Plant Circular RNA Database

Detail information of AT3G12120_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT3G12120_circ_g.6
					
						ID in PlantcircBase
						ath_circ_021198
					
						Alias
						Chr3:3860560|3863024
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 3860560-3863024  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							AT3G12120						
					
						Parent gene annotation
						
							FAD2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G12120_circ_g.1 AT3G12120_circ_g.2 AT3G12120_circ_g.3 AT3G12120_circ_g.4 AT3G12120_circ_g.5 AT3G12120_circ_g.7 AT3G12120_circ_g.8 AT3G12120_circ_g.9 AT3G12120_circ_g.10 AT3G12120_circ_g.11 AT3G12120_circ_g.12 AT3G12120_circ_g.13 AT3G12120_circ_g.14 AT3G12120_circ_g.15 AT3G12120_circ_g.16 AT3G12120_circ_g.17 AT3G12120_circ_g.18 AT3G12120_circ_g.19 AT3G12120_circ_g.20 						
					
						Support reads
						4
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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  
						
							GT-AA							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
						AT3G12120.1:2
AT3G12120.2:2

General Information
CircRNA Name	AT3G12120_circ_g.6
ID in PlantcircBase	ath_circ_021198
Alias	Chr3:3860560\|3863024
Organism	Arabidpsis thaliana
Position	chr3: 3860560-3863024 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	AT3G12120
Parent gene annotation	FAD2
Parent gene strand	-
Alternative splicing	AT3G12120_circ_g.1 AT3G12120_circ_g.2 AT3G12120_circ_g.3 AT3G12120_circ_g.4 AT3G12120_circ_g.5 AT3G12120_circ_g.7 AT3G12120_circ_g.8 AT3G12120_circ_g.9 AT3G12120_circ_g.10 AT3G12120_circ_g.11 AT3G12120_circ_g.12 AT3G12120_circ_g.13 AT3G12120_circ_g.14 AT3G12120_circ_g.15 AT3G12120_circ_g.16 AT3G12120_circ_g.17 AT3G12120_circ_g.18 AT3G12120_circ_g.19 AT3G12120_circ_g.20
Support reads	4
Tissues	seedling
Exon boundary	No-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	GT-AA 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	AT3G12120.1:2 AT3G12120.2:2

			
						 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  
						
							CACCCTACGAAGAAGAAGCTCCTCCGCAGAATCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCT
CTCTTTTTAATTTGTGAGTGTGTGGCTCTTCTTCTGgagaaaggtcgacaatttcttcaccatc
atcctcataacttattgttgtaccagtacacacctttcttgtcaccttccctgtccggttctac
atagatac

									
								

					

