Plant Circular RNA Database

Detail information of 3_circ_ag.5

			
						 General Information
					
						CircRNA Name
						3_circ_ag.5
					
						ID in PlantcircBase
						ath_circ_028846
					
						Alias
						3:23211765-23215111
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 23211765-23215111  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G62740_circ_g.1 AT3G62740_circ_g.2 AT3G62740_circ_g.3 AT3G62740_circ_g.4 3_circ_ag.6 3_circ_ag.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 3_circ_ag.11 3_circ_ag.12 AT3G62750_circ_g.1 AT3G62750_circ_g.2 AT3G62750_circ_g.3 						
					
						Support reads
						1/1/1
					
						Tissues
						seedling;root
					
						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-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	3_circ_ag.5
ID in PlantcircBase	ath_circ_028846
Alias	3:23211765-23215111
Organism	Arabidpsis thaliana
Position	chr3: 23211765-23215111 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G62740_circ_g.1 AT3G62740_circ_g.2 AT3G62740_circ_g.3 AT3G62740_circ_g.4 3_circ_ag.6 3_circ_ag.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 3_circ_ag.11 3_circ_ag.12 AT3G62750_circ_g.1 AT3G62750_circ_g.2 AT3G62750_circ_g.3
Support reads	1/1/1
Tissues	seedling;root
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-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  
						
							GACCCTTTTTGTCTGTGTCATTTTTCAGATGGAAGAGGACGCATTAACCCAAAAGGTTTATTGT
TTTACAAGAATCTCATCAAAGAGCTACGAAGCCATGatagtggaagtaataatggagatatagc
atgtgatgggtatcacaaatacaaggttagtttcttttctttgccgtttacttgtctaacaagt
tatcgtaa

									
								

					

