Plant Circular RNA Database

Detail information of LOC18040219_circ_g.1

			
						 General Information
					
						CircRNA Name
						LOC18040219_circ_g.1
					
						ID in PlantcircBase
						ptr_circ_000293
					
						Alias
						circRNA295
					
						Organism
						
							Poncirus trifoliata						
					
						Position
						
							chrNW_006262201.1: 14106077-14110432  JBrowse»						
					
						Reference genome
						
							Citrus_clementina_v1.0						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							LOC18040219						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						shoots
					
						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
						XM_024183886.1:7
XM_024183887.1:7
XM_006431955.2:7

General Information
CircRNA Name	LOC18040219_circ_g.1
ID in PlantcircBase	ptr_circ_000293
Alias	circRNA295
Organism	Poncirus trifoliata
Position	chrNW_006262201.1: 14106077-14110432 JBrowse»
Reference genome	Citrus_clementina_v1.0
Type	e-circRNA
Identification method	CIRI
Parent gene	LOC18040219
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	shoots
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	XM_024183886.1:7 XM_024183887.1:7 XM_006431955.2:7

			
						 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  
						
							TAGATAAGAGAACTGGAAGCTTGTCATTGAAACCATACACCTTTAGTTCCAGCTTGTCACTGAA
GATAGATACAGAAGTTTCCAACTTGGCAACACTGGCcttcagcacaggctctgatagaactcag
atgataacttaaacgctgtgaggtccttaataacaagcgcagacttggaatgtttttcggattc
ttttatgt

									
								

					

