Plant Circular RNA Database

Detail information of LOC18046043_circ_g.1

			
						 General Information
					
						CircRNA Name
						LOC18046043_circ_g.1
					
						ID in PlantcircBase
						ptr_circ_000183
					
						Alias
						circRNA183
					
						Organism
						
							Poncirus trifoliata						
					
						Position
						
							chrNW_006262339.1: 38068247-38072283  JBrowse»						
					
						Reference genome
						
							Citrus_clementina_v1.0						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							LOC18046043						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						XM_006442921.2:4

General Information
CircRNA Name	LOC18046043_circ_g.1
ID in PlantcircBase	ptr_circ_000183
Alias	circRNA183
Organism	Poncirus trifoliata
Position	chrNW_006262339.1: 38068247-38072283 JBrowse»
Reference genome	Citrus_clementina_v1.0
Type	e-circRNA
Identification method	CIRI
Parent gene	LOC18046043
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
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	XM_006442921.2:4

			
						 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  
						
							TACAGTTTGCAGCTAACCTTCTGCTACAGATACAGCAACAGCAGCAAACAAATTCTCCTGCAGG
ACGAGGGACTGGAAATCAGCAATAAGAATTCTCTAGgccaaaccttctaagcatctatgggtgg
gtggaattagccaaactgtttcaaaagaagaattggaggagggatttctcaagtttggtaatat
tgaggact

									
								

					

