Plant Circular RNA Database

Detail information of 2_circ_ag.2

			
						 General Information
					
						CircRNA Name
						2_circ_ag.2
					
						ID in PlantcircBase
						ath_circ_015019
					
						Alias
						Chr2:11393465|11396217
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 11393465-11396217  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
						
							2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 						
					
						Support reads
						14
					
						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  
						
							CT-TA							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	2_circ_ag.2
ID in PlantcircBase	ath_circ_015019
Alias	Chr2:11393465\|11396217
Organism	Arabidpsis thaliana
Position	chr2: 11393465-11396217 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	2_circ_ag.3 2_circ_ag.4 2_circ_ag.5
Support reads	14
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	CT-TA 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  
						
							CACACCAGGCATATAGTAGACCAGATCAAGCTCCCCTATCACAAACTTTGTAGGAACCTGGATT
TTGCTTCCCACCCATGGACCCAACAACTCATTGTTCcctgttgaagttacggtagtaattgact
ggaccagagaagcctttctcttcaaacttgctgacgaagtaagcaacatcttcctccgttagcc
aagacggg

									
								

					

						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
						
							CCTGTTGAAGTTACGGTAGTAATTGACTGGACCAGAGAAGCCTTTCTCTTCAAACTTGCTGACG
AAGTAAGCAACATCTTCCTCCGTTAGCCAAGACGGGAGTGGTATAGTTTCGCCTTTGGATCCCC
AAAAACTTTTGTCCTTCGGGATAATTACCGGTCCAGGAGTTCTATAAGTGAGTAGTCTCTTCAT
GACTCTCTCTGTTCCAACCTCTGCAATCTCAGCTTCTACATCTCCAAATTCCTACACTCAACCA
TCTAACCTAATAACTAACTTTTCCTTCAAGTAATTATCTACAAGACTATAAAGAACAAACCTGA
AACCTGCAGATATAGTAATCATCGCCGTAGAAAGCACGCATGCGATCAACGGGCTTCACCGATG
GATCGGTTGGCCGGAAAGAGAACGGAACACTGAGGTTGACCAGAGCTTTGACTCTATCTGGTCG
GAAGAGACATAAATACCAAGCGATGAGAGCTCCCCAATCATGTCCAACCACAAAGACCTTCTCA
TCCTCTGAGGCGGTTAAGGCGGATATGACGGCGATTAAGTCACCAACGATGTTGAAGCATGTGT
AGGAAGAGATCTCAGCGGGAGCATCGGAGTCACCGTAACCACGTAGGTCAGGAGCGACGGCACG
GTAGCCACGAGCGGCGAGTCCAGGGATCTGGTGGCGCCATGAGTACCAAAGCTCAGGGAAACCA
TGGAGGAGGAGGACTATAGGACCATCGGAGGGACCTTGGATTGCTACGTGAATGTCTATGCCGT
