Plant Circular RNA Database

Detail information of 1_circ_ag.4

			
						 General Information
					
						CircRNA Name
						1_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_004822
					
						Alias
						1:10372359-10376086
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10372359-10376086  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
						
							AT1G29660_circ_g.1 AT1G29660_circ_g.2 AT1G29660_circ_g.3 AT1G29660_circ_g.5 AT1G29660_circ_g.6 AT1G29670_circ_g.1 						
					
						Support reads
						1/1
					
						Tissues
						seedling;flower
					
						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	1_circ_ag.4
ID in PlantcircBase	ath_circ_004822
Alias	1:10372359-10376086
Organism	Arabidpsis thaliana
Position	chr1: 10372359-10376086 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	AT1G29660_circ_g.1 AT1G29660_circ_g.2 AT1G29660_circ_g.3 AT1G29660_circ_g.5 AT1G29660_circ_g.6 AT1G29670_circ_g.1
Support reads	1/1
Tissues	seedling;flower
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  
						
							CTTATTTCTATTGCAAGATCCAATTACTTCCCTTACGGTATCGATTTCGGCGGCCCTACCGGCC
GTTTCTCCAACGGCAAGACTACTGTTGATGTGATCGctgagctacttggatttgataactacat
tcctgcgtatagtactgtgagtggccaagagatacttcaaggagtcaactacgcatctgcagct
gctggaat

									
								

					