						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
						
							GCCAAACCTTCTAAGCATCTATGGGTGGGTGGAATTAGCCAAACTGTTTCAAAAGAAGAATTGG
AGGAGGGATTTCTCAAGTTTGGTAATATTGAGGACTTCAAGTTCCTTAAAGATGGCAACACTGC
CTTTGTTGAATATTCAAGACTTGAAGATGCGGCCGAAGCTTTGAAAAACATAAATGGTAGGCAA
ATAGGTGGCGAACAGTTACGTGTTGACTTTCTTCGATCACAACCCTCAAGAAGAGTAAGTCTAT
ATGTTCATAATTTCAATTTGTTCACAGGGAAAGATATCTTTTGTTTATGAAAGATTTATCTTGA
TAGTTAAGTCTTATGAGTGATCATGAATTGATAGAAAGCTGAAAAGTGGTAAATCAGGTTTACA
AGTATAGCATTTGCCTCTCTATGCCCTGAAGCAACTATTATTTTTCAAAAGTAAATTACAAAAA
GTTGTTGATAACTAGAGGACATGATTGATTTATGATGCTCAAAGTTGGACTTGGTCTTGAATAA
AATCTTTTCTTCAATATGTGCTAAGTTTGCAGGAGTGTTAGAAAGAAATTAAGCTATATTTTCA
TGTTGTTATGCATCTGTCCATTTTTCAATTGTCCTCTTGAACTTTGGGAAAGTTTTGCAGAATG
GCTTTCAGTGTTTATATATATATATATATATCTTTTGCTCATTCTGAAATGGATTTACATTTTT
GTTTTGGTCTTTTTCAGGAACAGTGGCCTAATTCACATGATGCTAGGGATGGTCCAATTATTGG
TAGGGGCACTGGTTTTTCCGATAATCATTCGGCTTATAAAAGATCAGTGAGTCTCAATCTTTGA
CCTGTTAATTAGATATTGCAAAATGATCCATCATTTTGGATATTATCACTGGCATTGTGTGATC
AGCATCGTACAACTATTCCATGCACATTGCATGTGTGGCAGGCTGAGCAATTTAAACGCTTAGT
GCTTCAAGCAGCCGTTTGTCGAAGAACTGGATATAGAAATTAGTTTATTTCTTTGCTTCGGTTA
GTTATGCTTTAATCAATTGCCTTATTTTGCAGCATCCTCAGTCTTCAGTGGGACGAAATAGAGA
TGGTCCACCGAGTAAGATTTTATGGGTAGGTTACCCACCTTCTGTTCAGATGGATGAGCAAATG
CTTCACAATGCAATGATACTATTTGGCGAGATTGAGAGAATAAAGAGTTATCCTTCAAGAAATT
ACTCTTTTGTGGAATTTAGAAGTGTGGATGAAGCCCGGCGTGCTAAGGAGGGTCTACAAGGTCG
GCTGTTCAATGATCCTAGAATCACCATTATGTTTTCAAGCAGTGAGCTGGCACCGGGAAAAGAT
TACCCTGGTTCTTATTCTGGAACTAAAGGGCCAAGATCAGAGATGTTTTTTGGTGATCAGATAA
GACCTTCTCAGCTGGATATGCTTGGTCCTAATCAGTCAATGCAGCCTAATAATTTTGCTGGACA
TTTGCAACCAGCTGACATTCGTGGACCAAGTATGCCGATGCGGTCTATTGGTGCTCATGGTGGT
CATGAAACCCTGCTTTCAGGCCCAGACTTTAAGGATTTTCATAGTATGCAAGATCCTAATGCCA
AAAATTTGGATCCAAACTGGAGAAGGCCATCGCCCTCACCTGGTATACGTACTTCTCCTACACA
GGGTATTAGGCAACCATTGAATCATGCACCAGGTTCATGGGATGTATATGATGCAAACCAATTT
CAACGTGATTCTAAACGTTTGAGGGTAGATGGTTCTATGCCCATTGATGACGCTACTTTCCCTT
CAAGAAAGATTGATGATCATGGGCTTGTGTTGGATCAGTCATATGGGCTTGGTTCAATAACTGG
TGGACCTGCTTCTGGTGCATTTGTGAACGTTCAAGGGAGGAATCGTCTTAGTCCAGTGGCTTCA
AAGGTGACAGCTGGTGGATTTGGTCGAAATCCTATTGATAGTGATTTTATTTGGCGTGGCATTA
