Plant Circular RNA Database

Detail information of 1_circ_ag.15

			
						 General Information
					
						CircRNA Name
						1_circ_ag.15
					
						ID in PlantcircBase
						ath_circ_001238
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2456114-2459475  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							1_circ_ag.16 1_circ_ag.17 AT1G07920_circ_g.1 1_circ_ag.2 AT1G07920_circ_g.3 1_circ_ag.4 AT1G07930_circ_g.1 AT1G07930_circ_g.2 						
					
						Support reads
						459
					
						Tissues
						root, aerial, inflorescences, seed
					
						Exon boundary  
						
							Yes-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  
						
							GT-AG							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	1_circ_ag.15
ID in PlantcircBase	ath_circ_001238
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 2456114-2459475 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	1_circ_ag.16 1_circ_ag.17 AT1G07920_circ_g.1 1_circ_ag.2 AT1G07920_circ_g.3 1_circ_ag.4 AT1G07930_circ_g.1 AT1G07930_circ_g.2
Support reads	459
Tissues	root, aerial, inflorescences, seed
Exon boundary	Yes-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	GT-AG 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  
						
							TGGTTTTGAGGCTGGTATCTCCAAGGATGGTCAGACCCGTGAGCACGCTCTCCTTGCTTTCACC
CTTGGTGTCAAGCAGATGATCTGCTGTTGTAACAAGatggatgccactacccccaagtactcca
aggccaggtacgatgaaatcatcaaggaggtgtcttcctacttgaagaaggttggttacaaccc
cgacaaaa

									
								

					

