Plant Circular RNA Database

Detail information of LOC18033843_circ_g.1

			
						 General Information
					
						CircRNA Name
						LOC18033843_circ_g.1
					
						ID in PlantcircBase
						ptr_circ_000491
					
						Alias
						circRNA493
					
						Organism
						
							Poncirus trifoliata						
					
						Position
						
							chrNW_006262022.1: 17775550-17779316  JBrowse»						
					
						Reference genome
						
							Citrus_clementina_v1.0						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							LOC18033843						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						shoots
					
						Exon boundary  
						
							Yes-No							"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_006423967.2:9
XM_024178701.1:9

General Information
CircRNA Name	LOC18033843_circ_g.1
ID in PlantcircBase	ptr_circ_000491
Alias	circRNA493
Organism	Poncirus trifoliata
Position	chrNW_006262022.1: 17775550-17779316 JBrowse»
Reference genome	Citrus_clementina_v1.0
Type	e-circRNA
Identification method	CIRI
Parent gene	LOC18033843
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	shoots
Exon boundary	Yes-No "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_006423967.2:9 XM_024178701.1:9

			
						 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  
						
							TTAGTGATATCCTGCTTAAGCTGTTCCAGTTCTGATTTATCATGAGCTCGCTTGGCATCAGTTT
TCTGCTGCTCAGTAACATGTTCTGTAATCTTTTGGTttccaacagcagttcgatactgaggatc
cagtgctgcatcaatttcatcaaacagataaaatggtgcaggatcacatcgctgtattgcaaaa
ataagcgt

									
								

					

