Plant Circular RNA Database

Detail information of LOC18033993_circ_ag.1

			
						 General Information
					
						CircRNA Name
						LOC18033993_circ_ag.1
					
						ID in PlantcircBase
						ptr_circ_000481
					
						Alias
						circRNA483
					
						Organism
						
							Poncirus trifoliata						
					
						Position
						
							chrNW_006262022.1: 8222647-8226929  JBrowse»						
					
						Reference genome
						
							Citrus_clementina_v1.0						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							LOC18033993_circ_ag.2 						
					
						Support reads
						NA
					
						Tissues
						shoots
					
						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  
						
							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
						NA

General Information
CircRNA Name	LOC18033993_circ_ag.1
ID in PlantcircBase	ptr_circ_000481
Alias	circRNA483
Organism	Poncirus trifoliata
Position	chrNW_006262022.1: 8222647-8226929 JBrowse»
Reference genome	Citrus_clementina_v1.0
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	LOC18033993_circ_ag.2
Support reads	NA
Tissues	shoots
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	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	NA

			
						 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  
						
							TGGTGCCATTATTCTGGGAAAGGCTAGCTTGAGTGAGTGGGCTAATTTTAGATCCTCAAATGCA
CCCAATGGTTTCTGTGCTAGGGGTGGCCAGGGAAAGaatccatatgttctatcagcagatcctt
gtgggtcaagcagtggctcagcaatttcagtagctgcaaacttggctgccgtgtcactgggaac
tgaaacgg

									
								

					

