTA
CCTGAAGCACTTGAGCAGTATGTCTTTGTGCAGCGGCATCTTGTTCGGCATATCTACGAGCATC
TTCAGTTACCCTTTGTTCTTGCTCCACTCGCATTAGGACCTGTGAAATATGTAATGCATCTTCT
AATTATCAAGATTTATATTAAGATAAGACAATCTTCCACTAATTGAACATGAGGAAAACAAATC
AAACCTGAAGCATTGCATTTTCTTGTTCTTGCTTCTCAGAAAGTGCTTTACGAAGCTCAGCAAC
TTCTTGCTCTAATTGCTCCACCTAAACATCAGAAGCAGATTCTTAGTACACATCAAGAATCCCA
GCATACAGCTCAATTAAGGAACACAAAGTGCCAGGTAAAAGCAAGCAAATAAGTTGCATGGAGA
TGACTTGTAGTTTTACAATAGTGCTAAGAAAAAGCTAGAAAATCAAATGAAAAATCTGGGAAAA
AAAAATGCAGGAACAACAATGATAAATATTCATGTCAAAGGAGCTGCCACTAGTAAAGATATTC
CAATTTACCCTAGCACTTAATTGCCGCCGGTTATCGTGCTTAACCATTTCCATCAAAGCAGTCT
CCAGCTCTTCAGATCTGATACAAATGAGGAAGAATCAAGATTGTCACTGTAACGTTCATAAGGG
GGTTATTTTGGCATAAGAAAAAGGGATTACTTTAAAACTATTAACCAACAATTTCCAGAATAAA
TTGCAAATATTACGTTGTTAGATATATCCAATTTGTAAACCATTGAAATGTGGCTAGGATATGT
CCATGTATAAAACAGGTGAAGAACAAGTGAGTAAACAGATTTGCAACCAACAACATAAATTGCA
CTGCCTCTATTAAACAGTCTATAGCAAGGTGAGGGTAGCAAAACTTGAAAACCATCAAGATGAT
ATAAATTATTAACCTGAGGACAGCTGATCTTTTCTCTTCCAGCAACCTGCATAATTCAACCTTT
AGCCATACAACCTGCACATGATTGTTTACAAGACATTAGGATTATGGGAACAACATAAAACAAG
CTAACAAAATCCCATGCATGAACACAAGACATGAAAAGAATACGTTTGAGTATGATCTTCCAAA
TTTCAACTTGCCAGTGCCTATAAATCCACAAGATAAATAGATTTTCGTTATTGAAAGTTTATGA
AACATGGCAAAATAATAGTTCTGATATGAACTTCAAGATCAATTTGAAATTAGGTCCTATAAGA
CTCTAAAAATTAGATGCTAAAAAGAGAGCTCATGCCATGATCTAACATATGCATGCAGTCTTGT
CAATAAAGAATTATTCAACTAACAAAGCACACATTTCAACCAAATGTGATTGGTAATAAATCCT
TCTGAAGCTCCTTTTTAGGCAATATCTTGTGTTAAATCCTGTACCATTATATGTATTGTAGGCC
CTAATATATGGAATTAGAAAAAAACTCTCCTAAAATCAGAATACATCAGATTATTCAAAATATA
AATATATTTCTGATTTACTATGAAAATATGTAAGTGGTCGTGCAAATGGGTATATTCTACTGGA
TAAGGTAACAAGATCATCCACACACAGACAAAATGCAACATTGAATAATGAATTGTTCTTGAAA
AGTGAAATGCAAATTGACACCTGCTCTTGAAGATCTGGAACTGCATCTAGCTCAGCATCCCCAT
TCAGACTGATAAGAACTTTGTCCTCATTCCCGGACCCAGACTCGGAACAAGAGCGATCCACATT
TTTTTGTGAATCAACAAGCTGCACTGTCTTATTTGTTTCAGTAAGCACTGATTTAGGGTCATGC
TTAAAATTATATAGCTTAGTTGCCAGGCCCTGACAATCCTTCCAATCTTGAAGCCCCTTTGATC
TTTCCTCAACTGCAGTTATTACAGCTGAGCGGTGCTTCTCTCTCAACTCCTGTAATCTTTTTTC
ATTGACATTTTGGTAACCCATACAAGCTGTCAATACAAGTTGACTGCTGTCGAATGTTGAACCA
GCCAATGACTGTAGTAAAGTAACTGCATCTCCCGCATCCTTACTTGTAACTAGTGCAGGGCCTA
TAAGAAAATTAAGTTGCATTTTGTAGATTAAAGCAGCTCATTTGTCACTACTTCCACACTTCCT
CTTCCCTAATAATATAAAAAAATTCAGAATGCTCGTGTCTTTTACCCCATACCATATAACTCCA
TTAAAGCAAGTGCAGTCCTAAAAAGCATGACACGATTTCCTTCATATAGGAGCACATCCCAGAC
TCGAAGCA
						
