Plant Circular RNA Database

Detail information of LOC18051383_circ_g.1

			
						 General Information
					
						CircRNA Name
						LOC18051383_circ_g.1
					
						ID in PlantcircBase
						ptr_circ_000100
					
						Alias
						circRNA100
					
						Organism
						
							Poncirus trifoliata						
					
						Position
						
							chrNW_006262688.1: 30449372-30451641  JBrowse»						
					
						Reference genome
						
							Citrus_clementina_v1.0						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							LOC18051383						
					
						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  
						
							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
						XM_006448666.2:2

General Information
CircRNA Name	LOC18051383_circ_g.1
ID in PlantcircBase	ptr_circ_000100
Alias	circRNA100
Organism	Poncirus trifoliata
Position	chrNW_006262688.1: 30449372-30451641 JBrowse»
Reference genome	Citrus_clementina_v1.0
Type	e-circRNA
Identification method	CIRI
Parent gene	LOC18051383
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	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	XM_006448666.2:2

			
						 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  
						
							AACACCCGTCATCAAATCTTGGACAAGAATCCCTTGAGCAGATATATGCTTTCGCAGTTCCATC
AGTTCATGCTCCGTTTCTACAACTTCTTCAGATAGTctgaaatggaagtgaaggcagaggatca
gaatcccactgtgtatattcctcatttccacttaaatatatttgtccatttaatcgtgtttttc
cctctctt

									
								

					

						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
						
							CTGAAATGGAAGTGAAGGCAGAGGATCAGAATCCCACTGTGTATATTCCTCATTTCCACTTAAA
TATATTTGTCCATTTAATCGTGTTTTTCCCTCTCTTGAATAGATGAAACTCAGAACATATTGCC
GACAAAAGTGATCTCTAAGTTTGTCAAATGAATGCTGAAGATGGCGTTTCCAATCTTTTAGTTC
AGTTGTAGTGCTAGCGTTAGGCGCAATGTTTTCATTTCCCACTTCTTTGCTTTCATTCTTGGGA
TTCCAGACTTTTGACACAGTATTTGGTAGAAGTTCATCCATGATTGTAAATGCTACTCCTAAGA
GTGAAAGTTGTTCTGAATCTGTCTCAGCTCGAAAGGGTATGGTCTCCTTCAACTCAGTCAGATT