						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
						
							AATCCATATGTTCTATCAGCAGATCCTTGTGGGTCAAGCAGTGGCTCAGCAATTTCAGTAGCTG
CAAACTTGGCTGCCGTGTCACTGGGAACTGAAACGGATGGTTCCATTCTATGTCCGTCCAGTTC
TAACTCAGTAGTGGGACTCAAACCAACCCTTGGTCTCACCAGCAGAGCCGGCGTTATCCCAATA
ACTCCTAGACAGGACTCCGTTGGGTGTGTGGAACCTTTGCCAATATGAACTGATGGCATTTAAC
ATTAATTGAAAAATAAAGGAACATTTTTTTTTTCCTCGCAGACCTATTTGCAGAACTGTAGCGG
ATGCTGCTTATGTTCTAGATGCCATTGCAGGATTTGATCATTACGATCCTGCAACAAGGGCAGC
ATCAGAGTACATTCCACGTGGTGGCTACAAACAGTTTCTTAGGCCTCATGGACTCAAAGGGAAG
AGATTGGGAATTGTGCGGAATCCATTCTTCAATTTTGACGAGGGCTCTCCACTGGCTCAAGTTT
TTGATCACCATCTGCACACACTCAGGTTGAATTATGCATAAAAGCATTTTTGTTATTCCAGCCT
ACTTTTGCAGTAAATTAAGTGACTAAACTAAAGACAAAATGAAATAAGCAAAAATGCAGCAAAA
TTATTTTCGTTATTCCAGCATACTTTTGCAGGCATTATATGCAAAGCCATTTTACTATTTTACA
GGTAAGATTAACTGATTAAGCCTAGGACAATACAATAGTTTTGAGGTTTCGTCTTCGTTCTCAA
TGAATCACCGCCCTTTATCTTCAACGTTCTCATGTATCCTCCAAGAATCTTCTAGAATGTTTTT
CTTCTGTTAATGTAAGAGTTTCATCTGCTGCCAAATTCAAATTATGTTTTTACTGCTGAAATAG
TCTCACTGTGGCATTTCATCAAACATTTCTTCTCTTTCATCAAACACTTGATCTTTAACTCGAA
TGAATGTCAATGACACTTGATTTTCCTCCAATCTAGACAGGAAGGTGCACTTGTAATCGACCAT
CTGGAGATAGGCAACATTAATTCACTAAATTCTATAGCAAATGACGAAACGACAGCAATGCTGG
CCGAGTTCAAGTTGGCCATAAATGCATATCTCAAGGAGCTTGTGACTTCCCCAGTGCGATCTTT
GGCAGAGGTTATAGCCTTCAATAACAAATTCTCAGATTTGGTAAGTACTCTTCATCATTTGAGC
ATGCATACATGTCTTGGTAATTGTATCAACTTTGGTAATAATTCCGATGACACGAATGTATCTA
ACCATACATGCAGGAAAAGATCAAAGCATACGGCCAGGACTTCTTTCTGTTAGCAGAAGCAACA
AATGGAATCGGCAAAAAAGAGAAGGCGGCAATACTGAATTTAGAAAAGTTTACAAGAGATGGTT
TTGAGAAGCTGATGACCAGGAACAAGCTTGACGCATTGGTGACACCAGGATATGCTGTTTCTAC
GCTTCTGGCAGTCGGTGGGTTCCCAGGAATCAATGTTCCTGCTGTATATGCTGGTGATGGTGAA
CCTTTTGGCATTTGTTTTGGAGGATTGAAGGGTTCAGAGCCAAAGCTCATTGAGGTTGCCTATG
GCTTTGAGCAAGCTACCAAAATTAGGAAGCCTCCTTCATTCAAGTCTTGAATATCCATTTTCGG
GGCTGTTGACTGTACAATGATTAAACCCCCCTACTATCGTAATGCAGGGGTAACTTGAACTTTT
AGATTCTATCAAATAAAATTCAACCGTTTTTATTGATATAAATTATAAAGTTAATAACTATGGT
GGGTGTGATTGGCTTCCCTTTTCTGGAAAATCCCATTTAATCAATTTTTTTAATATCATAAAAT
CAACTAATTAATTAAAAACTCATAATTGAATTGACCTGTTCTTTTTTTTTTTTTTTTTGGTTAA
TTAGGGTTAAGGTATTCTGTCAATGGATAAAGATGGTCAAGTGATATAATAAGAATTTATGGTG
CATTTATTTTATGGAATGAGAATAAAATGAAATGGAAATGAATTGGGAATAGGAATGAGGAATG
AGAATGAGATTATATAATGTTTAATTGGAAAAAATAAATGTGAATGAGAATGTGTTGGAATGTC