						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
						
							TTCCAACAGCAGTTCGATACTGAGGATCCAGTGCTGCATCAATTTCATCAAACAGATAAAATGG
TGCAGGATCACATCGCTGTATTGCAAAAATAAGCGTCAGGGCCACGACAGTTTTCTGACCTCCA
GATAACTGCTTCATTGACTGTGTCTCCCCTTGCCCAGTAAAGGAAACCTACCACATCAAAGGCC
AACTTAGAAATAAAATTACAATGAATTTACGAACTTAAATAAATAAAAAATAAAAATAAAAAAA
GATCATAGAGCCTTTGGTTGTTAAATTAACAGGATCAAGTTTCTGAGGGAGCACAAACCCTTGT
ATAAACATAAATAAGTAATGAAGACTAAAACACCTATAATATTGTGTAGAGGATATCAGTTTCA
AAAACTTAACATATATTGCACTCTCAAATATTTAACAATTCTATTTTGATAAAAGCAAATGAAT
TCATCTTAACAGAAGTACATGCCTTCACTTTCACACCAATATATTTCTCAACCCTTCCTTCCAC
ATCAGATTCACGAGGTCCGTCATCGTCATCATCATCACCATGATCACCATCCTGTCAATCATCA
TTGAGAATTTAGATTTACAAAAAATAAGAGACGTTATTTCAGAAATCATATTGTGATAGATGAT
TTTTCCAATAAGATGAACAGCTCAAATACTAACTAAACAGCAACACCACTCAATACTTCCAAGT
TAAAATGCAATTATTATTTTTTTTTTAATTTTAAACATAGCATGCTAGTAATTGAAAGTCCCTG
CCAGCAAGATTCGAACCCCAGACCTCTAGTTTCAATCCAAGAGAGTTAATCAACTGAACTAGTT
AGCTCCCACAAAATGCTAATAAAACGTCTAAGCCAGGCAATATGTCCAAGCCTGCCACCAAATG
TATTAGAAATGACACCTTTAGGAACGCATGAGAAAACTAGACATCCTCTTTGCACTCTCATTTG
AACCATGGACGCATTTAGATAGTCTTTTGAAACTATGGTGTCCACAGGAGAAATTAACAAGTGA
ACACAAACAAATGACAGTTTCTCAAATCAATAATATAGCATAGAAATGGGGATGAGAACAGATA
ACTGGGATTTAATTGTTCTATCAGGTTCGCTGCTCATTTGTCATGTGAGTTTACTCAAGCGCCA
CTCAACCAGCAAACAAGGTAAAGTCGAGCAGATTTCAACTGGTTCACTCAACAGACTAATGAAC
ATTTTTGACAGTTAACTTGTTTTGAAAAAAAAAAAATCATATGATAATTATATTTAAACAACGT
GTACTTCAGGGCTTCCCATATATGTGCAATAGAATTGCTCTTCCTGAAAGAAAAGGTAGGGCTA
TTTTTATGGAAATAATTTGCTAAAAAATTATATTTTACTAATTACTAGCTTGAGTTGATTTTTT
AGATTCACTTTTCTTATTTGCATATAGATTAGTATATTGTAGTGATTACATTCCTATTTGGCCA
TGATAAATAGGTAAATGTTTAGTTTTCAGTCAAATGATAATTGGCTTTTTCTCCTCTATTCTAT
CTTCCTGACTTCCTTTCTATCTTTTATCAACCACATTCTAGGAAAATCACCTGAAACCATCATA
TACACACACAAAATATCCCAAAACACAAATTTCCAAACAAGATTATCACAGATTTGAGATGTGA
AGACAAGATGGTTCACAGCACAATCAGGAAGCAAGATTAACATATCATCTTTACAGATGTTTCA
CCCAAAAACAAACAGCAAGAGAAAATAATTTTTAAAAAAAACAGAGCCATGCAAGAAATTGAAC
GGCTTAAAGAGAATAATAAATATATGATTCTAACAACCTTTTTCTTCATCATAACTAGATGGCC
ATGGCCACCTTGAACAAGCTCAGAAAATACTTCTCGAAAATGACGAGCAACACCTTTGAAAGTA
CGTTCTATCGATTCATCTTTCCGCTGATCTAAAACTGATATAAGTTCTTTAATTTTCTGCAAAA
CCACATTAATAAAATCTTTAAAGACATACCAAGAATATAAAGTCCAACATCAGAAATCAATTAA
AATTGCAGACTCAACAAAGTTGTCAGTCATTTGAGGTGGGGTGGGGGTTTGTTTGGGAATGGAG
GATCATTAAGGCAGACTCCAATGTAGTAATACCTCATCACCTGCATCCAGTTCAGCTTGCCTTC
TCTGAAGTTCTTCTCGCTGCTCTGTAAAATTTACATATTGGTCAAGTGCTTTCTTATTTACATG
GCTAAACTGCTGCAGTTGCTCATTGCACCTGTGAAGCATTTTAAGCAGTTCTTTGACACCTTTC
CGCTTGTATCTGTCATTCCCAATATAAAAGGAATAAATTAACATTAAGACAGAAAAATTCTACA
TCAGGAAGCAAAAGAGCAAGTGTAACTTAGAGAGTATATAGATGGTACATCACCAGATTAACAA
TAAGAAACCATGCTTCAAGGATGTCATGGTATAAATAGGAATATAAATTACGTGCAACAGATCA
GAAGATAATAAACCTAATAAGCATAGATCTTCCAAGTTTAGACAACTTGAGACCTAATTGTGCA
ACAATTCTTACATGTGCACAATATTTGATATCATTTATCCAGCATAGTTTAGCAATGAATTAAA
TTTAAGTCACAGAGGAGCTATACGTGTCAAAAGCATCTGATGACAATGGACCCAATTCCCTAAT
TTTCTTTGAGTACTCCTCCTGTTTAGCAAGAAGAATATTTCTTCTACTTAATAGTTGTTCAAGT
TCTCTAGCGTCATCCTGCAGTTTCCTCTCATAGTTGTCTTCCAAAGTCTGCATTCACAAAGATT
ATCATTTCAGCAAGGCAAAACAAGAATAACCAACACACTCGCATGATTTACCTTCAACTTGGCC
TTTTCATCCTTTATCTTATTGAGTTCCTTTGTAAGTTGAACTATACTGTCAGAAACCCCTGCAT
AGCAATACCCTCAGTGAAAACATGAAAAACGCAATCTACGCTTCATACTTAAGACATTTCATGG
AAGAGAAAATAATAATATAGATATAAAATCTCACTTTTAAGCTCTTGTCTTGCATCTTCAACAA
ATGATTTAGCATCTGCCAATTCCTGCTTCTTTGATTCAGCTTCACTTAGCATCACATCATTCTC
TGCAGAAGATATAAGAGCTTCCAACTCTTGCTTTCGCCTCATAAGGTTAGTTGTTAGATTAGTC
TCAAGCTCCGCTTTTCTGGTTTCATACTAAAAGAAAAGGCACATAAATGAGAACACACAGCTTT
ATTCAAGTAGCAACATTCTATAGCTCCAATAGTGTTCACTATGCTAACCTCAATGCGATCTGTC
CTGCAGGTGATAAGCTTCTCCTTGAGCTCAGTTATTTCAGGGTTTAAACGCGATAGAAGATTTT
TTTCATCTAGTGATAAGTGATCAATGAGGTCTGTGTTCATTTCAGCCTGTTTCATAGCCATACT
AGCTTCAAGTTGATCAAGTTGTGTCCTCACATCTGCAAGTGACTTTTCCTACAAACAAGTGAAA
GAAGGCAGCACAGAGGGTACAAAGAAAAGAATAATTACAAACTGCTAACAATGAATGCCCAATT
GCAAGTAACATAAAATATTCTAAAGGTCTTGAAATACCTTATTTTCAAGAGCTTTAGAAATAAT
TTGCTTCTGCTTATTAGCATTAGTGATATCCTGCTTAAGCTGTTCCAGTTCTGATTTATCATGA
GCTCGCTTGGCATCAGTTTTCTGCTGCTCAGTAACATGTTCTGTAATCTTTTGGT
						