						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
						
							GAGAAAGGTCGACAATTTCTTCACCATCATCCTCATAACTTATTGTTGTACCAGTACACACCTT
TCTTGTCACCTTCCCTGTCCGGTTCTACATAGATACACTCCTTTGCCTCCCTATACATCGCTAC
ATACCACGGTGTTCCATCGAACTGGTAATAGTCTCCCAGAATTGGCTTTATCGCCTTTGTAGCT
TCCATTGCGTTATAATGCGGCATTGTCGAGAACAGGTGATGAGCCACGTGTGTGTCTGTAATGT
TGTGGAACACCTTGTTCAAGATTCCGTAGTCTCTGTCTACGGTAGCCAAAGCTCCCCTGAGCCA
GTCCCACTCTGATGAATCGTAGTGAGGCAACGAGGGATGAGTGTGCTGCAAGTAAGTGATCAAG
ACGAGGAACGCATTCACTATCAGAAGCGGTACTCCGTAGAGGCAGATCATCGAGGCCATCCCTT
GTGCAGCAGCGTAACGGTAAAGACCAAAACAGACGGCTAGAATACCCGCATCAGAGAGGTATAT
CTGGAGGCGTTCTCGGTCATTGTAGATGGGAGCGTTGGGGAAGAAATGGCAAGCGAACCCGTCA
TACGGTCTGCCAGAGACGTTAAAGGCTAAGTACAAGGGCCACCCGAGGACAAACTGGACGGTTA
ACATCATGATGCGTCCAAGAGGGTTGTTGAGGTATTTCCCGTACCACTTGATTGCTGATTTCTG
CTTTGGGACAAATACTTCATCTCTTTCGAGGGATCCAGTGTTGGAATGGTGACGGCGATGACTA
TACTTCCAGGAGAAGTAAGGGACGAGGAGGAAGGAATGGAAGATAAGACCAACTGTGTCATCCA
GCCATTGGTAGTCGCTGAATGCGTGGTGACCGCATTCGTGGGCTATGACCCAGATACCAGTTAG
GACACAGCCTTGACAGGCCCAATAGAGTGGCCAAGCCAAGTAAGAGAGAGGCTGAGGGAGGAGA
GAGAAGTAATTGGTGGCGACGTAGTAGAAGCATGAGGCTATAATGATGTCACTGATAAGGTAGG
AGAAAGAGCGAGGGATTGAGCGTTTGAAACAATGCGGCGGGATTGCTTTCTTCAGATCTCCCAC
CGAGAAAGGCGGTTTCTCGCACGGCACACGCTTTGTGGTGTCGGTTTCCGATTTCTTGGAAGAA
GTAGGAACCGGCATTCTTCCACCTGCACCCATGTTTCTGCAGAAAACCAAAAGCAAAAGAATCA
ACAAGCTGAAAACTCAAGACTATGGAATAGTTTTATCATTAATTCTAAAAAACAGAGCATGCAC
AAGAAACAAGTGGTAACGATTCAAGAGAGTCTTCAGACAAATGATCCAAAGTGGGAAATCAGGT
TGTGAAAGGGATTGCCACAAATAGAAAATGCGTGGACCAAAAGGAATAAAGAGTAGAGAAGCGG
CATAATGTGAGAAATACAAAAACGATTGCGTTGAGAATACGACTAGTAGTAAGTAATACGATGT
TAATAAGGCAGGTCACATCTCTTGCTTGTGGTTAACATCAGTTTGCTTGTATTAAAAATTCAGC
GATCGAAATCACAAATCGTATTGAAAACCAAGTTGACAAACAAAGCCAAAAGAAAACAGTTGAA
GTGATGTATAAGCCACCAGAATTTGTCGACATCATATATCAGATTTAGATATTTAAACAGAAAA
TAAAATGTGACGACGGATCTAGAAAATTTGCCATGCAACTGTAATCGCATCTGAATCAATCAAA
GAGCATCTGATCCTGAATTATTTTGATTCCAACTTTTATCGTAAGGGGTTTAAGAGAATCTATA
AAACTTTTGTTTTCCTTTTATTATGTATTTTTACTATAAAAACCCAATAGGAGTAAAAAATCCA
GGAAAGATTCAATAGTAGAAGCAGATTTTTACCCAGAACAAATAGCCAAAAAATGAATACATTA
ACAAATAACAATTTATGCTGTTTTTTTTTTTTTCAATTTCCACCAACCCACCAGAAAATAAAAT
AAAATAAAGATCTAAACAAATTGGTCAAAGCAAATCATCTTAGAAAAAAAGAAGAAAAGTGAAA
ATGCAACATATCGTTTTGTAGACGAGAGAAACTAATCATTGTATGAATGAGAGAGTTCATTATT
ATTAATGGTGACAGAACATAAACAAACATCAGATTCTCGACCAAAAGAAAAAAACAGAGAAACA
GAGAATCGAGACCAGATCTAAGGTTGAATGTAAGGAGTATAAGCAGATCTATCGTGAGCGGAGA
AATTCACAGAGCAGGAGCTACTGGAAAGAAATAAGAATCAAAATCGAAAATGAGAAGAAATGGA
AGAGAAGCGACGGACCTGGAGATGGAGCTGACGTAGGGGCGATAACGTTAATAACGATGAACAC
CCTACGAAGAAGAAGCTCCTCCGCAGAATCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCTCTC
TTTTTAATTTGTGAGTGTGTGGCTCTTCTTCTG
						
					

			
		