ATTGATGTGTTTCCTTGGTAAAATAAATAAGAATGAGGAATGGAAATGAGAATTAATTTACCAA
AATACTCATAATATTAAATAAGAAAATTATTCATCGTACATTCGTTTTTTCTAACTTTTTAAAA
ATACACAATTCTTTTTTTTTTTTGGCTGAAATCCACCTGAAATTATATTTCTTTTCACTTGTCC
ACTTCAGTTCGGAGACCGTTAAGAAAACTAACGAAATATTGTGTAAATAACTTTTTTACCTTCA
AATTTAAAAGATAAATTATCCATCGACCACCTATTTTTCGTATTATTTCAAAAACACACAATTC
TTAATTTTTGTTTGTTGAACTTCACTTGAAGTTATATTATTTTGCACTTGTCTACCACTGTGTC
GTTGTGAAATGATAATTTTACCCTTATGATATCAGCAAAGTTCTAACGGTGTTATAACAAGAGT
GGGCTAATGAAAAAAATTTTAACTTCAGGTGGAGCACTGCAAAAAAAAAAGGTAATTCGGTAGA
TAATTTTCATTTTTGAAAAACTGTGAAAAAATGGGTGGACGGTAAATAATTTTCCTATTAAATA
ATGTAATTTTCATTAACTAGATGCATGTATAAATATTATTATAAAAATTATATTAATTAAAAAA
ATAAAAAAAAATAAAAATAATAATAAATGTTAACAATGATAATATTAATAAAAATAATTAATAA
TAACTAAAATAATAAATTTAATAAAATTTAATAATAATAATAATAATGACATTTAAAATAATAA
AATTAATTGTAATTTGAATGAAGGTAGTTCAGAAAATATGAAAAAATTAGAGGGTTATAAAAGT
CATTTCAGAAAATGAGAATCCCCATTCCCAACCCCCATGGAAATGAGATTCCCAATCCTTATTT
TCAAATTTTGTGGAACCCGCATATTTTATTTTTATTTTTAAATTATATTTTACCAAATAAATAT
ATGTTTCATTCCTATTCCCTAAACCTTCAAGTAAAAATACCATTAATAATGCAAAATAATGGTT
AAACGAATAAACACCATGCTACAAATAAAATAACAATAAAGAAAATACAAAGGAATTAAAGTGC
TACTCTCAGGCCCTCGAAGGCAATGTATATTCATATGATTGATACTTTGCAAAATGGGTATTTT
TGTGAATTTGTTTACTTTTTTATGCAATTTCTTTGTTGACTTTTTAGAAAGTTAAAATTGATAG
TCATTATACAGATAATTAAATTTTAATCATATCTTATTATAAATGTACGCCAGACATAATATTA
TTAGAACATCGTAATTGGATTCAAATTTTCAATGGTGACCTAATTATATTTTTTTAATAATTAT
GGCATTTATAACAATTAACGGTTAAAATTTAATAAACTATGTATTCTCTTATCAAGAGAATTAT
TCAGTCAACTTCATCGTTGCATCGCCAATGACTCAATACATAAATATACACACACGCACATATG
TGTTGCACGTTTTGTTTTTGTTTTTTGGGATAGAACTCAATATGTTACATGCAACACGGTTGTA
CAAATAGACCGAGCATTCAATAATCAATATCTTCCTATATTGATTATATGTTATATAATTATAT
ATATTATATACAATTATATTGTTTAACAAAGACTGCCAATAATAATGTGTCATTGACCTTTCCT
TACTTTTCACATCTACTCCTGATTCTTCTAGCCATGTCAACCGATCGATCCGACGATGAATTCC
CAATAAGAGAGGCAACTATCAACGATCTCCAGCTCGCTTTCAAGCAAAACAAGCTTACGTCCTG
GCAGCTGGTTGAATTTTACCTCGGAGAAATCCACAGGCTCAACCCGGTGCTCAACGGAGTCATA
GAGGTGAACCCTGATGCACTATCCCAAGCTGATGAAGCTGACTGCGAGCGCAGGGTTAAGGCAC
CAGGTTCACTGCCCGGTTTACATGGGATTCCTATTCTTCTCAAGGATAACATTGCAACGAAGGA
CAAGATGAACACCACTGCTGGCTCGTATGCTCTGCTCGGCTCAGTCGTGCCCCGGGATGCTGGT
GTGGTGACCAAATTGAGGGAAGCTGGTGCCATTATTCTGGGAAAGGCTAGCTTGAGTGAGTGGG
CTAATTTTAGATCCTCAAATGCACCCAATGGTTTCTGTGCTAGGGGTGGCCAGGGAAAG
						