TCCCTCTTACCTTTCTGTGTTCCATTGTAATTACTTTGTGTGGTCGTGGCCAAGGCTTGAGTGA
CTAATCTTTTATACTAGATAGATACCAACACGTGTTAATATAATTACTCATTTATCTCTAAAAG
TTTTTTTTTTTTTTTTTTTTTTCTCTCTTTTCTTTTGCTATTGTGTGCTGTTCTTAGTCAATAT
CACAATGGCATTTAGCGTCAAATCCAAACCCCGTACGAGTGCAATGAATTGAGAATGAATTGAC
GACTTGACATTTATAAAATTATGCAAGGTTGATGTCACAAAACTAAAAAGATGCGTTGTAAACT
TTTCTCAGACTTTCTATTGTTTGTGGAATCAAATTCAAAAGATTTTGGATAGAAACGTTCTAAA
TCGAGTAAAGATGATATAACATTTTTCTGCAATTTTTAGGCTAAAAAGGAGATACATGAGATGT
GTTGAAATTTAAGAATATCTGACTTTTTAAATCGTGGAGTAACTGTGTTTCTTTAGTTGGCAAA
TCATTAACCAAATTGACTTATTTGTTTCCTTTTTGTAAGTATGGAAAGAATCTTTAGAGGATTG
ACACACAATAAATGCATTTCTTGAATACAAAGTTGATGAGTCTTTCATATACATTAGTCTAAGA
AAAATATTTGGGTTAACTCTTGCATTCATCTCCTTTAATTTAAGCCAATCATTATATCATATCA
TATAATAATAATAAAAACAAAATTTATATAATTTTAAATTTTAATTAAATTAGATTAATTATAT
ATAGAATTTAGACTTTACAATTAAACAAAATTATATGTTAGTTTGAGTTTATATTATAAATATT
AGATTTAGATTTTAAAATTAATAAAAATTATATGTCGTTTTGGATTTATAAAAAATGTGATTAA
AATTGAGATTTCCAATTAAACAAAATTATTTGTTTATTTGGGTTTAAAAAAGTAGATTAGAGTT
TAAATTTTACAATTAAACAAAATTATATGTCAGTTTGAGTTTATAAAAGAGTAGTTAAGATTTA
CATTTTACAATTAAATAAAATTATATGTCAGTTTGAGTTTATAAATAGTGGTTATATTTTAAAT
TTTACAATTAAATGAAATTATAATTTGTACAACATGCATAATGATTGGCTTAAAGTAAAAGAAG
GTTTACTCAAAAATTGTCCTAAATCTTATCTAATGTTGTGGGTTAGAATATGCAATATGCATAT
TTTTTCCAAAATCTTACTTTTTAATCTTTAAATTAACATTCTAACTCATCTTCTCTTATCCACC
TATTAATTCTACATATATACAGAATTTCTACACTCTAATAATATATTTGTTTAATAAATTCAAC
ATCCTGCCTCACGATTTTTGTTTCATATATTTTATTATTATTATATTTGTATTTTTGTGATTAA
ATTAATATACATTATCGATTAAAATTTATTAAAAATAATTAAGAGTTAGATAGTCTTATAAATA
TATTTTTTAAACCTTTTTATTTTATATTATTCTTACACATGGTATTCACGGTTTAAATAATTTT
GTTACATTGTGATGTAGCTTAGAAGAATGTCACATGATATGCACGCACCCAACTTTATTATTAA
TACATATATTACATAGGATGATGATATAACCATAAGATGAAAAAAAAAAAAATGATGATATAAC
CATACATGAAGATACATCCTCAAAATTCAACTTATTATGGAACTTACAAGAGTGTTTTATAAGG
GAACGAAATATTAGAATGTGGAGATGAAATCAAGGATTATTTGGAGAATCTCTTGAGGCTTCTC
TTGGTTAAGAAAGTGAGCCACTCCTTCCATGACCACAGGCTCTTCAATCAAAGGCACATCTTCC
TTAAACTGGGGACCATGTATATATTCCTTCACACCAGGCATATAGTAGACCAGATCAAGCTCCC
CTATCACAAACTTTGTAGGAACCTGGATTTTGCTTCCCACCCATGGACCCAACAACTCATTGTT
C
						