GTCATCGTCTGAAGGACCAGGTAGGGCTCTATTCAGTGCATCCAAGTATTTATCAAATAACTGT
GAAATTCTAGTCAATACGTTTCCTCCAAAATGCAGAACAACCAGGGGGGTTAGCTGCTCCAATA
TCTCCTGTAAAAGTTTTTATTTATCCCAATATTATATTAAAAATGGCAATTGAGTCATCAATAA
TTAATTGAGTAGCAATCAGTCAATACAACAAACACATACAGGAGAAGAGAGAGAAAAGAGAAGA
AGAAGGAACAATAATGAACTGCAGAGTTTTAATTTGAAACATACTGCCAGGTCTGAATACATAT
GCATGTAGAAGAACATAAGTACCAGTGACAAAAATATTGATTATGAAAATGCTCACCCTTAGAA
AGATGAGGATTCATGAGTCCACATCCACTGGTCCACATGAAATTAGGCGTACGCGTACAAACAT
AGAAACTTAAAATCCTTATCTTCTAGGCCTCACAAAAGAAACATAAATTCTCACACCCTATTAC
CAGGGCACACACAACTATAGAATTTTGATATAAGACAGGTAAATCATGCACCGAGTCAAGCTAC
CCAAAGACTAACTTATTTTGGACCATTTGGCTCAAAATTTTATCAGGTACCTCCTTGACAAAAC
ATCCAAGAAATTGATTACAAAAACTGTTTGAAGTAGCTGAGAACAGACAAATTGTCCAAGATAA
TCAGCTTAACTCAATTTTTCAAGATTAATCTCTGAAAGGCGCATCATTTTCAGATTCTTGAAGT
TAAAATAGTTGAAAGAGACAGTTAAAGTCAACATATACGCAAAGATAAACACATGAATAGGAGG
CATACTTACCTCAACAATGTGCATAAATCTACTTCCGCTATCAACAAGCATGCTATCTGACGAT
GTCGCAAACAGAGACAATGGAGACATAAAGTGAGGTGACAACAGCAAGCTTTCATCAATATCCT
CCAAGTTGAACACCATTTTTCTAGCCCGTCTAAAGTTCAATTCTAAGACTTCTTCAATGTAGGG
CCGCAAGAGCAACAAAAGCAACCTTGACAATTTTAGGCCTTGCGATTCCAACAATGAACAGTAG
TTAACACTAGCCTCAACAGAAATGCTAGCTGCACGCATGGCAGAGATTGTCTCAGAAGGTGGTG
CATTCTCCTTCACCAACCTTGCAAAATATTCAATTTCCCATTCTGCCCATTGGACAACTCTATT
ACTATATACAGGATTGTCACCAAAAATCAAACCAGAGTCTTTTGTTGTCAATGATACTGTAGAA
AAAACAAGCTTAGATATTGTAGCTGGAAATACTTCGGGACATACAGAAGATGAAGGAAGATAAA
CCTCAAAGCTCCTTTGGAGACGGTACGCATAATATTTCAGCAGTAATTGGTGTGCTAAAGGACC
CTTACCAAGTTTGATTAAATCAGTTAAGGCCTTCTTCAGCTCTAGAATACCGATTGAAGGCTGT
TCAGTAATCTTAACCAACTGATCCTCAACCATTGCCTTTCTTTTCAAGAAATCACTTTTGAACG
AGGAAGCTTGAGCTGATGAAGCTTCACCTGAGCTCCTCAATTCTGGAAAGTTTCTCTCTTCAGC
ATCTAAAACCTCTATTGCTTCTTCCACCTTATGTTCAGCCAGAAGAACATCAATTTTCTCCAAG
AATATCATCTTGCATTTGTCTATTTCATTTGGCAAAGGGTCTTCAAGTTCAATCTTTTGTGGAT
CTGACAGAGATTCATCAATGTTTCCATTGACTACTGACAACTCCTCCAACTGACCGCAAACACC
CGTCATCAAATCTTGGACAAGAATCCCTTGAGCAGATATATGCTTTCGCAGTTCCATCAGTTCA
TGCTCCGTTTCTACAACTTCTTCAGATAGT
						