					

			
		

Sequences
Splice junction sequence	TGGTGCCATTATTCTGGGAAAGGCTAGCTTGAGTGAGTGGGCTAATTTTAGATCCTCAAATGCA CCCAATGGTTTCTGTGCTAGGGGTGGCCAGGGAAAGaatccatatgttctatcagcagatcctt gtgggtcaagcagtggctcagcaatttcagtagctgcaaacttggctgccgtgtcactgggaac tgaaacgg
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	AATCCATATGTTCTATCAGCAGATCCTTGTGGGTCAAGCAGTGGCTCAGCAATTTCAGTAGCTG CAAACTTGGCTGCCGTGTCACTGGGAACTGAAACGGATGGTTCCATTCTATGTCCGTCCAGTTC TAACTCAGTAGTGGGACTCAAACCAACCCTTGGTCTCACCAGCAGAGCCGGCGTTATCCCAATA ACTCCTAGACAGGACTCCGTTGGGTGTGTGGAACCTTTGCCAATATGAACTGATGGCATTTAAC ATTAATTGAAAAATAAAGGAACATTTTTTTTTTCCTCGCAGACCTATTTGCAGAACTGTAGCGG ATGCTGCTTATGTTCTAGATGCCATTGCAGGATTTGATCATTACGATCCTGCAACAAGGGCAGC ATCAGAGTACATTCCACGTGGTGGCTACAAACAGTTTCTTAGGCCTCATGGACTCAAAGGGAAG AGATTGGGAATTGTGCGGAATCCATTCTTCAATTTTGACGAGGGCTCTCCACTGGCTCAAGTTT TTGATCACCATCTGCACACACTCAGGTTGAATTATGCATAAAAGCATTTTTGTTATTCCAGCCT ACTTTTGCAGTAAATTAAGTGACTAAACTAAAGACAAAATGAAATAAGCAAAAATGCAGCAAAA TTATTTTCGTTATTCCAGCATACTTTTGCAGGCATTATATGCAAAGCCATTTTACTATTTTACA GGTAAGATTAACTGATTAAGCCTAGGACAATACAATAGTTTTGAGGTTTCGTCTTCGTTCTCAA TGAATCACCGCCCTTTATCTTCAACGTTCTCATGTATCCTCCAAGAATCTTCTAGAATGTTTTT CTTCTGTTAATGTAAGAGTTTCATCTGCTGCCAAATTCAAATTATGTTTTTACTGCTGAAATAG TCTCACTGTGGCATTTCATCAAACATTTCTTCTCTTTCATCAAACACTTGATCTTTAACTCGAA TGAATGTCAATGACACTTGATTTTCCTCCAATCTAGACAGGAAGGTGCACTTGTAATCGACCAT CTGGAGATAGGCAACATTAATTCACTAAATTCTATAGCAAATGACGAAACGACAGCAATGCTGG CCGAGTTCAAGTTGGCCATAAATGCATATCTCAAGGAGCTTGTGACTTCCCCAGTGCGATCTTT GGCAGAGGTTATAGCCTTCAATAACAAATTCTCAGATTTGGTAAGTACTCTTCATCATTTGAGC ATGCATACATGTCTTGGTAATTGTATCAACTTTGGTAATAATTCCGATGACACGAATGTATCTA ACCATACATGCAGGAAAAGATCAAAGCATACGGCCAGGACTTCTTTCTGTTAGCAGAAGCAACA AATGGAATCGGCAAAAAAGAGAAGGCGGCAATACTGAATTTAGAAAAGTTTACAAGAGATGGTT TTGAGAAGCTGATGACCAGGAACAAGCTTGACGCATTGGTGACACCAGGATATGCTGTTTCTAC GCTTCTGGCAGTCGGTGGGTTCCCAGGAATCAATGTTCCTGCTGTATATGCTGGTGATGGTGAA CCTTTTGGCATTTGTTTTGGAGGATTGAAGGGTTCAGAGCCAAAGCTCATTGAGGTTGCCTATG GCTTTGAGCAAGCTACCAAAATTAGGAAGCCTCCTTCATTCAAGTCTTGAATATCCATTTTCGG GGCTGTTGACTGTACAATGATTAAACCCCCCTACTATCGTAATGCAGGGGTAACTTGAACTTTT AGATTCTATCAAATAAAATTCAACCGTTTTTATTGATATAAATTATAAAGTTAATAACTATGGT GGGTGTGATTGGCTTCCCTTTTCTGGAAAATCCCATTTAATCAATTTTTTTAATATCATAAAAT CAACTAATTAATTAAAAACTCATAATTGAATTGACCTGTTCTTTTTTTTTTTTTTTTTGGTTAA TTAGGGTTAAGGTATTCTGTCAATGGATAAAGATGGTCAAGTGATATAATAAGAATTTATGGTG CATTTATTTTATGGAATGAGAATAAAATGAAATGGAAATGAATTGGGAATAGGAATGAGGAATG AGAATGAGATTATATAATGTTTAATTGGAAAAAATAAATGTGAATGAGAATGTGTTGGAATGTC ATTGATGTGTTTCCTTGGTAAAATAAATAAGAATGAGGAATGGAAATGAGAATTAATTTACCAA AATACTCATAATATTAAATAAGAAAATTATTCATCGTACATTCGTTTTTTCTAACTTTTTAAAA