TTGCGAAGGGTGGTACACCAGTTTGTCGTGCTCGATGTGTTCCTTTCGGGAAAGGGATAGAGAG
TGAGCTGTGAGTACACTTCGATTTACCTGAGTTCCTTCTGGTTTAAGATATACTGTAATAATTT
TGGTTTATTAATGGTTTTGTTTTATTGAAATGTTTCTTGTTCGTTTTCTTTTTACCGTGTGGGC
TTATTTTCATTTTTTGATCTTTGTGACTTTGTGCATTGCATGTCATGGATTACCCAATGAATCT
TTAGACATGACACTAATGCGTTCATATCCTTTTAAATTAAAATGTTTCTTCTTTGTCATCTTCT
TTTGATTATTTGATTTATTTAGTTTTATATTGATCACACAAATTTTATTTTAAAAAATGAAGAA
GATGCCAAAGTGAACCATGGTCCACAAGGGCAAGAAATACCGCGCGGTAGATTCTAACTGCCTG
TGCAAAGTAAAACCCAGCTTCTCTGTTTCCCAATTGAGGGGTTTACCATGTTGAACTATTTCCT
TGTTCATACATGCTAACCTAATTGCCTTTTATTCCTGAATTGGATGTTCTTTTGGCAAATACTG
AATGTAATAAATTTCTGTATGTTTATCTGTTTCATTATTTAAAGATTTTTATATTTTATTTCAC
CATGGCTATTATTATTTCAGAACTGTTAGTTTAACAATGGTTTCTTTTAATTGAAACAACCTAG
TCTTCCCACTATAATTAAATAGGTGTTACCAAGTAATCTTTTGTTGTTCCTCATTGTATGCTTG
GGTTTCTGTTTTGCAGTCCTGAAGTTGTTAATTGCTCAGCCAGGACAGGATTGGATATGCTAGC
AAAACACTATGCTGAGGCTATAGGATTTGACATAGTTTTCTTCTTGCCGGACAGCGAAGATGAT
TTTGCTTCCTATACTGAATTCCTCCGCTACCTGGGTTCAAAGAACCGTGCTGGTGTTGCAAAGT
TTGATGATGGGACAACCTTATTCTTGGTGCCACCATCAGATTTCTTGTCAAAAGTGTTGAAAGT
TGTGGGGCCAGAACGTCTATATGGTGTTGTGCTGAAGTTGCCTCAACAAGCAATGGTTCCACCA
CAAACTGTTGATAAACAGAACATTCCACCACCTCATGCTGAGTATGGTTTAACCCGCCCAAAGG
TGGAACATGTTTTGCCAGTGGACTACAACAGGTTTTCACATGATGACTCAAAGGTTCAATCAAA
AATGCATTTCCCGCATGCTAGTGAGCCCCTTATAGCGCACTCAAGTTCCATGGATTATGGGTCA
AATAATGCTGCAGCTATCTCCCAAGCTGGAGTCAAGTTAACACCTGAACTTATTGCTACTCTAA
CTTCGTTAATTCCTGCAACAAAGTCAGCAGAGGTTGCTCCTGGCTCGTCATCAGCCAGGCCTTT
GTTAGCTGAACCTCATGTTCAGTCTATTGAACAATTGGGGAATCATTACAATCCTCAAGCTCAA
TCCTTGACTCATCATTATGCCTCTATGTCTAGCACTCCTAGCCATTCTGCACAAATGCTCCTTG
GGAACAATCAACTTCAGGAATCCACTGCCAGCTTATCCCAGCAGGGCATGGTGTATTCTAGGCC
ACTGCCTAATTTTTCAATCGCTCCTCAAGCTGCTCCTGTTGCTGTTTCACCTCCAGTGCATCAG
CAGTATCAATTTGCAGCTCCTTCGAATTCTCAAAAAGGATATGGAATGATGCAGGGAACAGAGG
CTTCCACATTATATGGTTCATCTGTTTTTCAGCAGCCTAACAATCCTACTGCTGTGTCAAATCA
AGTTAATCTTTCGCAACCACAAAATGTCATGACGGTATCAGTGGACAAAGTGAATTTGGAGCAC
CCCAATCATGTCCAGCAGCTTCAGTCTGTGCTCTCTGGAGCTGGTCAGGGGACATCTGATGGAG
AGGTTGATAAGAATCAACGATACCAGTCTACACTACAGTTTGCAGCTAACCTTCTGCTACAGAT
ACAGCAACAGCAGCAAACAAATTCTCCTGCAGGACGAGGGACTGGAAATCAGCAATAAGAATTC
TCTAG
						