Sequences
Splice junction sequence	CACCCTACGAAGAAGAAGCTCCTCCGCAGAATCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCT CTCTTTTTAATTTGTGAGTGTGTGGCTCTTCTTCTGgagaaaggtcgacaatttcttcaccatc atcctcataacttattgttgtaccagtacacacctttcttgtcaccttccctgtccggttctac atagatac
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	GAGAAAGGTCGACAATTTCTTCACCATCATCCTCATAACTTATTGTTGTACCAGTACACACCTT TCTTGTCACCTTCCCTGTCCGGTTCTACATAGATACACTCCTTTGCCTCCCTATACATCGCTAC ATACCACGGTGTTCCATCGAACTGGTAATAGTCTCCCAGAATTGGCTTTATCGCCTTTGTAGCT TCCATTGCGTTATAATGCGGCATTGTCGAGAACAGGTGATGAGCCACGTGTGTGTCTGTAATGT TGTGGAACACCTTGTTCAAGATTCCGTAGTCTCTGTCTACGGTAGCCAAAGCTCCCCTGAGCCA GTCCCACTCTGATGAATCGTAGTGAGGCAACGAGGGATGAGTGTGCTGCAAGTAAGTGATCAAG ACGAGGAACGCATTCACTATCAGAAGCGGTACTCCGTAGAGGCAGATCATCGAGGCCATCCCTT GTGCAGCAGCGTAACGGTAAAGACCAAAACAGACGGCTAGAATACCCGCATCAGAGAGGTATAT CTGGAGGCGTTCTCGGTCATTGTAGATGGGAGCGTTGGGGAAGAAATGGCAAGCGAACCCGTCA TACGGTCTGCCAGAGACGTTAAAGGCTAAGTACAAGGGCCACCCGAGGACAAACTGGACGGTTA ACATCATGATGCGTCCAAGAGGGTTGTTGAGGTATTTCCCGTACCACTTGATTGCTGATTTCTG CTTTGGGACAAATACTTCATCTCTTTCGAGGGATCCAGTGTTGGAATGGTGACGGCGATGACTA TACTTCCAGGAGAAGTAAGGGACGAGGAGGAAGGAATGGAAGATAAGACCAACTGTGTCATCCA GCCATTGGTAGTCGCTGAATGCGTGGTGACCGCATTCGTGGGCTATGACCCAGATACCAGTTAG GACACAGCCTTGACAGGCCCAATAGAGTGGCCAAGCCAAGTAAGAGAGAGGCTGAGGGAGGAGA GAGAAGTAATTGGTGGCGACGTAGTAGAAGCATGAGGCTATAATGATGTCACTGATAAGGTAGG AGAAAGAGCGAGGGATTGAGCGTTTGAAACAATGCGGCGGGATTGCTTTCTTCAGATCTCCCAC CGAGAAAGGCGGTTTCTCGCACGGCACACGCTTTGTGGTGTCGGTTTCCGATTTCTTGGAAGAA GTAGGAACCGGCATTCTTCCACCTGCACCCATGTTTCTGCAGAAAACCAAAAGCAAAAGAATCA ACAAGCTGAAAACTCAAGACTATGGAATAGTTTTATCATTAATTCTAAAAAACAGAGCATGCAC AAGAAACAAGTGGTAACGATTCAAGAGAGTCTTCAGACAAATGATCCAAAGTGGGAAATCAGGT TGTGAAAGGGATTGCCACAAATAGAAAATGCGTGGACCAAAAGGAATAAAGAGTAGAGAAGCGG CATAATGTGAGAAATACAAAAACGATTGCGTTGAGAATACGACTAGTAGTAAGTAATACGATGT TAATAAGGCAGGTCACATCTCTTGCTTGTGGTTAACATCAGTTTGCTTGTATTAAAAATTCAGC GATCGAAATCACAAATCGTATTGAAAACCAAGTTGACAAACAAAGCCAAAAGAAAACAGTTGAA GTGATGTATAAGCCACCAGAATTTGTCGACATCATATATCAGATTTAGATATTTAAACAGAAAA TAAAATGTGACGACGGATCTAGAAAATTTGCCATGCAACTGTAATCGCATCTGAATCAATCAAA GAGCATCTGATCCTGAATTATTTTGATTCCAACTTTTATCGTAAGGGGTTTAAGAGAATCTATA AAACTTTTGTTTTCCTTTTATTATGTATTTTTACTATAAAAACCCAATAGGAGTAAAAAATCCA GGAAAGATTCAATAGTAGAAGCAGATTTTTACCCAGAACAAATAGCCAAAAAATGAATACATTA ACAAATAACAATTTATGCTGTTTTTTTTTTTTTCAATTTCCACCAACCCACCAGAAAATAAAAT AAAATAAAGATCTAAACAAATTGGTCAAAGCAAATCATCTTAGAAAAAAAGAAGAAAAGTGAAA ATGCAACATATCGTTTTGTAGACGAGAGAAACTAATCATTGTATGAATGAGAGAGTTCATTATT ATTAATGGTGACAGAACATAAACAAACATCAGATTCTCGACCAAAAGAAAAAAACAGAGAAACA GAGAATCGAGACCAGATCTAAGGTTGAATGTAAGGAGTATAAGCAGATCTATCGTGAGCGGAGA AATTCACAGAGCAGGAGCTACTGGAAAGAAATAAGAATCAAAATCGAAAATGAGAAGAAATGGA AGAGAAGCGACGGACCTGGAGATGGAGCTGACGTAGGGGCGATAACGTTAATAACGATGAACAC CCTACGAAGAAGAAGCTCCTCCGCAGAATCTCTCTCTCTCTCTGTCTCTCTCTCTCTCTCTCTC TTTTTAATTTGTGAGTGTGTGGCTCTTCTTCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.281014313

Conservation Information
Conserved circRNAs	NA
PMCS	0.281014313

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to methyl jasmonate

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of AT3G12120_circ_g.6

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