					

			
		

Sequences
Splice junction sequence	CACACCAGGCATATAGTAGACCAGATCAAGCTCCCCTATCACAAACTTTGTAGGAACCTGGATT TTGCTTCCCACCCATGGACCCAACAACTCATTGTTCcctgttgaagttacggtagtaattgact ggaccagagaagcctttctcttcaaacttgctgacgaagtaagcaacatcttcctccgttagcc aagacggg
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	CCTGTTGAAGTTACGGTAGTAATTGACTGGACCAGAGAAGCCTTTCTCTTCAAACTTGCTGACG AAGTAAGCAACATCTTCCTCCGTTAGCCAAGACGGGAGTGGTATAGTTTCGCCTTTGGATCCCC AAAAACTTTTGTCCTTCGGGATAATTACCGGTCCAGGAGTTCTATAAGTGAGTAGTCTCTTCAT GACTCTCTCTGTTCCAACCTCTGCAATCTCAGCTTCTACATCTCCAAATTCCTACACTCAACCA TCTAACCTAATAACTAACTTTTCCTTCAAGTAATTATCTACAAGACTATAAAGAACAAACCTGA AACCTGCAGATATAGTAATCATCGCCGTAGAAAGCACGCATGCGATCAACGGGCTTCACCGATG GATCGGTTGGCCGGAAAGAGAACGGAACACTGAGGTTGACCAGAGCTTTGACTCTATCTGGTCG GAAGAGACATAAATACCAAGCGATGAGAGCTCCCCAATCATGTCCAACCACAAAGACCTTCTCA TCCTCTGAGGCGGTTAAGGCGGATATGACGGCGATTAAGTCACCAACGATGTTGAAGCATGTGT AGGAAGAGATCTCAGCGGGAGCATCGGAGTCACCGTAACCACGTAGGTCAGGAGCGACGGCACG GTAGCCACGAGCGGCGAGTCCAGGGATCTGGTGGCGCCATGAGTACCAAAGCTCAGGGAAACCA TGGAGGAGGAGGACTATAGGACCATCGGAGGGACCTTGGATTGCTACGTGAATGTCTATGCCGT TCCCTCTTACCTTTCTGTGTTCCATTGTAATTACTTTGTGTGGTCGTGGCCAAGGCTTGAGTGA CTAATCTTTTATACTAGATAGATACCAACACGTGTTAATATAATTACTCATTTATCTCTAAAAG TTTTTTTTTTTTTTTTTTTTTTCTCTCTTTTCTTTTGCTATTGTGTGCTGTTCTTAGTCAATAT CACAATGGCATTTAGCGTCAAATCCAAACCCCGTACGAGTGCAATGAATTGAGAATGAATTGAC GACTTGACATTTATAAAATTATGCAAGGTTGATGTCACAAAACTAAAAAGATGCGTTGTAAACT TTTCTCAGACTTTCTATTGTTTGTGGAATCAAATTCAAAAGATTTTGGATAGAAACGTTCTAAA TCGAGTAAAGATGATATAACATTTTTCTGCAATTTTTAGGCTAAAAAGGAGATACATGAGATGT GTTGAAATTTAAGAATATCTGACTTTTTAAATCGTGGAGTAACTGTGTTTCTTTAGTTGGCAAA TCATTAACCAAATTGACTTATTTGTTTCCTTTTTGTAAGTATGGAAAGAATCTTTAGAGGATTG ACACACAATAAATGCATTTCTTGAATACAAAGTTGATGAGTCTTTCATATACATTAGTCTAAGA AAAATATTTGGGTTAACTCTTGCATTCATCTCCTTTAATTTAAGCCAATCATTATATCATATCA TATAATAATAATAAAAACAAAATTTATATAATTTTAAATTTTAATTAAATTAGATTAATTATAT ATAGAATTTAGACTTTACAATTAAACAAAATTATATGTTAGTTTGAGTTTATATTATAAATATT AGATTTAGATTTTAAAATTAATAAAAATTATATGTCGTTTTGGATTTATAAAAAATGTGATTAA AATTGAGATTTCCAATTAAACAAAATTATTTGTTTATTTGGGTTTAAAAAAGTAGATTAGAGTT TAAATTTTACAATTAAACAAAATTATATGTCAGTTTGAGTTTATAAAAGAGTAGTTAAGATTTA CATTTTACAATTAAATAAAATTATATGTCAGTTTGAGTTTATAAATAGTGGTTATATTTTAAAT TTTACAATTAAATGAAATTATAATTTGTACAACATGCATAATGATTGGCTTAAAGTAAAAGAAG GTTTACTCAAAAATTGTCCTAAATCTTATCTAATGTTGTGGGTTAGAATATGCAATATGCATAT TTTTTCCAAAATCTTACTTTTTAATCTTTAAATTAACATTCTAACTCATCTTCTCTTATCCACC TATTAATTCTACATATATACAGAATTTCTACACTCTAATAATATATTTGTTTAATAAATTCAAC ATCCTGCCTCACGATTTTTGTTTCATATATTTTATTATTATTATATTTGTATTTTTGTGATTAA ATTAATATACATTATCGATTAAAATTTATTAAAAATAATTAAGAGTTAGATAGTCTTATAAATA TATTTTTTAAACCTTTTTATTTTATATTATTCTTACACATGGTATTCACGGTTTAAATAATTTT GTTACATTGTGATGTAGCTTAGAAGAATGTCACATGATATGCACGCACCCAACTTTATTATTAA TACATATATTACATAGGATGATGATATAACCATAAGATGAAAAAAAAAAAAATGATGATATAAC CATACATGAAGATACATCCTCAAAATTCAACTTATTATGGAACTTACAAGAGTGTTTTATAAGG GAACGAAATATTAGAATGTGGAGATGAAATCAAGGATTATTTGGAGAATCTCTTGAGGCTTCTC TTGGTTAAGAAAGTGAGCCACTCCTTCCATGACCACAGGCTCTTCAATCAAAGGCACATCTTCC TTAAACTGGGGACCATGTATATATTCCTTCACACCAGGCATATAGTAGACCAGATCAAGCTCCC CTATCACAAACTTTGTAGGAACCTGGATTTTGCTTCCCACCCATGGACCCAACAACTCATTGTT C

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.166191637

Conservation Information
Conserved circRNAs	NA
PMCS	0.166191637

			
						 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 2_circ_ag.2

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