					

			
		

Sequences
Splice junction sequence	TACAGTTTGCAGCTAACCTTCTGCTACAGATACAGCAACAGCAGCAAACAAATTCTCCTGCAGG ACGAGGGACTGGAAATCAGCAATAAGAATTCTCTAGgccaaaccttctaagcatctatgggtgg gtggaattagccaaactgtttcaaaagaagaattggaggagggatttctcaagtttggtaatat tgaggact
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	GCCAAACCTTCTAAGCATCTATGGGTGGGTGGAATTAGCCAAACTGTTTCAAAAGAAGAATTGG AGGAGGGATTTCTCAAGTTTGGTAATATTGAGGACTTCAAGTTCCTTAAAGATGGCAACACTGC CTTTGTTGAATATTCAAGACTTGAAGATGCGGCCGAAGCTTTGAAAAACATAAATGGTAGGCAA ATAGGTGGCGAACAGTTACGTGTTGACTTTCTTCGATCACAACCCTCAAGAAGAGTAAGTCTAT ATGTTCATAATTTCAATTTGTTCACAGGGAAAGATATCTTTTGTTTATGAAAGATTTATCTTGA TAGTTAAGTCTTATGAGTGATCATGAATTGATAGAAAGCTGAAAAGTGGTAAATCAGGTTTACA AGTATAGCATTTGCCTCTCTATGCCCTGAAGCAACTATTATTTTTCAAAAGTAAATTACAAAAA GTTGTTGATAACTAGAGGACATGATTGATTTATGATGCTCAAAGTTGGACTTGGTCTTGAATAA AATCTTTTCTTCAATATGTGCTAAGTTTGCAGGAGTGTTAGAAAGAAATTAAGCTATATTTTCA TGTTGTTATGCATCTGTCCATTTTTCAATTGTCCTCTTGAACTTTGGGAAAGTTTTGCAGAATG GCTTTCAGTGTTTATATATATATATATATATCTTTTGCTCATTCTGAAATGGATTTACATTTTT GTTTTGGTCTTTTTCAGGAACAGTGGCCTAATTCACATGATGCTAGGGATGGTCCAATTATTGG TAGGGGCACTGGTTTTTCCGATAATCATTCGGCTTATAAAAGATCAGTGAGTCTCAATCTTTGA CCTGTTAATTAGATATTGCAAAATGATCCATCATTTTGGATATTATCACTGGCATTGTGTGATC AGCATCGTACAACTATTCCATGCACATTGCATGTGTGGCAGGCTGAGCAATTTAAACGCTTAGT GCTTCAAGCAGCCGTTTGTCGAAGAACTGGATATAGAAATTAGTTTATTTCTTTGCTTCGGTTA GTTATGCTTTAATCAATTGCCTTATTTTGCAGCATCCTCAGTCTTCAGTGGGACGAAATAGAGA TGGTCCACCGAGTAAGATTTTATGGGTAGGTTACCCACCTTCTGTTCAGATGGATGAGCAAATG CTTCACAATGCAATGATACTATTTGGCGAGATTGAGAGAATAAAGAGTTATCCTTCAAGAAATT ACTCTTTTGTGGAATTTAGAAGTGTGGATGAAGCCCGGCGTGCTAAGGAGGGTCTACAAGGTCG GCTGTTCAATGATCCTAGAATCACCATTATGTTTTCAAGCAGTGAGCTGGCACCGGGAAAAGAT TACCCTGGTTCTTATTCTGGAACTAAAGGGCCAAGATCAGAGATGTTTTTTGGTGATCAGATAA GACCTTCTCAGCTGGATATGCTTGGTCCTAATCAGTCAATGCAGCCTAATAATTTTGCTGGACA TTTGCAACCAGCTGACATTCGTGGACCAAGTATGCCGATGCGGTCTATTGGTGCTCATGGTGGT CATGAAACCCTGCTTTCAGGCCCAGACTTTAAGGATTTTCATAGTATGCAAGATCCTAATGCCA AAAATTTGGATCCAAACTGGAGAAGGCCATCGCCCTCACCTGGTATACGTACTTCTCCTACACA GGGTATTAGGCAACCATTGAATCATGCACCAGGTTCATGGGATGTATATGATGCAAACCAATTT CAACGTGATTCTAAACGTTTGAGGGTAGATGGTTCTATGCCCATTGATGACGCTACTTTCCCTT CAAGAAAGATTGATGATCATGGGCTTGTGTTGGATCAGTCATATGGGCTTGGTTCAATAACTGG TGGACCTGCTTCTGGTGCATTTGTGAACGTTCAAGGGAGGAATCGTCTTAGTCCAGTGGCTTCA AAGGTGACAGCTGGTGGATTTGGTCGAAATCCTATTGATAGTGATTTTATTTGGCGTGGCATTA TTGCGAAGGGTGGTACACCAGTTTGTCGTGCTCGATGTGTTCCTTTCGGGAAAGGGATAGAGAG TGAGCTGTGAGTACACTTCGATTTACCTGAGTTCCTTCTGGTTTAAGATATACTGTAATAATTT TGGTTTATTAATGGTTTTGTTTTATTGAAATGTTTCTTGTTCGTTTTCTTTTTACCGTGTGGGC TTATTTTCATTTTTTGATCTTTGTGACTTTGTGCATTGCATGTCATGGATTACCCAATGAATCT