ATACACAATTCTTTTTTTTTTTTGGCTGAAATCCACCTGAAATTATATTTCTTTTCACTTGTCC ACTTCAGTTCGGAGACCGTTAAGAAAACTAACGAAATATTGTGTAAATAACTTTTTTACCTTCA AATTTAAAAGATAAATTATCCATCGACCACCTATTTTTCGTATTATTTCAAAAACACACAATTC TTAATTTTTGTTTGTTGAACTTCACTTGAAGTTATATTATTTTGCACTTGTCTACCACTGTGTC GTTGTGAAATGATAATTTTACCCTTATGATATCAGCAAAGTTCTAACGGTGTTATAACAAGAGT GGGCTAATGAAAAAAATTTTAACTTCAGGTGGAGCACTGCAAAAAAAAAAGGTAATTCGGTAGA TAATTTTCATTTTTGAAAAACTGTGAAAAAATGGGTGGACGGTAAATAATTTTCCTATTAAATA ATGTAATTTTCATTAACTAGATGCATGTATAAATATTATTATAAAAATTATATTAATTAAAAAA ATAAAAAAAAATAAAAATAATAATAAATGTTAACAATGATAATATTAATAAAAATAATTAATAA TAACTAAAATAATAAATTTAATAAAATTTAATAATAATAATAATAATGACATTTAAAATAATAA AATTAATTGTAATTTGAATGAAGGTAGTTCAGAAAATATGAAAAAATTAGAGGGTTATAAAAGT CATTTCAGAAAATGAGAATCCCCATTCCCAACCCCCATGGAAATGAGATTCCCAATCCTTATTT TCAAATTTTGTGGAACCCGCATATTTTATTTTTATTTTTAAATTATATTTTACCAAATAAATAT ATGTTTCATTCCTATTCCCTAAACCTTCAAGTAAAAATACCATTAATAATGCAAAATAATGGTT AAACGAATAAACACCATGCTACAAATAAAATAACAATAAAGAAAATACAAAGGAATTAAAGTGC TACTCTCAGGCCCTCGAAGGCAATGTATATTCATATGATTGATACTTTGCAAAATGGGTATTTT TGTGAATTTGTTTACTTTTTTATGCAATTTCTTTGTTGACTTTTTAGAAAGTTAAAATTGATAG TCATTATACAGATAATTAAATTTTAATCATATCTTATTATAAATGTACGCCAGACATAATATTA TTAGAACATCGTAATTGGATTCAAATTTTCAATGGTGACCTAATTATATTTTTTTAATAATTAT GGCATTTATAACAATTAACGGTTAAAATTTAATAAACTATGTATTCTCTTATCAAGAGAATTAT TCAGTCAACTTCATCGTTGCATCGCCAATGACTCAATACATAAATATACACACACGCACATATG TGTTGCACGTTTTGTTTTTGTTTTTTGGGATAGAACTCAATATGTTACATGCAACACGGTTGTA CAAATAGACCGAGCATTCAATAATCAATATCTTCCTATATTGATTATATGTTATATAATTATAT ATATTATATACAATTATATTGTTTAACAAAGACTGCCAATAATAATGTGTCATTGACCTTTCCT TACTTTTCACATCTACTCCTGATTCTTCTAGCCATGTCAACCGATCGATCCGACGATGAATTCC CAATAAGAGAGGCAACTATCAACGATCTCCAGCTCGCTTTCAAGCAAAACAAGCTTACGTCCTG GCAGCTGGTTGAATTTTACCTCGGAGAAATCCACAGGCTCAACCCGGTGCTCAACGGAGTCATA GAGGTGAACCCTGATGCACTATCCCAAGCTGATGAAGCTGACTGCGAGCGCAGGGTTAAGGCAC CAGGTTCACTGCCCGGTTTACATGGGATTCCTATTCTTCTCAAGGATAACATTGCAACGAAGGA CAAGATGAACACCACTGCTGGCTCGTATGCTCTGCTCGGCTCAGTCGTGCCCCGGGATGCTGGT GTGGTGACCAAATTGAGGGAAGCTGGTGCCATTATTCTGGGAAAGGCTAGCTTGAGTGAGTGGG CTAATTTTAGATCCTCAAATGCACCCAATGGTTTCTGTGCTAGGGGTGGCCAGGGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 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
						playing an important role in the early flowering process

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	playing an important role in the early flowering process

			
						 Other Information
					
						References
						Zeng et al., 2018

circRNA

Detail information of LOC18033993_circ_ag.1

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