Plant Circular RNA Database

Detail information of 3_circ_ag.6

			
						 General Information
					
						CircRNA Name
						3_circ_ag.6
					
						ID in PlantcircBase
						ath_circ_021717
					
						Alias
						Chr3:4818902|4821940
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4818902-4821940  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.16 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 3_circ_igg.28 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15 						
					
						Support reads
						26
					
						Tissues
						seedling
					
						Exon boundary  
						
							NA-NA							"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-CA							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
						NA

General Information
CircRNA Name	3_circ_ag.6
ID in PlantcircBase	ath_circ_021717
Alias	Chr3:4818902\|4821940
Organism	Arabidpsis thaliana
Position	chr3: 4818902-4821940 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G14415_circ_g.1 AT3G14415_circ_g.2 AT3G14415_circ_g.3 AT3G14415_circ_g.4 AT3G14415_circ_g.5 AT3G14415_circ_g.7 3_circ_ag.8 AT3G14415_circ_g.9 3_circ_ag.10 AT3G14415_circ_g.11 3_circ_ag.12 AT3G14415_circ_g.13 AT3G14415_circ_g.14 3_circ_ag.15 3_circ_ag.16 3_circ_ag.17 AT3G14415_circ_g.18 AT3G14415_circ_g.19 AT3G14415_circ_g.20 AT3G14415_circ_g.21 3_circ_ag.22 AT3G14415_circ_g.23 3_circ_ag.24 3_circ_ag.25 3_circ_ag.26 AT3G14415_circ_g.27 3_circ_igg.28 AT3G14420_circ_g.1 AT3G14420_circ_g.2 AT3G14420_circ_g.3 AT3G14420_circ_g.4 AT3G14420_circ_g.5 AT3G14420_circ_g.6 AT3G14420_circ_g.7 AT3G14420_circ_g.8 AT3G14420_circ_g.9 AT3G14420_circ_g.10 AT3G14420_circ_g.11 AT3G14420_circ_g.12 AT3G14420_circ_g.13 AT3G14420_circ_g.14 AT3G14420_circ_g.15
Support reads	26
Tissues	seedling
Exon boundary	NA-NA "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-CA 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	NA

			
						 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  
						
							CAAAGCAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGAC
TCTTCAAGAGAACAGAAACGCTTTTGCAAGGATCCTgcttccggcctcggattttgattgatgt
gaacaaaattgatatggcgactaccgtcttggggttcaagatctcgatgccgatcatggttgct
cctactgc

									
								

					