						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
						
							ATGGATGCCACTACCCCCAAGTACTCCAAGGCCAGGTACGATGAAATCATCAAGGAGGTGTCTT
CCTACTTGAAGAAGGTTGGTTACAACCCCGACAAAATCCCATTTGTGCCCATCTCTGGATTTGA
GGGTGACAACATGATTGAGAGGTCCACCAACCTTGACTGGTACAAGGGACCAACTCTCCTTGAG
GCTCTTGACCAGATCAACGAGCCCAAGAGGCCGTCAGACAAGCCCCTTCGTCTCCCACTTCAGG
ATGTCTACAAGATTGGTGGTATTGGAACGGTGCCAGTGGGACGTGTTGAGACTGGTATGATCAA
GCCTGGTATGGTTGTGACCTTTGCTCCCACAGGATTGACCACTGAGGTCAAGTCTGTTGAGATG
CACCACGAGTCTCTTCTTGAGGCACTTCCAGGTGACAACGTTGGGTTCAATGTTAAGAATGTTG
CTGTCAAGGATCTTAAGAGAGGGTACGTCGCATCCAACTCCAAGGATGACCCTGCCAAGGGTGC
TGCTAACTTCACCTCCCAGGTCATCATCATGAACCACCCTGGTCAGATTGGTAACGGTTACGCC
CCAGTCCTGGATTGCCACACCTCTCACATTGCAGTCAAGTTCTCTGAGATCTTGACCAAGATTG
ACAGGCGTTCTGGTAAGGAGATTGAGAAGGAGCCCAAGTTCTTGAAGAATGGTGATGCTGGTAT
GGTGAAGATGACTCCAACCAAGCCCATGGTTGTGGAGACCTTCTCTGAGTACCCACCACTTGGA
CGTTTCGCTGTGAGGGACATGAGGCAGACTGTTGCAGTCGGTGTTATCAAGAGTGTTGACAAGA
AGGACCCAACCGGAGCCAAGGTTACCAAGGCTGCCGTCAAGAAGGGTGCGAAGTGAACCATCCT
CAAAACTCTATCTGCCGCAGGTGAATCAAAGGACAGTGTTAGTTTTATTACAATAGTTTGGTAT
TTGGTCGCGTGTCTGTGTTCTTGTTTCGTTTTCTCCCCGTCAGAGCGTTGTTCTCGTAATTGGG
TTCTTGATCGGAGGTGGCGGATCTACACACACATTCTTCCTGTTTTTTGCTTTTTATTTGTTTT
CTCATTTTGAACTGTTTTAAAATTTCTGTTATATGAATGAATGTTTTCCCTGCGGTTATTATCT
TCTTTACTCTAATTTTCTCTTGTTGCGTAAATCGTTTCCGAAATCTTTTTACCTCTCTTCTCTA
TTGTCATAATTAATCGCTGCTTTCAATTTAAACTTTTTGAAAGCTAAAATAAAAGTTTTATGGT
TTCAAATACTCACCGTTACCGTTCTGTCCGCAACACGTGTATTCAATTTGTTGCTGGGCTGTAA
TGATCGGCCCAAATCAATCTAATTTTTTATTTATTTTTACATGTCCAATATAAGGCTTAATAGA
TAAATTGGACTTGGTTAAGGTCCATTATAGATGCCACTGTGGTACCATTAGCCTTGCATTGTTT
TTTTTGTTTTTACATGCCCAATATAAGGCTTAATAGATAAATTGAACTTGGTTTAAGGTCCATT
ATAGTCCAATATAAGGCTTAATAGATAAACTGGAATTACATGAGAGTAGTGGTATCATACCAAA
ATTCATGATTTTGCATCATTATTTTCTGGCATTGGATGATGATGAATATATAAATATTTCGCTT
ATGAAATAGAAAGCCTTGCTCAAATAATGAAGCACATGAGTTGGACTTAAAGCCAAAAATAAGG
CGAGATGTTTTTTTTTTTGTTAAAGGGTTTAATAAGGCGAGATGTTACCAGTGTATTTGAAGCA
AATCAATGTAATCAGTTGTACACAGGCAGGAGATATATAGCGATCAGATACATAAAATATATGT
ATAAATACGTACTTTTTGCTAGTGCTCTCTACCAGCGTTTTCATTATGAAGTCTAATTTTTTTT
TTTTTTTTTTTTTTAACTGATTTGTTCTGATTTATAAATCTTCGTATGATCGTATCTAAAGAGA
ACATGCTCCCGTGAGTCGTTGACGTTAAGTATGGGGGGAGACATTACCGGAACGAAAATTAGTA
AAACAGGCGGCCAGACATAAGGGTAAAATTGTCATTACGCTAAGGAGATTATCTTAAACCCTAA
CTTTTTTCCGCTTCACCACTATAAATACAAACTTGTTTACCCTTCCAATTTATTTCTCTACTTG
TCCACTTTTCTACAGCCGCATCATCCTTCTCCCTTGTGCGATATCGTTTGCGTGAGGTTAGCTT
TTCATACGATTCTTCGATTTGAATTCTTATTCTTCCGATCGATTTGGTAGATTCAATTTCGTCC
CGTTGTCGTTTGCTTCTTCTTAATCACTTCTATGCTTCTTTACATGTAACTCTCTGATTTGTTG
ATAGGATCGTTTAGATTCTTTGATTCCATGGCTTTGAACTTATCGATTGAGGAAATTAACGTTC
TGTAGTGCAATCGAACTGGCTTTCCTTTTATTATTTCAAATTCAGATCATGTAATCTGTCGATC
TAGTTCTTTGAATTTTCTGTTGTGCGATTGATTGTTTGTTAGATCCATATGTGTAAGGTTAAAT
TGATCTATTGGTATAATACATACGTTTCTAGTTATCAAATTGATTTGTGATTGGGTAATTCTGG
AGCAGCATAAAAAATCCATTGTTTCTTTCCTTCTTGAATCTAAGTCGTGGAAACTCTAGGATTG
TTTGCTGTATATCTCTTGAAATTGCTTGTTTGATTGAATTTAGCTCGCTTAGCTCAGATGATAG
AGCACCACAATTTTGTGGTAGAAATCGGTTTGAATCCGATAGCGGCTTTTAACAATGATTGTTT
TTTGTGTTCATATGTCTACTGTTTTTATTGATTCAATATTTGATTGTTCTTTTTTTTGCAGATT
TGTCTGAAAAGTAGCTAACCATGGGTAAAGAGAAGTTTCACATCAACATTGTGGTCATTGGCCA
CGTCGATTCTGGAAAGTCGACAACCACTGGACACTTGATCTACAAGTTGGGTGGTATTGACAAG
CGTGTGATCGAGAGGTTCGAGAAGGAGGCTGCTGAGATGAACAAGAGGTCCTTCAAGTACGCAT
GGGTGTTGGACAAACTTAAGGCTGAGCGTGAGCGTGGTATCACCATTGACATTGCTCTCTGGAA
GTTCGAGACCACCAAGTACTACTGCACTGTCATTGATGCTCCTGGTCATCGTGATTTCATCAAG
AACATGATCACTGGTACCTCCCAGGCTGATTGTGCTGTCCTTATCATTGACTCCACCACTGGTG
GTTTTGAGGCTGGTATCTCCAAGGATGGTCAGACCCGTGAGCACGCTCTCCTTGCTTTCACCCT
TGGTGTCAAGCAGATGATCTGCTGTTGTAACAAG
						