						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
						
							CTTCAGCACAGGCTCTGATAGAACTCAGATGATAACTTAAACGCTGTGAGGTCCTTAATAACAA
GCGCAGACTTGGAATGTTTTTCGGATTCTTTTATGTTGGTGTTGCAACCCCATACCCTAACTGC
AAGTCTCCGACACTTTGGAGACCATTGTTGCAAATACGTTTTATACCAGCTGATAACGTCATTC
TTCTTGATGCTTTTAAGATCTTCTGCTTCCTTCTGTGACTGATCGAACATATACCTGAAAATAA
TAATTACAGAAGTTATAATGGAGCATTCAAATATATATTTTTTTATATAATGAATAATACCATC
TGGACAAAGTTGGGATACAAACTTTTTGTAATAACTGATATGGCAGATGACACGACACTCATTA
ATAGGGGCAACAGAATTACACATTAATTGTGGATTAATAAAGTACACAACTTGCTGATGTTAAT
CATTGATAGGTGCCCTATCAATTGGATACAAACTTTATACCCTAACTTATAAACTACAGTATTA
TTGACTATGTCAGTAGCCAGAAATCACATCACCATAAATCAGATTATTAATTGAGATATTTAAG
GAGTTGTATAGACACAAAGTAGTAACCATTATCAATGGCAACCAAAACCACTAGTACCTTTTAT
CGGTGATCTGATTCCAAAATCGATTGGATTCATATGTAAGGGAAGGGTCTTTCTCCAGTAGCTT
TGCCATTAAACCACTTCGGTAATTCTCAAAAGATTCATCATCTAAACCTTCCTGCAATGCATAC
ATAGTTTAAAATAAGGAAAAGTGTCGTGGAGGAAAGATTAAGTAAACAATGCACAATGTCCAAC
AGTACATGCTGACATTGTTTTCACACTTTCAACTTTCCTCAAAAGTGAGTAACATAATAAGATT
GAAGGTGCACTAAATTGGCATGGCAATAAACAATACACAGGTCAGAATATCAGCCGTAAATTCT
AGCCAAATTCAGCCCCACAGGATGGTTCTTGAAAGGATGAATCATTTTATACCACAAAGCCTAC
TCCCCACCCCCATTATTCAATAATCTTTTTCAAGAAATAATTTTTAAGTAGAAGGTAAATTAAG
TAGGACATAAAATAACTCATTAAATATATACCACTATACTAAATTATTTAATATGGAATGTAAT
TGATTCCCAAAAAATAAACTTTTTTGTCCTACCAGGACCATGCTTTATTTAACTAAATAGATTC
ACCAACAAAACTCATGCTTTCTAACGTACAAGAATAGCACTGGCATGCATGCAGCTCCTCTATT
TGGTAATGTTAGCTGCACCACTTCATAAGAGGTGACTGATAAAACAAATGAAATCCAGGATATT
TAATGTCCCAGAAAGAAGGTCTTTGACTGCCTTTATACCAGATGCTTAATGGCTATATATAGAA
ACTGACCCTAGATATATGAAAAAATGCTGGTAACAATCTCCTCTGAGGGGAAAAAAAAAATCCC
ATTTTAAAAATAGAAAGATTCATTATGTTATTTGTACCCAAAATTACATAAGAATAACATGACA
AAATTTATACAGCATGACTCACTATTACGATCATTTAAATCATTGCATAAACACGAGAAAGTAT
CAATTGTTGATACAAAGATCATTAAAAAAACAAAATGAAATTAGATGAGATGGATTTCTATGTT
TACCAACAACTCATCCAGGCCACTAATGAAGTTGTCAATTCTCTCCTGCAAATAGATTGGGTTG
TACTTGGAAGATTGAATACAGAAACAAAACCCCAAAACACGATATGTTACCCTTGGGCTGCATT
CAACAACATAACCAAGCTGCTCCTTTGTCCTATATTCCAAAATAAAGGAAAAATGGGTTAAAAT
CAAATCCCAGTTGAAACTCAGTGCCACTGAGGTCATTGATGGTTGATTCTAGGTCTTCCATCCA
CACAAAATAAAATTAGAAAAAGGAAACAAAAAAGATAATGCTGAACATTATTATGGGTCAACGG
CTCTTTAATGCTTTTCCATTCAGCGTATGCAAGCAGTTAGCTCAACCTAGGAGATTGGAGATTA
CATCTAAGAGAACCATTCCCTATGAAAATTATTTGCTTCATAAACTGAGACTAGCTTTCCTTGT
CTGGCCTAGAACAAGTAGGGAAACAATAGATCAGACGAATTTCTGACACAGAAAAAACTCTTCC