						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
						
							GCTTCCGGCCTCGGATTTTGATTGATGTGAACAAAATTGATATGGCGACTACCGTCTTGGGGTT
CAAGATCTCGATGCCGATCATGGTTGCTCCTACTGCCTTTCAAAAGATGGCTCACCCTGATGGT
AAAAGACGTTTTTCTTTTTTCCTGAAACAGTCATTTCTAGAGAGTTAAAACTTGTTTTAGTATC
ACTAGAGACAAAGACTGAGGCTTACTCTAATGGAAACTAATGCAGGGGAATATGCTACGGCTAG
AGCTGCGTCTGCTGCTGGAACCATCATGGTATGTTATTATATTCAAAAGAAGATTTTAACCGTC
TTGGTGTTTATAGCTGCTTAATCCACCAATCCATGCATAACCAAGTTTCTGGTTTGAGTTATTT
TCTTCCATGATGTTTCAGACACTATCTTCATGGGCTACTTCAAGTGTTGAAGAAGTTGCTTCCA
CAGGGCCAGGAATCCGATTCTTCCAGCTCTATGTAAGTTGCTTGATGAACAATTCTGATATACC
TGTGGTCACACGTGATGGTTCACACGTTATGATTGTTCTGAGTAGGTATACAAGAACAGGAAGG
TGGTTGAGCAGCTCGTGAGAAGAGCCGAGAAAGCTGGGTTCAAAGCCATTGCTCTCACTGTAGA
CACCCCAAGGCTAGGTCGCAGAGAGTCTGATATCAAGAACAGGTAAAGCCACATCAATTGAAAT
GTGATAAGAGTTGATTAGACTCGAATATGCAAACATATAGCTAAACAATTATAGAGTAACGATG
TGTGTTCTTCTACTACAGATTCACTTTGCCTCCAAACCTGACATTGAAGAACTTTGAAGGTCTT
GACCTTGGAAAGATGGACGAGGCAAGCATCGATCAGATAGTATCCATTACTTAAGTCTGAATAG
TGTCAATGATCCACTTAAAAACTAGCTTTAAAGCATACGGTTTGTTTCCTGATTATGTTCCTAA
ACTTGTTATGTTTCCACCTGCAGGCCAATGACTCTGGCTTGGCTTCGTATGTTGCTGGTCAAAT
TGACCGTACCTTGAGCTGGAAGGTAAGAGAATACAACAAATTTTCAGATACCACAGCAAAACCA
AAAACTTGATTCAGATTGCTCTAACTTTCATCTACAAAAACAGGATATCCAGTGGCTCCAAACA
ATCACCAACATGCCAATTCTTGTCAAGGGTGTTCTTACAGGAGAGGATGGTGAGTTTCCATTTG
CCAAACAAATAATTTCAACACTCTAGTGTCATAGAAATACCTGACAAGGTCAACTATTATTGTC
CCCATGCAGCAAGGATAGCGATTCAAGCTGGAGCAGCAGGGATCATTGTGTCAAATCATGGAGC
TCGCCAGCTTGATTATGTCCCAGCAACAATCTCAGCCCTTGAAGAGGTAGATCATTCTCGACTA
CAAACATAAATCTGTGTTCTCGATAAGTATTTATGTACAAGCACATTAGCTTTGTTCTCTTGTG
TTCAGGTTGTCAAAGCAACACAAGGACGAGTTCCTGTCTTCTTGGATGGTGGTGTTCGACGTGG
CACTGATGTCTTCAAGGCACTTGCACTTGGAGCCTCTGGAATATTTGTAAGCATCACATCATAT
ATCCATTCACCAGAAAGTTGCTTAAAAACAGTAAATATTTAAAATGCCTTCTCAATCTCAGATT
GGAAGACCAGTGGTTTTTGCACTAGCTGCTGAAGGAGAAGCCGGAGTCAAAAAGGTGCTTCAAA
TGTTGCGTGATGAGTTCGAGCTAACCATGGCACTAAGTGGGTGCCGGTCACTCAGTGAAATCAC
CCGTAACCACATTGTCACGGAATGGGACACTCCACGCCATTTGCCCAGGTTATAGAGAAGAAAA
AAAAAACAGAGAACAGAAACAACACGGCACCAAAACGTATTCATATTCTGATTGATCACTTTGC
TTCTACTCTGCTATATTTATATCTCGAAAAACTTGTTTCTCCCTATATCGGATCACAAAAACGT
GCGTAGAGATTCTCTGTAATGCTATTTGGCTACATTTTACCTTTCCGTTTATTCTTATTGCTTG
TACAATAGATGTTGATTCCTACAATACCAATGAATACTAAAATCTGTTCCCGGAAAACTAGTAT
AGTCAGAAAATCTTACATTGCACCCAACTTCCACAATCCAAACACAGTTCAAATCTTATATTAA
CAGCAGCCAAAACCTCACAGAAACTAGCTACCAAAAGAGCACAAAAGAATACTATAGGAGAACT
CAGATTAAGGAAAGACAGGTTTGTGAGATTTACAATACCTTATTGAAGAAGAATGTAAGCGAAT
TCATCCTTCACTTTGTGCTGGGCTAAGTATTGCATCGAAAAGCCCAAAATAATTTGGCTCACGA
ATTCGAAACTCTTGGATTTATGCACTTTTCTGAAAAAAAAAGAAAAACGATTGGTTTACGAATT
ACTACTATTTTTCTACGAGATTAAGAACGATAATATGTAAGAAAAATCTAAGACACACACCATC
CATCAGATTTTTGTCCGTATCTCCTCATCAATTCTTCACCTCCAGCTTCTCATCCATATTTCTT
TCTTTCCAATGCAAACAAGTTTTCAACTGTTAAAAGATAAACCAAAAACTCACAAGCCAATTAA
TCTATCAGAAATATTTAACTTTTAACCAAATAAAAACGTTGAGATATATATAATATAAGCGTTC
CTTACCACTCACACACTTCATCTCTCCCCAGAGCTCTATTCCCATCAAGGTGTGTGAGATTCTC
TGCTAAGACAAACCAAAAACCAGATTGTTTTGCGTTCATGGACATGTTCCTCTCTGGAGATTAG
AATCGTAGCTATGACTATGTCTGAATTTCACAAGAGGTAGCTAACTCAGGCCTTTTTGCTCTTT
TGACAGAAACACACTTCGGAAGATGGAGATCACTAACGTTACCGAGTATGATGCAATCGCAAAG
CAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGACTCTTC
AAGAGAACAGAAACGCTTTTGCAAGGATCCT
						