TTAGACATGACACTAATGCGTTCATATCCTTTTAAATTAAAATGTTTCTTCTTTGTCATCTTCT TTTGATTATTTGATTTATTTAGTTTTATATTGATCACACAAATTTTATTTTAAAAAATGAAGAA GATGCCAAAGTGAACCATGGTCCACAAGGGCAAGAAATACCGCGCGGTAGATTCTAACTGCCTG TGCAAAGTAAAACCCAGCTTCTCTGTTTCCCAATTGAGGGGTTTACCATGTTGAACTATTTCCT TGTTCATACATGCTAACCTAATTGCCTTTTATTCCTGAATTGGATGTTCTTTTGGCAAATACTG AATGTAATAAATTTCTGTATGTTTATCTGTTTCATTATTTAAAGATTTTTATATTTTATTTCAC CATGGCTATTATTATTTCAGAACTGTTAGTTTAACAATGGTTTCTTTTAATTGAAACAACCTAG TCTTCCCACTATAATTAAATAGGTGTTACCAAGTAATCTTTTGTTGTTCCTCATTGTATGCTTG GGTTTCTGTTTTGCAGTCCTGAAGTTGTTAATTGCTCAGCCAGGACAGGATTGGATATGCTAGC AAAACACTATGCTGAGGCTATAGGATTTGACATAGTTTTCTTCTTGCCGGACAGCGAAGATGAT TTTGCTTCCTATACTGAATTCCTCCGCTACCTGGGTTCAAAGAACCGTGCTGGTGTTGCAAAGT TTGATGATGGGACAACCTTATTCTTGGTGCCACCATCAGATTTCTTGTCAAAAGTGTTGAAAGT TGTGGGGCCAGAACGTCTATATGGTGTTGTGCTGAAGTTGCCTCAACAAGCAATGGTTCCACCA CAAACTGTTGATAAACAGAACATTCCACCACCTCATGCTGAGTATGGTTTAACCCGCCCAAAGG TGGAACATGTTTTGCCAGTGGACTACAACAGGTTTTCACATGATGACTCAAAGGTTCAATCAAA AATGCATTTCCCGCATGCTAGTGAGCCCCTTATAGCGCACTCAAGTTCCATGGATTATGGGTCA AATAATGCTGCAGCTATCTCCCAAGCTGGAGTCAAGTTAACACCTGAACTTATTGCTACTCTAA CTTCGTTAATTCCTGCAACAAAGTCAGCAGAGGTTGCTCCTGGCTCGTCATCAGCCAGGCCTTT GTTAGCTGAACCTCATGTTCAGTCTATTGAACAATTGGGGAATCATTACAATCCTCAAGCTCAA TCCTTGACTCATCATTATGCCTCTATGTCTAGCACTCCTAGCCATTCTGCACAAATGCTCCTTG GGAACAATCAACTTCAGGAATCCACTGCCAGCTTATCCCAGCAGGGCATGGTGTATTCTAGGCC ACTGCCTAATTTTTCAATCGCTCCTCAAGCTGCTCCTGTTGCTGTTTCACCTCCAGTGCATCAG CAGTATCAATTTGCAGCTCCTTCGAATTCTCAAAAAGGATATGGAATGATGCAGGGAACAGAGG CTTCCACATTATATGGTTCATCTGTTTTTCAGCAGCCTAACAATCCTACTGCTGTGTCAAATCA AGTTAATCTTTCGCAACCACAAAATGTCATGACGGTATCAGTGGACAAAGTGAATTTGGAGCAC CCCAATCATGTCCAGCAGCTTCAGTCTGTGCTCTCTGGAGCTGGTCAGGGGACATCTGATGGAG AGGTTGATAAGAATCAACGATACCAGTCTACACTACAGTTTGCAGCTAACCTTCTGCTACAGAT ACAGCAACAGCAGCAAACAAATTCTCCTGCAGGACGAGGGACTGGAAATCAGCAATAAGAATTC TCTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							38072094-38068257(+)
38068426-38072282(-)
						
						Potential amino acid sequence
						
							MSSSFSLCSLELVRGHLMERLIRINDTSLHYSLQLTFCYRYSNSSKQILLQDEGLEISNKNSLG
QTF*(+)
MFFKASAASSSLEYSTKAVLPSLRNLKSSILPNLRNPSSNSSFETVWLIPPTHRCLEGLA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						playing an important role in the early flowering process

Functional Information
Coding potential	Y
Potential coding position	38072094-38068257(+) 38068426-38072282(-)
Potential amino acid sequence	MSSSFSLCSLELVRGHLMERLIRINDTSLHYSLQLTFCYRYSNSSKQILLQDEGLEISNKNSLG QTF(+) MFFKASAASSSLEYSTKAVLPSLRNLKSSILPNLRNPSSNSSFETVWLIPPTHRCLEGLA(-)
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 LOC18046043_circ_g.1

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