AGTTATAATCAGACAGCACCCGCATCCTATCGAAAAGAAATTTGTCTAAATCAGTATTCTCAAG
CCTGAGAACTTTCACCAGTAAAATCCTCTGGAACTAATCTATGGCCACAAAACAACATCGATTG
AGAAAGAATTTCTACCCAACGAAAGATCACCTTAGCTGATTAAAAAACGGCTCTTCCAAAATTT
CATCGAAAAGATCAATCAAGGCCTTCAATCTTGTCAATTCCATTCCTTTTTCTTGTTCAATTTG
GAAATAAAGCTGCAAAGCAAAAACCAAAGAATTAGCAAAAAAGAAAACTGAAGGATGGGAACAC
AAAATTTGAGCAGCCCAAAGAAGGATTAAATAATGTCCATTTCAACTACCTCAATCACGGAGTT
TGTTTCACACTTATTCTTCACGCTCACATTTCGTACGAGGTTGGCACCTGAGGGAAGGCAAATT
ACACACTCTTGATGCCTCATTTCAATCGGAAGAGGTTGTACAGAGAAGATACTTTTAAATATAT
TCGATATGTGAATCGCTTCTTCTTGTGACAAATTGCCGTGTAAAAGGCCCTCAATATATAGCTG
TTATTTAAGCGGACATAGTAGGTAGGACTCATTGAAAAAAGTCTTAAATCAAAGACAGAAATAT
AAAACAAATAACTCAAACCAGAAGTCCAAATTAATCAATCAGATTGACTTATGTCCTAGGTAAA
ATGGCAAATCGGCATTAATTAAGAACTGGTAATTCAACCGGCATCGGTGATAGGTTGACAAAAT
TTGAGGCTTGACTGCTGATAGATAACCTTGGCCATTAGAAGACACCTGTCAGTAGTTTCCACAT
TTTGACCCCTTCAATGTTAGCTTACAAAGTCATAGGTATTTCAGAAATTCAAGATGAAAAACTA
AAGTGTCTTCATTAGGGTAAGCAGCAGAATTTATCCATGAATTTAAATTCATTTTAAGTAAGAT
ATATTGAATTAAATTGATTGGATGCTCAATTTCCTATTTTATTTTTCCCTGATGGCCAAGAGGT
ACCCAAAAACTAATGTTTGTTTTTTTCAAGGGAACCACAATTAGGGTTCAAGCTATCAATGCCA
GCTTGAACAACCCTTGCGGTCTATCCTTTCTTTTTTCTCCTTTTCCCTTTGCTTCGAAGGATCG
CCAATTTCATAGATCAAAAATGCTGCTTTCATTGGCAAAATGGAAAAGAGAACATGCAACAGCT
CCCTGACAATATGGGAGTTATTGGCATGTGAGCATGCGTCTCGTTCAGAACATTCTTCTGGCCA
GCCACACACCATCAAGTTTAAGGAAACAATTCTATTTATAAAGAATTTGCAGCACAAATTAAAA
AATAAAATCAATGAAAATCTAATTTGCTTAGTAATTAGCAAACCTGTGAACGAAGCTCAGGAAT
GAATGCCATCAAATCTGCAAGAGACAGGCCATGTAGTATAGATAACTTCTCATCTACATCATAG
AAACTCTGACATAGAACTTGTAGTCTCAGGTATGATGAATGACTAAGCGGCTTCATATTGGTGT
TTTTCAAAGTTCTCACCACATCTTCTTTAATGACCTGTTAAGTTCCTAGTCAGTTTCATCAAAG
ATAAGCTGAAATAAGAAACAAACAAATTCTACTCCTCCCAACTTAATTCAGCATCAAATTTTTA
TCCAACATACATTTAAGATGGTAATAACTATAAACAATCAGTTGCTTCTGTCTCATTTAAATCT
ATCATGCATAAGAAACTAATCAAACTGCAGACTTGCTTGCCAGCTAGTATACAATTTTCAACAA
GAACCACTCATGACAAAAGTTTCTCAGGTCAGCTGATAATGAGAATACAAGAACCAACAACCCA
GGACTTTCTCAGTAAGAAAATGGTAAAATAACACAGCAAGCAAGAGATGGCTGGAAATTGGTAG
AATGTAAATAATAATAAGAAGAAGAAGAAGGAGAAGAAGAAGATAATAATAATAATGAAAAAGA
TTAAAAAGAAAGAAGAAAGAAGGGGGGGAAAAAATAGTATAGCTACCTTAAAACGATCATCAGA
TGGCAGAAAGGATTTGGCTATTGCCAAAATCTTAGATAAGAGAACTGGAAGCTTGTCATTGAAA
CCATACACCTTTAGTTCCAGCTTGTCACTGAAGATAGATACAGAAGTTTCCAACTTGGCAACAC
TGGC
						