						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
						
							ATAGTGGAAGTAATAATGGAGATATAGCATGTGATGGGTATCACAAATACAAGGTTAGTTTCTT
TTCTTTGCCGTTTACTTGTCTAACAAGTTATCGTAAGTCTCTGGCCCTGCATTCATAGATGTTA
TTGTCCAGGAAGATGTTATGTTGATGGCAGAAATGGGCTTAGAATCATTCAGATTCTCTATCTC
CTGGTCAAGACTTATACCTAGTAACGCCTATTCTTGGTTTCTTAATTTCCAAGTAACTAATAAT
GTTGTCTCTGACCTCTTATATTAGACCCTTTTTGTCTGTGTCATGTTTCAGATGGAAGAGGACG
CATTAACCCAAAAGGTCTATTGTTTTACAAGAATCTCATCAAAGAGCTACGAAGCCATGGTGAG
GTTTTTGTCTTTTACTTTATCGCAACTAAAACCAATTCATAGCTTTTGGGTTCTGATAGACATA
TTGGTAAACCTTTTAACAGGAATTGAACCACAGGTTACACTTTACCATTATGATCTTCCTCAGT
CTCTGGAAGATGAGTATGGAGGATGGATCAACCGCAAAATCATGTAAAAGGACAATTAAAGATT
CTGATATAAAAAATATGGCTAGAAAATAAAGAATATTTGTTATATTGCAGAGAAGACTTCACTG
CTTTTGCAGATGTATGCTTCAGAGAGTTTGGGGAGGATGTGAAGTTATGGACTAAAATCAACGA
AGCTACTTTATTCGCCATTGGTTCTTATGGCGACGGAATGAGGTATGGACATTGTCCTCCTATG
AATTACTCTACCGCAAATGTTTGTACGGAAACATATATTGCAGGCCATAACATGTTGCTAGCTC
ACTCCTCTGCTTCAAATTTGTATAAACTGAAGTACAAGGTATACACATTTATCTCTGTTTCGCT
CTTAAAGCCCTAAACCCATATGAACATAAACAGTATGATGGTACAGACTAAGCAAAGAGGATCC
GTAGGCCTTAGTATATATGCTTATGGGCTATCTCCTTATACGGACTCCAAGGACGATGAAACCG
CAACTGAAAGAGCTGAAGCTTTCCTCTTTGGCTGGTGAGAAAAATGCTTTCTTTGTTTCAGTAA
CTTGAGGATAAAATCTGATGACTAAATTGGTAATCCAGGATGTTAAAGCCTTTGGTAGTTGGGG
ATTATCCGGATATAATGAAGAGAACCTTGGGGTCGAGATTACCGGTTTTCTCAGAAGAAGAGTC
AAAACAAGTGAAAGGATCATCTGACTTTGTAGGAGTTGTACACTACAACACATTCTATGTCACA
AACCGACCCGCACCTTCTCTCGTTACCAGCATTAACAAACTCTTCTTTGCAGACATTGGCGCAT
ATCTGATCGGTAAGCCTAGTTTCTTTTCATTCGATCGAACTCTTTTAGTTGATATATAACTCTT
CTTCATTGGACAGCCGCTGGGAATGCTTCATTATTCGAGGTAAGGACCAATAAATCCGCAGAAC
ACACAATACATATATTCAGGCCAAAAGCTCTGGTTTGATCCTTCTTGCTTTCTTGAAGTTTGAT
GCTGTTCCATGGGGTCTGGAAGGTATTCTTCAGCATATAAAGCAGAGCTATAACAATCCTCCAA
TCTACATTCTTGAAAATGGTACAAACTTCATTCTCTTTTGTCTACTTGCTCTGTTTTTGATCTT
AAGATTCTTCAATTCACACCAAAAAAACACACAAAAAAAAAAACAGGTAAACCGATGAAACATG
GTTCAACGCTACAAGACACACCAAGAGCTGAATTCATTCAAGCTTACATTGGTGCTGTGCACAA
CGCCATCACGTAAAAGAACTCTCCTTCTTCATCTTCAAGTTCATCATACTAGCATTGATCGACT
TTATTCCTGACAAATATTTTGACTGATCAGGAATGGATCGGACACGAGAGGTTACTTTGTATGG
TCGATGATTGATTTGTATGAGTTAATAGGTAGATATATGACCAGCTATGGAATGTACTATGTGA
ATTTCAGTGATCCTGGTCGCAAGAGGTCTCCAAAGCTCTCTGCTTCTTGGTACACTGGTTTCCT
CAATGGTACTATTGATGTTGCTTCTCAAGATACTATTCAGTTGCAGAGAAAATGCTCAGGCTCT
TCGTCCTTGTAATCTATTTAACTAAATCATCCTAGTTTTGTTTGGTTTTCATTTCATCTATCGT
ATGAAAAAAAACTCAGTGGTTTGATAAGATTTGGATATGAATAATGAAACTGTCTTGTGATTTT
TGTCGGTCATCATAAGATTTGGATATGAATATTGTTTTGTTATTTTCCGAAATTTGTTTTTAAA
CTACAACCGAACCATTATGATGTGTTACCTATATTGGCAATTTGGCATGTAGGTAGAGTCAGTA
CATGGCAAGGATTACACACTTCACCAAAAAAAAGATATTTCTATAGTCGTTTTCAGATGTTTAT
TTGTCGCGTATTACGAGTGGAAGATAATAGAAAAGATATAGACTATAGTCCTCACAATTCACCA
AAATACACTTCACTCAATATATGTATTTCTTTTTAAATGGTCCAAGAAAACGACAGAACCGGAC
TCTTCAATTATTTGTTCATTTGGACTCAAACCGGAGGAGGAAAATCAAAAATGAAACATTTCAA
TCTGTTATCCATTATTCTGGTTATCGTTTTGGCGACAAGCTACATTGATGCCTTCACCAGAAAC
GATTTTCCAGAGGATTTCCTCTTCGGAGCCGGTACTTCTGCTTATCAGGTTCGAGTCTGACCAC
ATCAATGGCAATCGGGGTTTTCCATTTTTAATTGTTTTGTCTACAATTTGAGTTTTTTGGGGGA
ATTTGTGGAAATAGTGGGAAGGAGCTGCTAATGAAGACGGAAGAACTCCTAGCGTCTGGGATAC
AACCTCCCACTGTTGTAAGTTGTTTTGTTTTATTTTCAACTTTGAGTCATCATTCGGCGTTTTT
GTGAGAAGATTGTATAGATCATTGTTCAAAAATCGCAGATAATGGAAGTAATGGAGATATAGCA
TGTGATGGGTATCACAAATACAAGGTTTGTCTCTCTTCTTTGTTGAAGAAGTTATCGTAAGTCT
CTGGCTCTGCATTCATAGATGTTATTGTCCAGGAAGATGTTAAGTTGATGGCAGAAATGGGCTT
AGAATCATTCAGATTCTCTATCTCCTGGTCAAGACTTATACCTAGTAACGCCTATTCTTGGTTT
CTTAATTCCCAAGTAACTAATAATGTTGTCTCTGACCTCTTATATTAGACCCTTTTTGTCTGTG
TCATTTTTCAGATGGAAGAGGACGCATTAACCCAAAAGGTTTATTGTTTTACAAGAATCTCATC
AAAGAGCTACGAAGCCATG
						