						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
						
							CTGAGCTACTTGGATTTGATAACTACATTCCTGCGTATAGTACTGTGAGTGGCCAAGAGATACT
TCAAGGAGTCAACTACGCATCTGCAGCTGCTGGAATCAGAGAAGAAACCGGTGCACAATTGGTA
ACAAAGACAACACTTTGATAATTCTCATGACCTCTCTGTTCTGTTTAAGACTAGAAAAATATTG
TTTTAACTTTTTCTTGTTTTTTTGCTTTGCTTTCGGTAATGAAGGGACAAAGGATAACATTTAG
TGGGCAAGTAGAGAATTATAAGAACACAGTGGCACAAGTGGTGGAGATTCTTGGAGACGAGTAC
ACTGCAGCAGATTACCTTAAGAGATGCATTTACTCTGTTGGTATGGGAAGCAATGACTATCTTA
ATAACTACTTCATGCCTCAGTTCTACTCCACTAGCAGACAGTACACTCCCGAACAGTATGCTGA
CGATCTTATCAGTCGTTACAGGGACCAGCTTAATGTAAGTTTTTCTGTTTAATTCGATGGAAAA
CTATGGGGTAATTTGGGAGTCCTCTGTTTTTTTTGTATCCTTGATTCTCATTTTGGGATGATCT
ATTTTATGATATGATCTTTAGCAGTAATTTTAAGTTTATTTTCAATTGAACGTTACTTATTTCA
CAATCTTTCTTATTTTGCGTGTGTATGAAGGCACTGTACAACTATGGAGCTAGAAAGTTTGCAT
TGGTAGGAATTGGAGCCATTGGATGTAGTCCGAATGCGCTCGCACAGGGCAGCCAAGACGGAAC
AACTTGTGTGGAGCGTATCAACTCGGCCAACCGAATCTTCAACAACAGGCTCATATCTATGGTC
CAACAACTAAACAACGCTCATTCCGATGCTAGTTTCACTTACATCAATGCTTATGGCGCTTTTC
AGGATATAATCGCCAATCCCTCTGCTTATGGTATAATAGAGATATCTTCATGAAACTTAAGCCT
ATGATTAAATAAATATTCTCTTCTACTTTATGGTAAAAAGAATCTAATCTATATATTGGGTTCT
CTGAATGAATGTTTTTAGGGTTTACGAATACGAACACTGCGTGTTGCGGAATTGGAAGGAACGG
AGGTCAGCTAACATGTTTACCGGGAGAACCCCCGTGCTTGAACCGAGATGAGTACGTGTTTTGG
GATGCATTTCATCCTTCGGCTGCTGCAAACACGGCCATTGCAAAAAGATCTTACAATGCACAAA
GATCTTCCGACGTTTATCCGATTGATATCTCGCAATTAGCACAGCTTTGAAAGGACAGAGAATA
GGAGAGTTTTACAACAATTGTATGCTTTTCAGGTTATAAATTGAATTATTGGAAATGATTCTGA
TGTTATGTGTGTACCCAAAGTGTTCAACTTTATAAAAAAAAATAGGGATTGCATTATCTGAGTT
ACTTCCACAATGTTTTTTTTTTTTTTTTTTTTTTCTTTTCTGTAATCGTGTATTTTCATTCAGT
TTCAAAATGTGTAGTCTAGGATTTATTGTCTAAAACTTTTGTTTGGTTGAACACGGCTTCGCTG
AAACTGGATCTAGTATATAGATAGGAATTGTGTTAAATTGTTTTGATCATTTGATTTTTATTAA
CCGTCATTAATCAACTATGAGTACAACAAATGTAAGAAAGAAGACAGAAACATTAAATAATTTG
AACGCATCTCTATTCATTACTTCCATTATGCACTTTGAAAAATCTCTTGATCCTCTCAGGAAAG
CACGTAACGTAATTCTTTCATACGTAATATTACATTCTCCACCGGGCTAAATAAACCAAGCCCA
AAAGTTATCAATGAAGCCCAATAGTTGTCAATCATTTTTTCATATCGAACTAAAAATGTGTTTT
TTTTTTTTTTTGTTTTGGTTTTTAAAAATAACATAGAGTGCACCAGCCGGGAACATGTAGTTAA
TACAATTAACTAAAAAAACATGTAGTTAAATATAATTTTTTTTTTTTTTTTTCTTGTCGTCTAC
TCAAAATTTAATTCACCTTGTTTTGTTTCGTTAATTAATTTAGGTTGTTGTTCTAATATATGCT
TTTATGATTGATACAATGACTAGGACTGGACACAGGACACAGGTCATCTATTTTCAATTTTAGA
ATTGCCATTAGATTTTTAAGAGTATTCTACTGGAAAAGAGTTTTTTTGTTAGTTAGCGATATTT
AAATCTAAGTTTAAATTGTATGATAACTTGAAACATACAATTTGTTAGTTAGCGATATTTAAAT
CTAAGTTCATATATATATGGATAATTCCTACTAAAAACTTTTTTTTTGTAATGATTCTTTTATG
ACCAAAGCCTAACATCAGCAAGTATTCAAAACATATTAACGACGAAATTATCTGTCAATCGATG
ACTAGAATGATTTAGTGACCAATTGGCTTTACTTATTTTTTCTTTCTTCAGAGAACATGCAATA
GTTTAACAATAAATGTAGCATTACCCTAAGTTAAGAGTTTTGACCTACGATCTTAAATGGAAAG
AGTTGGGAGGGAACATGGAAGCAGCACCGGCCTTGTTCAATTATGATACAAACAAGTCGTTGAT
TTATTCACAAAATATCCACTATACCTTTCATTTATTGCCCAAACCTAATTCTTCACCTGTTTTC
TTTTCACCCAATTTTCTTCCATTTCAAATAATTGGTATCTTTCAATTTTAGATATATATACACA
ACAAGTGACACCGATAATACACAATCTATCACGATTTTCTTTTCATTTCGTATTTATTTATAAA
ATGATTTTTAATTGGCTCATTTATCCAATTATGACAAAAGTTAGGATTTTGTACGCGGAAAAAA
CTCTACAGCTGGTCAACGTTCAGAGAGAAGGACAAGTGGCTTTGTCAAACCTACGACTTTGTCT
TCTCTCATACTATTATAATGCAAAATATCTTTTTCTTACTTTAACCAGCTGCAAATGACCTTTC
TAAATGCTTTAAACAATATATATATCGAAACAATGATCAGAAATTAGGGTTTAGTGAGGGTATA
TGTACATTACTAACTGTAAATAATATTTTATTGGTATAAGTCATGACTAAAAATAAGCCCTTGT
CGATAAGTCATAAATCCTACTCTCCGCGCGATATGTTTAATTTTGGTAATTACCTATCCATTTA
CTGTAGTTCTTTTTTTGTTCAATGTTCCTTCTCCAACTCCTCTTTAAGTTCCTTATATAAGTTA
ATGTTAATTTAGTTGTCGGCACATATACCTTTTAAATTATCGAATATAAAGCCATTGATAAATC
TTGATTCTGATGTTGAATGAGAAAAAACTGGTCACATTATATTGGACCCACCAATCTTAAAGTG
ACTAGGCCTACAAAAATTAAATCTATCAAAAACACAAATGTCTCTCTATATATAGTTACACAAC
TTCTTTGGACTTCTTCACATTCACTCATATCACTACACTTTCCATTAATTACCAATATATTTTT
ACTACTTAAAAAAGATATTGGTCTTGAAATGGAGAGTTACTTAACGAAATGGTGTGTAGTGCTT
GTGTTGTTGTGTTTCGGGTTTAGTGTAGTAAAAGCACAAGCACAAGCTCAAGTTCCATGTTTCT
TTGTTTTTGGTGACTCTTTGGTTGACAATGGAAACAACAACGGTCTTATTTCTATTGCAAGATC
CAATTACTTCCCTTACGGTATCGATTTCGGCGGCCCTACCGGCCGTTTCTCCAACGGCAAGACT
ACTGTTGATGTGATCG
						