					

			
		

Sequences
Splice junction sequence	TAGATAAGAGAACTGGAAGCTTGTCATTGAAACCATACACCTTTAGTTCCAGCTTGTCACTGAA GATAGATACAGAAGTTTCCAACTTGGCAACACTGGCcttcagcacaggctctgatagaactcag atgataacttaaacgctgtgaggtccttaataacaagcgcagacttggaatgtttttcggattc ttttatgt
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	CTTCAGCACAGGCTCTGATAGAACTCAGATGATAACTTAAACGCTGTGAGGTCCTTAATAACAA GCGCAGACTTGGAATGTTTTTCGGATTCTTTTATGTTGGTGTTGCAACCCCATACCCTAACTGC AAGTCTCCGACACTTTGGAGACCATTGTTGCAAATACGTTTTATACCAGCTGATAACGTCATTC TTCTTGATGCTTTTAAGATCTTCTGCTTCCTTCTGTGACTGATCGAACATATACCTGAAAATAA TAATTACAGAAGTTATAATGGAGCATTCAAATATATATTTTTTTATATAATGAATAATACCATC TGGACAAAGTTGGGATACAAACTTTTTGTAATAACTGATATGGCAGATGACACGACACTCATTA ATAGGGGCAACAGAATTACACATTAATTGTGGATTAATAAAGTACACAACTTGCTGATGTTAAT CATTGATAGGTGCCCTATCAATTGGATACAAACTTTATACCCTAACTTATAAACTACAGTATTA TTGACTATGTCAGTAGCCAGAAATCACATCACCATAAATCAGATTATTAATTGAGATATTTAAG GAGTTGTATAGACACAAAGTAGTAACCATTATCAATGGCAACCAAAACCACTAGTACCTTTTAT CGGTGATCTGATTCCAAAATCGATTGGATTCATATGTAAGGGAAGGGTCTTTCTCCAGTAGCTT TGCCATTAAACCACTTCGGTAATTCTCAAAAGATTCATCATCTAAACCTTCCTGCAATGCATAC ATAGTTTAAAATAAGGAAAAGTGTCGTGGAGGAAAGATTAAGTAAACAATGCACAATGTCCAAC AGTACATGCTGACATTGTTTTCACACTTTCAACTTTCCTCAAAAGTGAGTAACATAATAAGATT GAAGGTGCACTAAATTGGCATGGCAATAAACAATACACAGGTCAGAATATCAGCCGTAAATTCT AGCCAAATTCAGCCCCACAGGATGGTTCTTGAAAGGATGAATCATTTTATACCACAAAGCCTAC TCCCCACCCCCATTATTCAATAATCTTTTTCAAGAAATAATTTTTAAGTAGAAGGTAAATTAAG TAGGACATAAAATAACTCATTAAATATATACCACTATACTAAATTATTTAATATGGAATGTAAT TGATTCCCAAAAAATAAACTTTTTTGTCCTACCAGGACCATGCTTTATTTAACTAAATAGATTC ACCAACAAAACTCATGCTTTCTAACGTACAAGAATAGCACTGGCATGCATGCAGCTCCTCTATT TGGTAATGTTAGCTGCACCACTTCATAAGAGGTGACTGATAAAACAAATGAAATCCAGGATATT TAATGTCCCAGAAAGAAGGTCTTTGACTGCCTTTATACCAGATGCTTAATGGCTATATATAGAA ACTGACCCTAGATATATGAAAAAATGCTGGTAACAATCTCCTCTGAGGGGAAAAAAAAAATCCC ATTTTAAAAATAGAAAGATTCATTATGTTATTTGTACCCAAAATTACATAAGAATAACATGACA AAATTTATACAGCATGACTCACTATTACGATCATTTAAATCATTGCATAAACACGAGAAAGTAT CAATTGTTGATACAAAGATCATTAAAAAAACAAAATGAAATTAGATGAGATGGATTTCTATGTT TACCAACAACTCATCCAGGCCACTAATGAAGTTGTCAATTCTCTCCTGCAAATAGATTGGGTTG TACTTGGAAGATTGAATACAGAAACAAAACCCCAAAACACGATATGTTACCCTTGGGCTGCATT CAACAACATAACCAAGCTGCTCCTTTGTCCTATATTCCAAAATAAAGGAAAAATGGGTTAAAAT CAAATCCCAGTTGAAACTCAGTGCCACTGAGGTCATTGATGGTTGATTCTAGGTCTTCCATCCA CACAAAATAAAATTAGAAAAAGGAAACAAAAAAGATAATGCTGAACATTATTATGGGTCAACGG CTCTTTAATGCTTTTCCATTCAGCGTATGCAAGCAGTTAGCTCAACCTAGGAGATTGGAGATTA CATCTAAGAGAACCATTCCCTATGAAAATTATTTGCTTCATAAACTGAGACTAGCTTTCCTTGT