					

			
		

Sequences
Splice junction sequence	CAAAGCAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGAC TCTTCAAGAGAACAGAAACGCTTTTGCAAGGATCCTgcttccggcctcggattttgattgatgt gaacaaaattgatatggcgactaccgtcttggggttcaagatctcgatgccgatcatggttgct cctactgc
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	GCTTCCGGCCTCGGATTTTGATTGATGTGAACAAAATTGATATGGCGACTACCGTCTTGGGGTT CAAGATCTCGATGCCGATCATGGTTGCTCCTACTGCCTTTCAAAAGATGGCTCACCCTGATGGT AAAAGACGTTTTTCTTTTTTCCTGAAACAGTCATTTCTAGAGAGTTAAAACTTGTTTTAGTATC ACTAGAGACAAAGACTGAGGCTTACTCTAATGGAAACTAATGCAGGGGAATATGCTACGGCTAG AGCTGCGTCTGCTGCTGGAACCATCATGGTATGTTATTATATTCAAAAGAAGATTTTAACCGTC TTGGTGTTTATAGCTGCTTAATCCACCAATCCATGCATAACCAAGTTTCTGGTTTGAGTTATTT TCTTCCATGATGTTTCAGACACTATCTTCATGGGCTACTTCAAGTGTTGAAGAAGTTGCTTCCA CAGGGCCAGGAATCCGATTCTTCCAGCTCTATGTAAGTTGCTTGATGAACAATTCTGATATACC TGTGGTCACACGTGATGGTTCACACGTTATGATTGTTCTGAGTAGGTATACAAGAACAGGAAGG TGGTTGAGCAGCTCGTGAGAAGAGCCGAGAAAGCTGGGTTCAAAGCCATTGCTCTCACTGTAGA CACCCCAAGGCTAGGTCGCAGAGAGTCTGATATCAAGAACAGGTAAAGCCACATCAATTGAAAT GTGATAAGAGTTGATTAGACTCGAATATGCAAACATATAGCTAAACAATTATAGAGTAACGATG TGTGTTCTTCTACTACAGATTCACTTTGCCTCCAAACCTGACATTGAAGAACTTTGAAGGTCTT GACCTTGGAAAGATGGACGAGGCAAGCATCGATCAGATAGTATCCATTACTTAAGTCTGAATAG TGTCAATGATCCACTTAAAAACTAGCTTTAAAGCATACGGTTTGTTTCCTGATTATGTTCCTAA ACTTGTTATGTTTCCACCTGCAGGCCAATGACTCTGGCTTGGCTTCGTATGTTGCTGGTCAAAT TGACCGTACCTTGAGCTGGAAGGTAAGAGAATACAACAAATTTTCAGATACCACAGCAAAACCA AAAACTTGATTCAGATTGCTCTAACTTTCATCTACAAAAACAGGATATCCAGTGGCTCCAAACA ATCACCAACATGCCAATTCTTGTCAAGGGTGTTCTTACAGGAGAGGATGGTGAGTTTCCATTTG CCAAACAAATAATTTCAACACTCTAGTGTCATAGAAATACCTGACAAGGTCAACTATTATTGTC CCCATGCAGCAAGGATAGCGATTCAAGCTGGAGCAGCAGGGATCATTGTGTCAAATCATGGAGC TCGCCAGCTTGATTATGTCCCAGCAACAATCTCAGCCCTTGAAGAGGTAGATCATTCTCGACTA CAAACATAAATCTGTGTTCTCGATAAGTATTTATGTACAAGCACATTAGCTTTGTTCTCTTGTG