					

			
		

Sequences
Splice junction sequence	GACCCTTTTTGTCTGTGTCATTTTTCAGATGGAAGAGGACGCATTAACCCAAAAGGTTTATTGT TTTACAAGAATCTCATCAAAGAGCTACGAAGCCATGatagtggaagtaataatggagatatagc atgtgatgggtatcacaaatacaaggttagtttcttttctttgccgtttacttgtctaacaagt tatcgtaa
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	ATAGTGGAAGTAATAATGGAGATATAGCATGTGATGGGTATCACAAATACAAGGTTAGTTTCTT TTCTTTGCCGTTTACTTGTCTAACAAGTTATCGTAAGTCTCTGGCCCTGCATTCATAGATGTTA TTGTCCAGGAAGATGTTATGTTGATGGCAGAAATGGGCTTAGAATCATTCAGATTCTCTATCTC CTGGTCAAGACTTATACCTAGTAACGCCTATTCTTGGTTTCTTAATTTCCAAGTAACTAATAAT GTTGTCTCTGACCTCTTATATTAGACCCTTTTTGTCTGTGTCATGTTTCAGATGGAAGAGGACG CATTAACCCAAAAGGTCTATTGTTTTACAAGAATCTCATCAAAGAGCTACGAAGCCATGGTGAG GTTTTTGTCTTTTACTTTATCGCAACTAAAACCAATTCATAGCTTTTGGGTTCTGATAGACATA TTGGTAAACCTTTTAACAGGAATTGAACCACAGGTTACACTTTACCATTATGATCTTCCTCAGT CTCTGGAAGATGAGTATGGAGGATGGATCAACCGCAAAATCATGTAAAAGGACAATTAAAGATT CTGATATAAAAAATATGGCTAGAAAATAAAGAATATTTGTTATATTGCAGAGAAGACTTCACTG CTTTTGCAGATGTATGCTTCAGAGAGTTTGGGGAGGATGTGAAGTTATGGACTAAAATCAACGA AGCTACTTTATTCGCCATTGGTTCTTATGGCGACGGAATGAGGTATGGACATTGTCCTCCTATG AATTACTCTACCGCAAATGTTTGTACGGAAACATATATTGCAGGCCATAACATGTTGCTAGCTC ACTCCTCTGCTTCAAATTTGTATAAACTGAAGTACAAGGTATACACATTTATCTCTGTTTCGCT CTTAAAGCCCTAAACCCATATGAACATAAACAGTATGATGGTACAGACTAAGCAAAGAGGATCC GTAGGCCTTAGTATATATGCTTATGGGCTATCTCCTTATACGGACTCCAAGGACGATGAAACCG CAACTGAAAGAGCTGAAGCTTTCCTCTTTGGCTGGTGAGAAAAATGCTTTCTTTGTTTCAGTAA CTTGAGGATAAAATCTGATGACTAAATTGGTAATCCAGGATGTTAAAGCCTTTGGTAGTTGGGG ATTATCCGGATATAATGAAGAGAACCTTGGGGTCGAGATTACCGGTTTTCTCAGAAGAAGAGTC AAAACAAGTGAAAGGATCATCTGACTTTGTAGGAGTTGTACACTACAACACATTCTATGTCACA AACCGACCCGCACCTTCTCTCGTTACCAGCATTAACAAACTCTTCTTTGCAGACATTGGCGCAT ATCTGATCGGTAAGCCTAGTTTCTTTTCATTCGATCGAACTCTTTTAGTTGATATATAACTCTT CTTCATTGGACAGCCGCTGGGAATGCTTCATTATTCGAGGTAAGGACCAATAAATCCGCAGAAC ACACAATACATATATTCAGGCCAAAAGCTCTGGTTTGATCCTTCTTGCTTTCTTGAAGTTTGAT GCTGTTCCATGGGGTCTGGAAGGTATTCTTCAGCATATAAAGCAGAGCTATAACAATCCTCCAA TCTACATTCTTGAAAATGGTACAAACTTCATTCTCTTTTGTCTACTTGCTCTGTTTTTGATCTT