					

			
		

Sequences
Splice junction sequence	AACACCCGTCATCAAATCTTGGACAAGAATCCCTTGAGCAGATATATGCTTTCGCAGTTCCATC AGTTCATGCTCCGTTTCTACAACTTCTTCAGATAGTctgaaatggaagtgaaggcagaggatca gaatcccactgtgtatattcctcatttccacttaaatatatttgtccatttaatcgtgtttttc cctctctt
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	CTGAAATGGAAGTGAAGGCAGAGGATCAGAATCCCACTGTGTATATTCCTCATTTCCACTTAAA TATATTTGTCCATTTAATCGTGTTTTTCCCTCTCTTGAATAGATGAAACTCAGAACATATTGCC GACAAAAGTGATCTCTAAGTTTGTCAAATGAATGCTGAAGATGGCGTTTCCAATCTTTTAGTTC AGTTGTAGTGCTAGCGTTAGGCGCAATGTTTTCATTTCCCACTTCTTTGCTTTCATTCTTGGGA TTCCAGACTTTTGACACAGTATTTGGTAGAAGTTCATCCATGATTGTAAATGCTACTCCTAAGA GTGAAAGTTGTTCTGAATCTGTCTCAGCTCGAAAGGGTATGGTCTCCTTCAACTCAGTCAGATT GTCATCGTCTGAAGGACCAGGTAGGGCTCTATTCAGTGCATCCAAGTATTTATCAAATAACTGT GAAATTCTAGTCAATACGTTTCCTCCAAAATGCAGAACAACCAGGGGGGTTAGCTGCTCCAATA TCTCCTGTAAAAGTTTTTATTTATCCCAATATTATATTAAAAATGGCAATTGAGTCATCAATAA TTAATTGAGTAGCAATCAGTCAATACAACAAACACATACAGGAGAAGAGAGAGAAAAGAGAAGA AGAAGGAACAATAATGAACTGCAGAGTTTTAATTTGAAACATACTGCCAGGTCTGAATACATAT GCATGTAGAAGAACATAAGTACCAGTGACAAAAATATTGATTATGAAAATGCTCACCCTTAGAA AGATGAGGATTCATGAGTCCACATCCACTGGTCCACATGAAATTAGGCGTACGCGTACAAACAT AGAAACTTAAAATCCTTATCTTCTAGGCCTCACAAAAGAAACATAAATTCTCACACCCTATTAC CAGGGCACACACAACTATAGAATTTTGATATAAGACAGGTAAATCATGCACCGAGTCAAGCTAC CCAAAGACTAACTTATTTTGGACCATTTGGCTCAAAATTTTATCAGGTACCTCCTTGACAAAAC ATCCAAGAAATTGATTACAAAAACTGTTTGAAGTAGCTGAGAACAGACAAATTGTCCAAGATAA TCAGCTTAACTCAATTTTTCAAGATTAATCTCTGAAAGGCGCATCATTTTCAGATTCTTGAAGT TAAAATAGTTGAAAGAGACAGTTAAAGTCAACATATACGCAAAGATAAACACATGAATAGGAGG CATACTTACCTCAACAATGTGCATAAATCTACTTCCGCTATCAACAAGCATGCTATCTGACGAT GTCGCAAACAGAGACAATGGAGACATAAAGTGAGGTGACAACAGCAAGCTTTCATCAATATCCT CCAAGTTGAACACCATTTTTCTAGCCCGTCTAAAGTTCAATTCTAAGACTTCTTCAATGTAGGG CCGCAAGAGCAACAAAAGCAACCTTGACAATTTTAGGCCTTGCGATTCCAACAATGAACAGTAG TTAACACTAGCCTCAACAGAAATGCTAGCTGCACGCATGGCAGAGATTGTCTCAGAAGGTGGTG CATTCTCCTTCACCAACCTTGCAAAATATTCAATTTCCCATTCTGCCCATTGGACAACTCTATT ACTATATACAGGATTGTCACCAAAAATCAAACCAGAGTCTTTTGTTGTCAATGATACTGTAGAA AAAACAAGCTTAGATATTGTAGCTGGAAATACTTCGGGACATACAGAAGATGAAGGAAGATAAA CCTCAAAGCTCCTTTGGAGACGGTACGCATAATATTTCAGCAGTAATTGGTGTGCTAAAGGACC CTTACCAAGTTTGATTAAATCAGTTAAGGCCTTCTTCAGCTCTAGAATACCGATTGAAGGCTGT TCAGTAATCTTAACCAACTGATCCTCAACCATTGCCTTTCTTTTCAAGAAATCACTTTTGAACG AGGAAGCTTGAGCTGATGAAGCTTCACCTGAGCTCCTCAATTCTGGAAAGTTTCTCTCTTCAGC ATCTAAAACCTCTATTGCTTCTTCCACCTTATGTTCAGCCAGAAGAACATCAATTTTCTCCAAG AATATCATCTTGCATTTGTCTATTTCATTTGGCAAAGGGTCTTCAAGTTCAATCTTTTGTGGAT CTGACAGAGATTCATCAATGTTTCCATTGACTACTGACAACTCCTCCAACTGACCGCAAACACC CGTCATCAAATCTTGGACAAGAATCCCTTGAGCAGATATATGCTTTCGCAGTTCCATCAGTTCA TGCTCCGTTTCTACAACTTCTTCAGATAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30451605-30451635(-)
30449425-30451635(-)
						