					

			
		

Sequences
Splice junction sequence	CTTATTTCTATTGCAAGATCCAATTACTTCCCTTACGGTATCGATTTCGGCGGCCCTACCGGCC GTTTCTCCAACGGCAAGACTACTGTTGATGTGATCGctgagctacttggatttgataactacat tcctgcgtatagtactgtgagtggccaagagatacttcaaggagtcaactacgcatctgcagct gctggaat
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	CTGAGCTACTTGGATTTGATAACTACATTCCTGCGTATAGTACTGTGAGTGGCCAAGAGATACT TCAAGGAGTCAACTACGCATCTGCAGCTGCTGGAATCAGAGAAGAAACCGGTGCACAATTGGTA ACAAAGACAACACTTTGATAATTCTCATGACCTCTCTGTTCTGTTTAAGACTAGAAAAATATTG TTTTAACTTTTTCTTGTTTTTTTGCTTTGCTTTCGGTAATGAAGGGACAAAGGATAACATTTAG TGGGCAAGTAGAGAATTATAAGAACACAGTGGCACAAGTGGTGGAGATTCTTGGAGACGAGTAC ACTGCAGCAGATTACCTTAAGAGATGCATTTACTCTGTTGGTATGGGAAGCAATGACTATCTTA ATAACTACTTCATGCCTCAGTTCTACTCCACTAGCAGACAGTACACTCCCGAACAGTATGCTGA CGATCTTATCAGTCGTTACAGGGACCAGCTTAATGTAAGTTTTTCTGTTTAATTCGATGGAAAA CTATGGGGTAATTTGGGAGTCCTCTGTTTTTTTTGTATCCTTGATTCTCATTTTGGGATGATCT ATTTTATGATATGATCTTTAGCAGTAATTTTAAGTTTATTTTCAATTGAACGTTACTTATTTCA CAATCTTTCTTATTTTGCGTGTGTATGAAGGCACTGTACAACTATGGAGCTAGAAAGTTTGCAT TGGTAGGAATTGGAGCCATTGGATGTAGTCCGAATGCGCTCGCACAGGGCAGCCAAGACGGAAC AACTTGTGTGGAGCGTATCAACTCGGCCAACCGAATCTTCAACAACAGGCTCATATCTATGGTC CAACAACTAAACAACGCTCATTCCGATGCTAGTTTCACTTACATCAATGCTTATGGCGCTTTTC AGGATATAATCGCCAATCCCTCTGCTTATGGTATAATAGAGATATCTTCATGAAACTTAAGCCT ATGATTAAATAAATATTCTCTTCTACTTTATGGTAAAAAGAATCTAATCTATATATTGGGTTCT CTGAATGAATGTTTTTAGGGTTTACGAATACGAACACTGCGTGTTGCGGAATTGGAAGGAACGG AGGTCAGCTAACATGTTTACCGGGAGAACCCCCGTGCTTGAACCGAGATGAGTACGTGTTTTGG GATGCATTTCATCCTTCGGCTGCTGCAAACACGGCCATTGCAAAAAGATCTTACAATGCACAAA GATCTTCCGACGTTTATCCGATTGATATCTCGCAATTAGCACAGCTTTGAAAGGACAGAGAATA GGAGAGTTTTACAACAATTGTATGCTTTTCAGGTTATAAATTGAATTATTGGAAATGATTCTGA TGTTATGTGTGTACCCAAAGTGTTCAACTTTATAAAAAAAAATAGGGATTGCATTATCTGAGTT ACTTCCACAATGTTTTTTTTTTTTTTTTTTTTTTCTTTTCTGTAATCGTGTATTTTCATTCAGT TTCAAAATGTGTAGTCTAGGATTTATTGTCTAAAACTTTTGTTTGGTTGAACACGGCTTCGCTG AAACTGGATCTAGTATATAGATAGGAATTGTGTTAAATTGTTTTGATCATTTGATTTTTATTAA CCGTCATTAATCAACTATGAGTACAACAAATGTAAGAAAGAAGACAGAAACATTAAATAATTTG AACGCATCTCTATTCATTACTTCCATTATGCACTTTGAAAAATCTCTTGATCCTCTCAGGAAAG CACGTAACGTAATTCTTTCATACGTAATATTACATTCTCCACCGGGCTAAATAAACCAAGCCCA AAAGTTATCAATGAAGCCCAATAGTTGTCAATCATTTTTTCATATCGAACTAAAAATGTGTTTT