					

			
		

Sequences
Splice junction sequence	TTAGTGATATCCTGCTTAAGCTGTTCCAGTTCTGATTTATCATGAGCTCGCTTGGCATCAGTTT TCTGCTGCTCAGTAACATGTTCTGTAATCTTTTGGTttccaacagcagttcgatactgaggatc cagtgctgcatcaatttcatcaaacagataaaatggtgcaggatcacatcgctgtattgcaaaa ataagcgt
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	TTCCAACAGCAGTTCGATACTGAGGATCCAGTGCTGCATCAATTTCATCAAACAGATAAAATGG TGCAGGATCACATCGCTGTATTGCAAAAATAAGCGTCAGGGCCACGACAGTTTTCTGACCTCCA GATAACTGCTTCATTGACTGTGTCTCCCCTTGCCCAGTAAAGGAAACCTACCACATCAAAGGCC AACTTAGAAATAAAATTACAATGAATTTACGAACTTAAATAAATAAAAAATAAAAATAAAAAAA GATCATAGAGCCTTTGGTTGTTAAATTAACAGGATCAAGTTTCTGAGGGAGCACAAACCCTTGT ATAAACATAAATAAGTAATGAAGACTAAAACACCTATAATATTGTGTAGAGGATATCAGTTTCA AAAACTTAACATATATTGCACTCTCAAATATTTAACAATTCTATTTTGATAAAAGCAAATGAAT TCATCTTAACAGAAGTACATGCCTTCACTTTCACACCAATATATTTCTCAACCCTTCCTTCCAC ATCAGATTCACGAGGTCCGTCATCGTCATCATCATCACCATGATCACCATCCTGTCAATCATCA TTGAGAATTTAGATTTACAAAAAATAAGAGACGTTATTTCAGAAATCATATTGTGATAGATGAT TTTTCCAATAAGATGAACAGCTCAAATACTAACTAAACAGCAACACCACTCAATACTTCCAAGT TAAAATGCAATTATTATTTTTTTTTTAATTTTAAACATAGCATGCTAGTAATTGAAAGTCCCTG CCAGCAAGATTCGAACCCCAGACCTCTAGTTTCAATCCAAGAGAGTTAATCAACTGAACTAGTT AGCTCCCACAAAATGCTAATAAAACGTCTAAGCCAGGCAATATGTCCAAGCCTGCCACCAAATG TATTAGAAATGACACCTTTAGGAACGCATGAGAAAACTAGACATCCTCTTTGCACTCTCATTTG AACCATGGACGCATTTAGATAGTCTTTTGAAACTATGGTGTCCACAGGAGAAATTAACAAGTGA ACACAAACAAATGACAGTTTCTCAAATCAATAATATAGCATAGAAATGGGGATGAGAACAGATA ACTGGGATTTAATTGTTCTATCAGGTTCGCTGCTCATTTGTCATGTGAGTTTACTCAAGCGCCA CTCAACCAGCAAACAAGGTAAAGTCGAGCAGATTTCAACTGGTTCACTCAACAGACTAATGAAC ATTTTTGACAGTTAACTTGTTTTGAAAAAAAAAAAATCATATGATAATTATATTTAAACAACGT GTACTTCAGGGCTTCCCATATATGTGCAATAGAATTGCTCTTCCTGAAAGAAAAGGTAGGGCTA TTTTTATGGAAATAATTTGCTAAAAAATTATATTTTACTAATTACTAGCTTGAGTTGATTTTTT AGATTCACTTTTCTTATTTGCATATAGATTAGTATATTGTAGTGATTACATTCCTATTTGGCCA TGATAAATAGGTAAATGTTTAGTTTTCAGTCAAATGATAATTGGCTTTTTCTCCTCTATTCTAT CTTCCTGACTTCCTTTCTATCTTTTATCAACCACATTCTAGGAAAATCACCTGAAACCATCATA TACACACACAAAATATCCCAAAACACAAATTTCCAAACAAGATTATCACAGATTTGAGATGTGA AGACAAGATGGTTCACAGCACAATCAGGAAGCAAGATTAACATATCATCTTTACAGATGTTTCA CCCAAAAACAAACAGCAAGAGAAAATAATTTTTAAAAAAAACAGAGCCATGCAAGAAATTGAAC