CTGGCCTAGAACAAGTAGGGAAACAATAGATCAGACGAATTTCTGACACAGAAAAAACTCTTCC AGTTATAATCAGACAGCACCCGCATCCTATCGAAAAGAAATTTGTCTAAATCAGTATTCTCAAG CCTGAGAACTTTCACCAGTAAAATCCTCTGGAACTAATCTATGGCCACAAAACAACATCGATTG AGAAAGAATTTCTACCCAACGAAAGATCACCTTAGCTGATTAAAAAACGGCTCTTCCAAAATTT CATCGAAAAGATCAATCAAGGCCTTCAATCTTGTCAATTCCATTCCTTTTTCTTGTTCAATTTG GAAATAAAGCTGCAAAGCAAAAACCAAAGAATTAGCAAAAAAGAAAACTGAAGGATGGGAACAC AAAATTTGAGCAGCCCAAAGAAGGATTAAATAATGTCCATTTCAACTACCTCAATCACGGAGTT TGTTTCACACTTATTCTTCACGCTCACATTTCGTACGAGGTTGGCACCTGAGGGAAGGCAAATT ACACACTCTTGATGCCTCATTTCAATCGGAAGAGGTTGTACAGAGAAGATACTTTTAAATATAT TCGATATGTGAATCGCTTCTTCTTGTGACAAATTGCCGTGTAAAAGGCCCTCAATATATAGCTG TTATTTAAGCGGACATAGTAGGTAGGACTCATTGAAAAAAGTCTTAAATCAAAGACAGAAATAT AAAACAAATAACTCAAACCAGAAGTCCAAATTAATCAATCAGATTGACTTATGTCCTAGGTAAA ATGGCAAATCGGCATTAATTAAGAACTGGTAATTCAACCGGCATCGGTGATAGGTTGACAAAAT TTGAGGCTTGACTGCTGATAGATAACCTTGGCCATTAGAAGACACCTGTCAGTAGTTTCCACAT TTTGACCCCTTCAATGTTAGCTTACAAAGTCATAGGTATTTCAGAAATTCAAGATGAAAAACTA AAGTGTCTTCATTAGGGTAAGCAGCAGAATTTATCCATGAATTTAAATTCATTTTAAGTAAGAT ATATTGAATTAAATTGATTGGATGCTCAATTTCCTATTTTATTTTTCCCTGATGGCCAAGAGGT ACCCAAAAACTAATGTTTGTTTTTTTCAAGGGAACCACAATTAGGGTTCAAGCTATCAATGCCA GCTTGAACAACCCTTGCGGTCTATCCTTTCTTTTTTCTCCTTTTCCCTTTGCTTCGAAGGATCG CCAATTTCATAGATCAAAAATGCTGCTTTCATTGGCAAAATGGAAAAGAGAACATGCAACAGCT CCCTGACAATATGGGAGTTATTGGCATGTGAGCATGCGTCTCGTTCAGAACATTCTTCTGGCCA GCCACACACCATCAAGTTTAAGGAAACAATTCTATTTATAAAGAATTTGCAGCACAAATTAAAA AATAAAATCAATGAAAATCTAATTTGCTTAGTAATTAGCAAACCTGTGAACGAAGCTCAGGAAT GAATGCCATCAAATCTGCAAGAGACAGGCCATGTAGTATAGATAACTTCTCATCTACATCATAG AAACTCTGACATAGAACTTGTAGTCTCAGGTATGATGAATGACTAAGCGGCTTCATATTGGTGT TTTTCAAAGTTCTCACCACATCTTCTTTAATGACCTGTTAAGTTCCTAGTCAGTTTCATCAAAG ATAAGCTGAAATAAGAAACAAACAAATTCTACTCCTCCCAACTTAATTCAGCATCAAATTTTTA TCCAACATACATTTAAGATGGTAATAACTATAAACAATCAGTTGCTTCTGTCTCATTTAAATCT ATCATGCATAAGAAACTAATCAAACTGCAGACTTGCTTGCCAGCTAGTATACAATTTTCAACAA GAACCACTCATGACAAAAGTTTCTCAGGTCAGCTGATAATGAGAATACAAGAACCAACAACCCA GGACTTTCTCAGTAAGAAAATGGTAAAATAACACAGCAAGCAAGAGATGGCTGGAAATTGGTAG AATGTAAATAATAATAAGAAGAAGAAGAAGGAGAAGAAGAAGATAATAATAATAATGAAAAAGA TTAAAAAGAAAGAAGAAAGAAGGGGGGGAAAAAATAGTATAGCTACCTTAAAACGATCATCAGA TGGCAGAAAGGATTTGGCTATTGCCAAAATCTTAGATAAGAGAACTGGAAGCTTGTCATTGAAA CCATACACCTTTAGTTCCAGCTTGTCACTGAAGATAGATACAGAAGTTTCCAACTTGGCAACAC TGGC

			
						 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 LOC18040219_circ_g.1

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