TTTTTTTTTTTGTTTTGGTTTTTAAAAATAACATAGAGTGCACCAGCCGGGAACATGTAGTTAA TACAATTAACTAAAAAAACATGTAGTTAAATATAATTTTTTTTTTTTTTTTTCTTGTCGTCTAC TCAAAATTTAATTCACCTTGTTTTGTTTCGTTAATTAATTTAGGTTGTTGTTCTAATATATGCT TTTATGATTGATACAATGACTAGGACTGGACACAGGACACAGGTCATCTATTTTCAATTTTAGA ATTGCCATTAGATTTTTAAGAGTATTCTACTGGAAAAGAGTTTTTTTGTTAGTTAGCGATATTT AAATCTAAGTTTAAATTGTATGATAACTTGAAACATACAATTTGTTAGTTAGCGATATTTAAAT CTAAGTTCATATATATATGGATAATTCCTACTAAAAACTTTTTTTTTGTAATGATTCTTTTATG ACCAAAGCCTAACATCAGCAAGTATTCAAAACATATTAACGACGAAATTATCTGTCAATCGATG ACTAGAATGATTTAGTGACCAATTGGCTTTACTTATTTTTTCTTTCTTCAGAGAACATGCAATA GTTTAACAATAAATGTAGCATTACCCTAAGTTAAGAGTTTTGACCTACGATCTTAAATGGAAAG AGTTGGGAGGGAACATGGAAGCAGCACCGGCCTTGTTCAATTATGATACAAACAAGTCGTTGAT TTATTCACAAAATATCCACTATACCTTTCATTTATTGCCCAAACCTAATTCTTCACCTGTTTTC TTTTCACCCAATTTTCTTCCATTTCAAATAATTGGTATCTTTCAATTTTAGATATATATACACA ACAAGTGACACCGATAATACACAATCTATCACGATTTTCTTTTCATTTCGTATTTATTTATAAA ATGATTTTTAATTGGCTCATTTATCCAATTATGACAAAAGTTAGGATTTTGTACGCGGAAAAAA CTCTACAGCTGGTCAACGTTCAGAGAGAAGGACAAGTGGCTTTGTCAAACCTACGACTTTGTCT TCTCTCATACTATTATAATGCAAAATATCTTTTTCTTACTTTAACCAGCTGCAAATGACCTTTC TAAATGCTTTAAACAATATATATATCGAAACAATGATCAGAAATTAGGGTTTAGTGAGGGTATA TGTACATTACTAACTGTAAATAATATTTTATTGGTATAAGTCATGACTAAAAATAAGCCCTTGT CGATAAGTCATAAATCCTACTCTCCGCGCGATATGTTTAATTTTGGTAATTACCTATCCATTTA CTGTAGTTCTTTTTTTGTTCAATGTTCCTTCTCCAACTCCTCTTTAAGTTCCTTATATAAGTTA ATGTTAATTTAGTTGTCGGCACATATACCTTTTAAATTATCGAATATAAAGCCATTGATAAATC TTGATTCTGATGTTGAATGAGAAAAAACTGGTCACATTATATTGGACCCACCAATCTTAAAGTG ACTAGGCCTACAAAAATTAAATCTATCAAAAACACAAATGTCTCTCTATATATAGTTACACAAC TTCTTTGGACTTCTTCACATTCACTCATATCACTACACTTTCCATTAATTACCAATATATTTTT ACTACTTAAAAAAGATATTGGTCTTGAAATGGAGAGTTACTTAACGAAATGGTGTGTAGTGCTT GTGTTGTTGTGTTTCGGGTTTAGTGTAGTAAAAGCACAAGCACAAGCTCAAGTTCCATGTTTCT TTGTTTTTGGTGACTCTTTGGTTGACAATGGAAACAACAACGGTCTTATTTCTATTGCAAGATC CAATTACTTCCCTTACGGTATCGATTTCGGCGGCCCTACCGGCCGTTTCTCCAACGGCAAGACT ACTGTTGATGTGATCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.620744594

Conservation Information
Conserved circRNAs	NA
PMCS	0.620744594

			
						 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 1_circ_ag.4

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