AAGATTCTTCAATTCACACCAAAAAAACACACAAAAAAAAAAACAGGTAAACCGATGAAACATG GTTCAACGCTACAAGACACACCAAGAGCTGAATTCATTCAAGCTTACATTGGTGCTGTGCACAA CGCCATCACGTAAAAGAACTCTCCTTCTTCATCTTCAAGTTCATCATACTAGCATTGATCGACT TTATTCCTGACAAATATTTTGACTGATCAGGAATGGATCGGACACGAGAGGTTACTTTGTATGG TCGATGATTGATTTGTATGAGTTAATAGGTAGATATATGACCAGCTATGGAATGTACTATGTGA ATTTCAGTGATCCTGGTCGCAAGAGGTCTCCAAAGCTCTCTGCTTCTTGGTACACTGGTTTCCT CAATGGTACTATTGATGTTGCTTCTCAAGATACTATTCAGTTGCAGAGAAAATGCTCAGGCTCT TCGTCCTTGTAATCTATTTAACTAAATCATCCTAGTTTTGTTTGGTTTTCATTTCATCTATCGT ATGAAAAAAAACTCAGTGGTTTGATAAGATTTGGATATGAATAATGAAACTGTCTTGTGATTTT TGTCGGTCATCATAAGATTTGGATATGAATATTGTTTTGTTATTTTCCGAAATTTGTTTTTAAA CTACAACCGAACCATTATGATGTGTTACCTATATTGGCAATTTGGCATGTAGGTAGAGTCAGTA CATGGCAAGGATTACACACTTCACCAAAAAAAAGATATTTCTATAGTCGTTTTCAGATGTTTAT TTGTCGCGTATTACGAGTGGAAGATAATAGAAAAGATATAGACTATAGTCCTCACAATTCACCA AAATACACTTCACTCAATATATGTATTTCTTTTTAAATGGTCCAAGAAAACGACAGAACCGGAC TCTTCAATTATTTGTTCATTTGGACTCAAACCGGAGGAGGAAAATCAAAAATGAAACATTTCAA TCTGTTATCCATTATTCTGGTTATCGTTTTGGCGACAAGCTACATTGATGCCTTCACCAGAAAC GATTTTCCAGAGGATTTCCTCTTCGGAGCCGGTACTTCTGCTTATCAGGTTCGAGTCTGACCAC ATCAATGGCAATCGGGGTTTTCCATTTTTAATTGTTTTGTCTACAATTTGAGTTTTTTGGGGGA ATTTGTGGAAATAGTGGGAAGGAGCTGCTAATGAAGACGGAAGAACTCCTAGCGTCTGGGATAC AACCTCCCACTGTTGTAAGTTGTTTTGTTTTATTTTCAACTTTGAGTCATCATTCGGCGTTTTT GTGAGAAGATTGTATAGATCATTGTTCAAAAATCGCAGATAATGGAAGTAATGGAGATATAGCA TGTGATGGGTATCACAAATACAAGGTTTGTCTCTCTTCTTTGTTGAAGAAGTTATCGTAAGTCT CTGGCTCTGCATTCATAGATGTTATTGTCCAGGAAGATGTTAAGTTGATGGCAGAAATGGGCTT AGAATCATTCAGATTCTCTATCTCCTGGTCAAGACTTATACCTAGTAACGCCTATTCTTGGTTT CTTAATTCCCAAGTAACTAATAATGTTGTCTCTGACCTCTTATATTAGACCCTTTTTGTCTGTG TCATTTTTCAGATGGAAGAGGACGCATTAACCCAAAAGGTTTATTGTTTTACAAGAATCTCATC AAAGAGCTACGAAGCCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.10860789

Conservation Information
Conserved circRNAs	NA
PMCS	0.10860789

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of 3_circ_ag.5

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