					

			
		

Sequences
Splice junction sequence	GTCTTTTACCCCATACCATATAACTCCATTAAAGCAAGTGCAGTCCTAAAAAGCATGACACGAT TTCCTTCATATAGGAGCACATCCCAGACTCGAAGCActgtaattctctcattccttatcttgaa cttcgacgctattcgtttccttgccatgaacttcgacgctattcgtttccttgccatgaacttc aacactgt
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	CTGTAATTCTCTCATTCCTTATCTTGAACTTCGACGCTATTCGTTTCCTTGCCATGAACTTCGA CGCTATTCGTTTCCTTGCCATGAACTTCAACACTGTTTGTTTCCTTGCCATTTGTTTCCTTAGC GATTGTGTCTTTTTGCTGGATTTCGGTATTCTGATCTGCGTTTGGGAGCTTTCCGTCCTGCAAC GAATCTGGACTCGGCTGTCCCTGTTTTGTTTGATATTGTTAAGTCATCCCAACATTTTAAACAA GCAAAGCAGTCATCTGATCATCCCACAACTTCTAAGAAAGTAAATCTATGAAAACAAACCTTGT TTCTGTCACGCCAGCCAAGTCCAAATGGTCGGGCAAGTAAGCTAATCTTACGGGCAGGGATTTC TTGTTGAGGCTCTTGATTGCTTCGTGCTGGTGAATCTGGATGCGGCGATCTGCAATCTTATTTT TATTAGAAGGGAGAAACCAATCCAGAAGCATGATGAGCAAAACGAAAATAGAAGCTCATAACAG CATAACATCTTTGCATTGGGCGTAGCTTTAGAATGGTATTGCAAGAAATAGAAAGAATAAAATC AGAGAAAAACAATGTATTGCTTTGCCGCCAAATCTTTGCCTCCTGACATACATAAGACATCTGG CACACTGACTAAAAAGTTCTCATGCAAGCATAAAAGACTTGAAATTGGCAAAAGGTCGATTACA CACCGTGGAGAAGATAGGGCTTTAATTTGTCCAGACTGGTACTGTAAGGTAGCCTCCAACATCG ATTCTGCCATTACCACTCTTTTCTCCATTTCAGCAAGTGAAGCAATGGCCTCTTCATACTTTTC CTGCATTAACATAAAAGTTAAACCCACAAATGGCAATGAAAAGATATAAGAACTCAAAATCCCC CCCACACCCCCAGAAAGGTATTGTGAGGGGCAGAATTTTATGCAGAAATGGAAAAGAGCATTTT CTTAACCAATTTTCTAGTTAGAGTACTTCAATAAACATTGTTATGAACGTGTCTCAGTGCTTGG TTAGTGACAGCTTGACAGGTGCCTAAATTTCTTTTCCTAGTTTGCAACTATATTGCATAGTTGG TCTGACTCTTCATTTTTTTTTTTTTTAAAGTACTTGTATCAGACATCCATGTTCAATGCATTTT TGGACATGGATATGGAGACATGATCCTATAAGGACCCTCCAAATACATAGAAAAAATAGGAATA CTTGTGTCAAATAAGTACCCTTATCCAACACTCACACCCAAGTCAAAGTAACAAAGGCTTACAG CAATAAGTGATTAGACCTATAGTTTTTAAACCATTATCATTAATTCAATGATTTCCACTCAAGA ACAAAAGGAAATATTTACTGATGAAAGTTTCATGGCAAAACAAGAGCTTTGAGCACGATGAGTA CCTGAAGCACTTGAGCAGTATGTCTTTGTGCAGCGGCATCTTGTTCGGCATATCTACGAGCATC TTCAGTTACCCTTTGTTCTTGCTCCACTCGCATTAGGACCTGTGAAATATGTAATGCATCTTCT AATTATCAAGATTTATATTAAGATAAGACAATCTTCCACTAATTGAACATGAGGAAAACAAATC AAACCTGAAGCATTGCATTTTCTTGTTCTTGCTTCTCAGAAAGTGCTTTACGAAGCTCAGCAAC TTCTTGCTCTAATTGCTCCACCTAAACATCAGAAGCAGATTCTTAGTACACATCAAGAATCCCA GCATACAGCTCAATTAAGGAACACAAAGTGCCAGGTAAAAGCAAGCAAATAAGTTGCATGGAGA TGACTTGTAGTTTTACAATAGTGCTAAGAAAAAGCTAGAAAATCAAATGAAAAATCTGGGAAAA