TTCAGGTTGTCAAAGCAACACAAGGACGAGTTCCTGTCTTCTTGGATGGTGGTGTTCGACGTGG CACTGATGTCTTCAAGGCACTTGCACTTGGAGCCTCTGGAATATTTGTAAGCATCACATCATAT ATCCATTCACCAGAAAGTTGCTTAAAAACAGTAAATATTTAAAATGCCTTCTCAATCTCAGATT GGAAGACCAGTGGTTTTTGCACTAGCTGCTGAAGGAGAAGCCGGAGTCAAAAAGGTGCTTCAAA TGTTGCGTGATGAGTTCGAGCTAACCATGGCACTAAGTGGGTGCCGGTCACTCAGTGAAATCAC CCGTAACCACATTGTCACGGAATGGGACACTCCACGCCATTTGCCCAGGTTATAGAGAAGAAAA AAAAAACAGAGAACAGAAACAACACGGCACCAAAACGTATTCATATTCTGATTGATCACTTTGC TTCTACTCTGCTATATTTATATCTCGAAAAACTTGTTTCTCCCTATATCGGATCACAAAAACGT GCGTAGAGATTCTCTGTAATGCTATTTGGCTACATTTTACCTTTCCGTTTATTCTTATTGCTTG TACAATAGATGTTGATTCCTACAATACCAATGAATACTAAAATCTGTTCCCGGAAAACTAGTAT AGTCAGAAAATCTTACATTGCACCCAACTTCCACAATCCAAACACAGTTCAAATCTTATATTAA CAGCAGCCAAAACCTCACAGAAACTAGCTACCAAAAGAGCACAAAAGAATACTATAGGAGAACT CAGATTAAGGAAAGACAGGTTTGTGAGATTTACAATACCTTATTGAAGAAGAATGTAAGCGAAT TCATCCTTCACTTTGTGCTGGGCTAAGTATTGCATCGAAAAGCCCAAAATAATTTGGCTCACGA ATTCGAAACTCTTGGATTTATGCACTTTTCTGAAAAAAAAAGAAAAACGATTGGTTTACGAATT ACTACTATTTTTCTACGAGATTAAGAACGATAATATGTAAGAAAAATCTAAGACACACACCATC CATCAGATTTTTGTCCGTATCTCCTCATCAATTCTTCACCTCCAGCTTCTCATCCATATTTCTT TCTTTCCAATGCAAACAAGTTTTCAACTGTTAAAAGATAAACCAAAAACTCACAAGCCAATTAA TCTATCAGAAATATTTAACTTTTAACCAAATAAAAACGTTGAGATATATATAATATAAGCGTTC CTTACCACTCACACACTTCATCTCTCCCCAGAGCTCTATTCCCATCAAGGTGTGTGAGATTCTC TGCTAAGACAAACCAAAAACCAGATTGTTTTGCGTTCATGGACATGTTCCTCTCTGGAGATTAG AATCGTAGCTATGACTATGTCTGAATTTCACAAGAGGTAGCTAACTCAGGCCTTTTTGCTCTTT TGACAGAAACACACTTCGGAAGATGGAGATCACTAACGTTACCGAGTATGATGCAATCGCAAAG CAGAAGCTGCCTAAGATGGTGTACGACTACTATGCATCTGGTGCAGAAGACCAATGGACTCTTC AAGAGAACAGAAACGCTTTTGCAAGGATCCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.149219592

Conservation Information
Conserved circRNAs	NA
PMCS	0.149219592

			
						 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 3_circ_ag.6

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