					

			
		

Sequences
Splice junction sequence	TGGTTTTGAGGCTGGTATCTCCAAGGATGGTCAGACCCGTGAGCACGCTCTCCTTGCTTTCACC CTTGGTGTCAAGCAGATGATCTGCTGTTGTAACAAGatggatgccactacccccaagtactcca aggccaggtacgatgaaatcatcaaggaggtgtcttcctacttgaagaaggttggttacaaccc cgacaaaa
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	ATGGATGCCACTACCCCCAAGTACTCCAAGGCCAGGTACGATGAAATCATCAAGGAGGTGTCTT CCTACTTGAAGAAGGTTGGTTACAACCCCGACAAAATCCCATTTGTGCCCATCTCTGGATTTGA GGGTGACAACATGATTGAGAGGTCCACCAACCTTGACTGGTACAAGGGACCAACTCTCCTTGAG GCTCTTGACCAGATCAACGAGCCCAAGAGGCCGTCAGACAAGCCCCTTCGTCTCCCACTTCAGG ATGTCTACAAGATTGGTGGTATTGGAACGGTGCCAGTGGGACGTGTTGAGACTGGTATGATCAA GCCTGGTATGGTTGTGACCTTTGCTCCCACAGGATTGACCACTGAGGTCAAGTCTGTTGAGATG CACCACGAGTCTCTTCTTGAGGCACTTCCAGGTGACAACGTTGGGTTCAATGTTAAGAATGTTG CTGTCAAGGATCTTAAGAGAGGGTACGTCGCATCCAACTCCAAGGATGACCCTGCCAAGGGTGC TGCTAACTTCACCTCCCAGGTCATCATCATGAACCACCCTGGTCAGATTGGTAACGGTTACGCC CCAGTCCTGGATTGCCACACCTCTCACATTGCAGTCAAGTTCTCTGAGATCTTGACCAAGATTG ACAGGCGTTCTGGTAAGGAGATTGAGAAGGAGCCCAAGTTCTTGAAGAATGGTGATGCTGGTAT GGTGAAGATGACTCCAACCAAGCCCATGGTTGTGGAGACCTTCTCTGAGTACCCACCACTTGGA CGTTTCGCTGTGAGGGACATGAGGCAGACTGTTGCAGTCGGTGTTATCAAGAGTGTTGACAAGA AGGACCCAACCGGAGCCAAGGTTACCAAGGCTGCCGTCAAGAAGGGTGCGAAGTGAACCATCCT CAAAACTCTATCTGCCGCAGGTGAATCAAAGGACAGTGTTAGTTTTATTACAATAGTTTGGTAT TTGGTCGCGTGTCTGTGTTCTTGTTTCGTTTTCTCCCCGTCAGAGCGTTGTTCTCGTAATTGGG TTCTTGATCGGAGGTGGCGGATCTACACACACATTCTTCCTGTTTTTTGCTTTTTATTTGTTTT CTCATTTTGAACTGTTTTAAAATTTCTGTTATATGAATGAATGTTTTCCCTGCGGTTATTATCT TCTTTACTCTAATTTTCTCTTGTTGCGTAAATCGTTTCCGAAATCTTTTTACCTCTCTTCTCTA TTGTCATAATTAATCGCTGCTTTCAATTTAAACTTTTTGAAAGCTAAAATAAAAGTTTTATGGT TTCAAATACTCACCGTTACCGTTCTGTCCGCAACACGTGTATTCAATTTGTTGCTGGGCTGTAA TGATCGGCCCAAATCAATCTAATTTTTTATTTATTTTTACATGTCCAATATAAGGCTTAATAGA TAAATTGGACTTGGTTAAGGTCCATTATAGATGCCACTGTGGTACCATTAGCCTTGCATTGTTT TTTTTGTTTTTACATGCCCAATATAAGGCTTAATAGATAAATTGAACTTGGTTTAAGGTCCATT ATAGTCCAATATAAGGCTTAATAGATAAACTGGAATTACATGAGAGTAGTGGTATCATACCAAA ATTCATGATTTTGCATCATTATTTTCTGGCATTGGATGATGATGAATATATAAATATTTCGCTT