AAAAATGCAGGAACAACAATGATAAATATTCATGTCAAAGGAGCTGCCACTAGTAAAGATATTC CAATTTACCCTAGCACTTAATTGCCGCCGGTTATCGTGCTTAACCATTTCCATCAAAGCAGTCT CCAGCTCTTCAGATCTGATACAAATGAGGAAGAATCAAGATTGTCACTGTAACGTTCATAAGGG GGTTATTTTGGCATAAGAAAAAGGGATTACTTTAAAACTATTAACCAACAATTTCCAGAATAAA TTGCAAATATTACGTTGTTAGATATATCCAATTTGTAAACCATTGAAATGTGGCTAGGATATGT CCATGTATAAAACAGGTGAAGAACAAGTGAGTAAACAGATTTGCAACCAACAACATAAATTGCA CTGCCTCTATTAAACAGTCTATAGCAAGGTGAGGGTAGCAAAACTTGAAAACCATCAAGATGAT ATAAATTATTAACCTGAGGACAGCTGATCTTTTCTCTTCCAGCAACCTGCATAATTCAACCTTT AGCCATACAACCTGCACATGATTGTTTACAAGACATTAGGATTATGGGAACAACATAAAACAAG CTAACAAAATCCCATGCATGAACACAAGACATGAAAAGAATACGTTTGAGTATGATCTTCCAAA TTTCAACTTGCCAGTGCCTATAAATCCACAAGATAAATAGATTTTCGTTATTGAAAGTTTATGA AACATGGCAAAATAATAGTTCTGATATGAACTTCAAGATCAATTTGAAATTAGGTCCTATAAGA CTCTAAAAATTAGATGCTAAAAAGAGAGCTCATGCCATGATCTAACATATGCATGCAGTCTTGT CAATAAAGAATTATTCAACTAACAAAGCACACATTTCAACCAAATGTGATTGGTAATAAATCCT TCTGAAGCTCCTTTTTAGGCAATATCTTGTGTTAAATCCTGTACCATTATATGTATTGTAGGCC CTAATATATGGAATTAGAAAAAAACTCTCCTAAAATCAGAATACATCAGATTATTCAAAATATA AATATATTTCTGATTTACTATGAAAATATGTAAGTGGTCGTGCAAATGGGTATATTCTACTGGA TAAGGTAACAAGATCATCCACACACAGACAAAATGCAACATTGAATAATGAATTGTTCTTGAAA AGTGAAATGCAAATTGACACCTGCTCTTGAAGATCTGGAACTGCATCTAGCTCAGCATCCCCAT TCAGACTGATAAGAACTTTGTCCTCATTCCCGGACCCAGACTCGGAACAAGAGCGATCCACATT TTTTTGTGAATCAACAAGCTGCACTGTCTTATTTGTTTCAGTAAGCACTGATTTAGGGTCATGC TTAAAATTATATAGCTTAGTTGCCAGGCCCTGACAATCCTTCCAATCTTGAAGCCCCTTTGATC TTTCCTCAACTGCAGTTATTACAGCTGAGCGGTGCTTCTCTCTCAACTCCTGTAATCTTTTTTC ATTGACATTTTGGTAACCCATACAAGCTGTCAATACAAGTTGACTGCTGTCGAATGTTGAACCA GCCAATGACTGTAGTAAAGTAACTGCATCTCCCGCATCCTTACTTGTAACTAGTGCAGGGCCTA TAAGAAAATTAAGTTGCATTTTGTAGATTAAAGCAGCTCATTTGTCACTACTTCCACACTTCCT CTTCCCTAATAATATAAAAAAATTCAGAATGCTCGTGTCTTTTACCCCATACCATATAACTCCA TTAAAGCAAGTGCAGTCCTAAAAAGCATGACACGATTTCCTTCATATAGGAGCACATCCCAGAC TCGAAGCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000289* 						
					
						PMCS
						0.531396205

Conservation Information
Conserved circRNAs	ghi_circ_000289*
PMCS	0.531396205

			
						 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.009G316000_circ_g.1

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