						Potential amino acid sequence
						
							MELRKHISAQGILVQDLMTGVCGQLEELSVVNGNIDESLSDPQKIELEDPLPNEIDKCKMIFLE
KIDVLLAEHKVEEAIEVLDAEERNFPELRSSGEASSAQASSFKSDFLKRKAMVEDQLVKITEQP
SIGILELKKALTDLIKLGKGPLAHQLLLKYYAYRLQRSFEVYLPSSSVCPEVFPATISKLVFST
VSLTTKDSGLIFGDNPVYSNRVVQWAEWEIEYFARLVKENAPPSETISAMRAASISVEASVNYC
SLLESQGLKLSRLLLLLLRPYIEEVLELNFRRARKMVFNLEDIDESLLLSPHFMSPLSLFATSS
DSMLVDSGSRFMHIVEEILEQLTPLVVLHFGGNVLTRISQLFDKYLDALNRALPGPSDDDNLTE
LKETIPFRAETDSEQLSLLGVAFTIMDELLPNTVSKVWNPKNESKEVGNENIAPNASTTTELKD
WKRHLQHSFDKLRDHFCRQYVLSFIYSREGKTRLNGQIYLSGNEEYTQWDSDPLPSLPFQTI*(
-)
MRNIHSGILILCLHFHFRLSEEVVETEHELMELRKHISAQGILVQDLMTGVCGQLEELSVVNGN
IDESLSDPQKIELEDPLPNEIDKCKMIFLEKIDVLLAEHKVEEAIEVLDAEERNFPELRSSGEA
SSAQASSFKSDFLKRKAMVEDQLVKITEQPSIGILELKKALTDLIKLGKGPLAHQLLLKYYAYR
LQRSFEVYLPSSSVCPEVFPATISKLVFSTVSLTTKDSGLIFGDNPVYSNRVVQWAEWEIEYFA
RLVKENAPPSETISAMRAASISVEASVNYCSLLESQGLKLSRLLLLLLRPYIEEVLELNFRRAR
KMVFNLEDIDESLLLSPHFMSPLSLFATSSDSMLVDSGSRFMHIVEEILEQLTPLVVLHFGGNV
LTRISQLFDKYLDALNRALPGPSDDDNLTELKETIPFRAETDSEQLSLLGVAFTIMDELLPNTV
SKVWNPKNESKEVGNENIAPNASTTTELKDWKRHLQHSFDKLRDHFCRQYVLSFIYSREGKTRL
NGQIYLSGNEEYTQWDSDPLPSLPFQTI*(-)
						
						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	30451605-30451635(-) 30449425-30451635(-)
Potential amino acid sequence	MELRKHISAQGILVQDLMTGVCGQLEELSVVNGNIDESLSDPQKIELEDPLPNEIDKCKMIFLE KIDVLLAEHKVEEAIEVLDAEERNFPELRSSGEASSAQASSFKSDFLKRKAMVEDQLVKITEQP SIGILELKKALTDLIKLGKGPLAHQLLLKYYAYRLQRSFEVYLPSSSVCPEVFPATISKLVFST VSLTTKDSGLIFGDNPVYSNRVVQWAEWEIEYFARLVKENAPPSETISAMRAASISVEASVNYC SLLESQGLKLSRLLLLLLRPYIEEVLELNFRRARKMVFNLEDIDESLLLSPHFMSPLSLFATSS DSMLVDSGSRFMHIVEEILEQLTPLVVLHFGGNVLTRISQLFDKYLDALNRALPGPSDDDNLTE LKETIPFRAETDSEQLSLLGVAFTIMDELLPNTVSKVWNPKNESKEVGNENIAPNASTTTELKD WKRHLQHSFDKLRDHFCRQYVLSFIYSREGKTRLNGQIYLSGNEEYTQWDSDPLPSLPFQTI( -) MRNIHSGILILCLHFHFRLSEEVVETEHELMELRKHISAQGILVQDLMTGVCGQLEELSVVNGN IDESLSDPQKIELEDPLPNEIDKCKMIFLEKIDVLLAEHKVEEAIEVLDAEERNFPELRSSGEA SSAQASSFKSDFLKRKAMVEDQLVKITEQPSIGILELKKALTDLIKLGKGPLAHQLLLKYYAYR LQRSFEVYLPSSSVCPEVFPATISKLVFSTVSLTTKDSGLIFGDNPVYSNRVVQWAEWEIEYFA RLVKENAPPSETISAMRAASISVEASVNYCSLLESQGLKLSRLLLLLLRPYIEEVLELNFRRAR KMVFNLEDIDESLLLSPHFMSPLSLFATSSDSMLVDSGSRFMHIVEEILEQLTPLVVLHFGGNV LTRISQLFDKYLDALNRALPGPSDDDNLTELKETIPFRAETDSEQLSLLGVAFTIMDELLPNTV SKVWNPKNESKEVGNENIAPNASTTTELKDWKRHLQHSFDKLRDHFCRQYVLSFIYSREGKTRL NGQIYLSGNEEYTQWDSDPLPSLPFQTI(-)
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 LOC18051383_circ_g.1

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