ATGAAATAGAAAGCCTTGCTCAAATAATGAAGCACATGAGTTGGACTTAAAGCCAAAAATAAGG CGAGATGTTTTTTTTTTTGTTAAAGGGTTTAATAAGGCGAGATGTTACCAGTGTATTTGAAGCA AATCAATGTAATCAGTTGTACACAGGCAGGAGATATATAGCGATCAGATACATAAAATATATGT ATAAATACGTACTTTTTGCTAGTGCTCTCTACCAGCGTTTTCATTATGAAGTCTAATTTTTTTT TTTTTTTTTTTTTTAACTGATTTGTTCTGATTTATAAATCTTCGTATGATCGTATCTAAAGAGA ACATGCTCCCGTGAGTCGTTGACGTTAAGTATGGGGGGAGACATTACCGGAACGAAAATTAGTA AAACAGGCGGCCAGACATAAGGGTAAAATTGTCATTACGCTAAGGAGATTATCTTAAACCCTAA CTTTTTTCCGCTTCACCACTATAAATACAAACTTGTTTACCCTTCCAATTTATTTCTCTACTTG TCCACTTTTCTACAGCCGCATCATCCTTCTCCCTTGTGCGATATCGTTTGCGTGAGGTTAGCTT TTCATACGATTCTTCGATTTGAATTCTTATTCTTCCGATCGATTTGGTAGATTCAATTTCGTCC CGTTGTCGTTTGCTTCTTCTTAATCACTTCTATGCTTCTTTACATGTAACTCTCTGATTTGTTG ATAGGATCGTTTAGATTCTTTGATTCCATGGCTTTGAACTTATCGATTGAGGAAATTAACGTTC TGTAGTGCAATCGAACTGGCTTTCCTTTTATTATTTCAAATTCAGATCATGTAATCTGTCGATC TAGTTCTTTGAATTTTCTGTTGTGCGATTGATTGTTTGTTAGATCCATATGTGTAAGGTTAAAT TGATCTATTGGTATAATACATACGTTTCTAGTTATCAAATTGATTTGTGATTGGGTAATTCTGG AGCAGCATAAAAAATCCATTGTTTCTTTCCTTCTTGAATCTAAGTCGTGGAAACTCTAGGATTG TTTGCTGTATATCTCTTGAAATTGCTTGTTTGATTGAATTTAGCTCGCTTAGCTCAGATGATAG AGCACCACAATTTTGTGGTAGAAATCGGTTTGAATCCGATAGCGGCTTTTAACAATGATTGTTT TTTGTGTTCATATGTCTACTGTTTTTATTGATTCAATATTTGATTGTTCTTTTTTTTGCAGATT TGTCTGAAAAGTAGCTAACCATGGGTAAAGAGAAGTTTCACATCAACATTGTGGTCATTGGCCA CGTCGATTCTGGAAAGTCGACAACCACTGGACACTTGATCTACAAGTTGGGTGGTATTGACAAG CGTGTGATCGAGAGGTTCGAGAAGGAGGCTGCTGAGATGAACAAGAGGTCCTTCAAGTACGCAT GGGTGTTGGACAAACTTAAGGCTGAGCGTGAGCGTGGTATCACCATTGACATTGCTCTCTGGAA GTTCGAGACCACCAAGTACTACTGCACTGTCATTGATGCTCCTGGTCATCGTGATTTCATCAAG AACATGATCACTGGTACCTCCCAGGCTGATTGTGCTGTCCTTATCATTGACTCCACCACTGGTG GTTTTGAGGCTGGTATCTCCAAGGATGGTCAGACCCGTGAGCACGCTCTCCTTGCTTTCACCCT TGGTGTCAAGCAGATGATCTGCTGTTGTAACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_018181* 						
					
						PMCS
						1.295509142

Conservation Information
Conserved circRNAs	osa_circ_018181*
PMCS	1.295509142

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 1_circ_ag.15

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