GGCTTAAAGAGAATAATAAATATATGATTCTAACAACCTTTTTCTTCATCATAACTAGATGGCC ATGGCCACCTTGAACAAGCTCAGAAAATACTTCTCGAAAATGACGAGCAACACCTTTGAAAGTA CGTTCTATCGATTCATCTTTCCGCTGATCTAAAACTGATATAAGTTCTTTAATTTTCTGCAAAA CCACATTAATAAAATCTTTAAAGACATACCAAGAATATAAAGTCCAACATCAGAAATCAATTAA AATTGCAGACTCAACAAAGTTGTCAGTCATTTGAGGTGGGGTGGGGGTTTGTTTGGGAATGGAG GATCATTAAGGCAGACTCCAATGTAGTAATACCTCATCACCTGCATCCAGTTCAGCTTGCCTTC TCTGAAGTTCTTCTCGCTGCTCTGTAAAATTTACATATTGGTCAAGTGCTTTCTTATTTACATG GCTAAACTGCTGCAGTTGCTCATTGCACCTGTGAAGCATTTTAAGCAGTTCTTTGACACCTTTC CGCTTGTATCTGTCATTCCCAATATAAAAGGAATAAATTAACATTAAGACAGAAAAATTCTACA TCAGGAAGCAAAAGAGCAAGTGTAACTTAGAGAGTATATAGATGGTACATCACCAGATTAACAA TAAGAAACCATGCTTCAAGGATGTCATGGTATAAATAGGAATATAAATTACGTGCAACAGATCA GAAGATAATAAACCTAATAAGCATAGATCTTCCAAGTTTAGACAACTTGAGACCTAATTGTGCA ACAATTCTTACATGTGCACAATATTTGATATCATTTATCCAGCATAGTTTAGCAATGAATTAAA TTTAAGTCACAGAGGAGCTATACGTGTCAAAAGCATCTGATGACAATGGACCCAATTCCCTAAT TTTCTTTGAGTACTCCTCCTGTTTAGCAAGAAGAATATTTCTTCTACTTAATAGTTGTTCAAGT TCTCTAGCGTCATCCTGCAGTTTCCTCTCATAGTTGTCTTCCAAAGTCTGCATTCACAAAGATT ATCATTTCAGCAAGGCAAAACAAGAATAACCAACACACTCGCATGATTTACCTTCAACTTGGCC TTTTCATCCTTTATCTTATTGAGTTCCTTTGTAAGTTGAACTATACTGTCAGAAACCCCTGCAT AGCAATACCCTCAGTGAAAACATGAAAAACGCAATCTACGCTTCATACTTAAGACATTTCATGG AAGAGAAAATAATAATATAGATATAAAATCTCACTTTTAAGCTCTTGTCTTGCATCTTCAACAA ATGATTTAGCATCTGCCAATTCCTGCTTCTTTGATTCAGCTTCACTTAGCATCACATCATTCTC TGCAGAAGATATAAGAGCTTCCAACTCTTGCTTTCGCCTCATAAGGTTAGTTGTTAGATTAGTC TCAAGCTCCGCTTTTCTGGTTTCATACTAAAAGAAAAGGCACATAAATGAGAACACACAGCTTT ATTCAAGTAGCAACATTCTATAGCTCCAATAGTGTTCACTATGCTAACCTCAATGCGATCTGTC CTGCAGGTGATAAGCTTCTCCTTGAGCTCAGTTATTTCAGGGTTTAAACGCGATAGAAGATTTT TTTCATCTAGTGATAAGTGATCAATGAGGTCTGTGTTCATTTCAGCCTGTTTCATAGCCATACT AGCTTCAAGTTGATCAAGTTGTGTCCTCACATCTGCAAGTGACTTTTCCTACAAACAAGTGAAA GAAGGCAGCACAGAGGGTACAAAGAAAAGAATAATTACAAACTGCTAACAATGAATGCCCAATT GCAAGTAACATAAAATATTCTAAAGGTCTTGAAATACCTTATTTTCAAGAGCTTTAGAAATAAT TTGCTTCTGCTTATTAGCATTAGTGATATCCTGCTTAAGCTGTTCCAGTTCTGATTTATCATGA GCTCGCTTGGCATCAGTTTTCTGCTGCTCAGTAACATGTTCTGTAATCTTTTGGT

			
						 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 LOC18033843_circ_g.1

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