Plant Circular RNA Database

Detail information of 3_circ_ag.7

			
						 General Information
					
						CircRNA Name
						3_circ_ag.7
					
						ID in PlantcircBase
						ath_circ_025996
					
						Alias
						Ath_circ_FC2237
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 15988687-15995234  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, circRNA_finder, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							3_circ_ag.2 3_circ_ag.3 3_circ_ag.4 3_circ_ag.5 3_circ_ag.6 3_circ_ag.7 AT3G44310_circ_g.1 AT3G44310_circ_g.2 3_circ_ag.3 AT3G44310_circ_g.4 3_circ_ag.5 3_circ_ag.6 AT3G44310_circ_g.8 						
					
						Support reads
						237
					
						Tissues
						root, seed, whole_plant
					
						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	3_circ_ag.7
ID in PlantcircBase	ath_circ_025996
Alias	Ath_circ_FC2237
Organism	Arabidpsis thaliana
Position	chr3: 15988687-15995234 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, circRNA_finder, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	3_circ_ag.2 3_circ_ag.3 3_circ_ag.4 3_circ_ag.5 3_circ_ag.6 3_circ_ag.7 AT3G44310_circ_g.1 AT3G44310_circ_g.2 3_circ_ag.3 AT3G44310_circ_g.4 3_circ_ag.5 3_circ_ag.6 AT3G44310_circ_g.8
Support reads	237
Tissues	root, seed, whole_plant
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  
						
							CCTACTGTCTCCGGAGGTGGAAGTGTCATTATTTCACCTTTGGGAAAGGTTCTCGCCGGACCAA
ACTATGAATCAGAGGGTCTCGTCACAGCTGATCTTGatcttggtgatatagcaagagccaagtt
atacttcgattcggttggacattactcgagaccagatgttttacacttgaccgtaaatgagcac
ccgaggaa

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 833
Transcript exons: 15988687-15988914,15993395-15993548,15993641-15993669,15
994712-15994870,15994951-15994983,15995005-15995234
ATCTTGGTGATATAGCAAGAGCCAAGTTATACTTCGATTCGGTTGGACATTACTCGAGACCAGA
TGTTTTACACTTGACCGTAAATGAGCACCCGAGGAAATCGGTTACATTCGTGACGAAGGTGGAG
AAAGCTGAGGATGACTCAAACAAATAGTAAGAGACTTGAAGTTCGTATCTGCTGGAGTTATGTC
AATCGTATGGAGTCAAGTCCAAAATGTTCTGTTGCGGTAAAAACAAAGACTCGAGTTAATATGT
CTAGTACTGAAGAAATGTCATCAGTCAAAAACACAACTCAGGTTATTGGCGTTGACCCATCCTC
CACCGTACGAGTTACCATCGTTCAATCTTCCACCGTCTATAATGATACCCCGGCCACTTTAGTA
GACAAGGCGGAGAAGTTTATTGTGGAGGCACCGTAAAGTCATGCCCACATCTTTGGAACGTTGC
ATATGGGGTCAAGGGGACGGATCAACCATCCCCGTTTACGACACTCCTATTGGCAAAATCGGTG
CTGCTATTTGCTGGGAGAATAGGATGCCCCTCTACAGAACTGCATTGTACGCTAAAGGAGGCAT
TGAGATTTATTGTGCACCTACTGCTGAATCGATGATTCACATTGCGGTAGAAGGTGGATGTTTC
GTGTTGTCAGCGCACCAGTTCTGCAAGCGTAGAGAGTTCCCTGAACATCCTGATTACTTGTTTA
ATGACATAGTAGACACTAAAGAACATGATCCTACTGTCTCCGGAGGTGGAAGTGTCATTATTTC
ACCTTTGGGAAAGGTTCTCGCCGGACCAAACTATGAATCAGAGGGTCTCGTCACAGCTGATCTT
G
Transcript length: 909
Transcript exons: 15988687-15988914,15993365-15993548,15993641-15993669,15
994662-15994870,15994951-15994981,15995007-15995234
ATCTTGGTGATATAGCAAGAGCCAAGTTATACTTCGATTCGGTTGGACATTACTCGAGACCAGA
TGTTTTACACTTGACCGTAAATGAGCACCCGAGGAAATCGGTTACATTCGTGACGAAGGTGGAG
AAAGCTGAGGATGACTCAAACAAATAGTAAGAGACTTGAAGTTCGTATCTGCTGGAGTTATGTC
AATCGTATGGAGTCAAGTCCAAAATGTTCTGTTGCGCAAGTCTCTTCAGTGTCATCAAAGTATA
AAGTAAAAACAAAGACTCGAGTTAATATGTCTAGTACTGAAGAAATGTCATCAGTCAAAAACAC
AACTCAGGTTATTGGCGTTGACCCATCCTCCACCGTACGAGTTACCATCGTTCAATCTTCCACC
GTCTATAATGATACCCCGGCCACTTTAGTAGACAAGGCGGAGAAGTTTATTGTGGAGCTCTATT
GCACAGCTCTTTTCTTCAGTCCACAAGGTCAGTTTTTAGGTAAGCACCGTAAAGTCATGCCCAC
ATCTTTGGAACGTTGCATATGGGGTCAAGGGGACGGATCAACCATCCCCGTTTACGACACTCCT
ATTGGCAAAATCGGTGCTGCTATTTGCTGGGAGAATAGGATGCCCCTCTACAGAACTGCATTGT
ACGCTAAAGGAGGCATTGAGATTTATTGTGCACCTACTGCTCGATGATTCACATTGCGGTAGAA
GGTGGATGTTTCGTGTTGTCAGCGCACCAGTTCTGCAAGCGTAGAGAGTTCCCTGAACATCCTG
ATTACTTGTTTAATGACATAGTAGACACTAAAGAACATGATCCTACTGTCTCCGGAGGTGGAAG
TGTCATTATTTCACCTTTGGGAAAGGTTCTCGCCGGACCAAACTATGAATCAGAGGGTCTCGTC
ACAGCTGATCTTG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CCTACTGTCTCCGGAGGTGGAAGTGTCATTATTTCACCTTTGGGAAAGGTTCTCGCCGGACCAA ACTATGAATCAGAGGGTCTCGTCACAGCTGATCTTGatcttggtgatatagcaagagccaagtt atacttcgattcggttggacattactcgagaccagatgttttacacttgaccgtaaatgagcac ccgaggaa
Assembled circRNA sequence	Yes 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	Transcript length: 833 Transcript exons: 15988687-15988914,15993395-15993548,15993641-15993669,15 994712-15994870,15994951-15994983,15995005-15995234 ATCTTGGTGATATAGCAAGAGCCAAGTTATACTTCGATTCGGTTGGACATTACTCGAGACCAGA TGTTTTACACTTGACCGTAAATGAGCACCCGAGGAAATCGGTTACATTCGTGACGAAGGTGGAG AAAGCTGAGGATGACTCAAACAAATAGTAAGAGACTTGAAGTTCGTATCTGCTGGAGTTATGTC AATCGTATGGAGTCAAGTCCAAAATGTTCTGTTGCGGTAAAAACAAAGACTCGAGTTAATATGT CTAGTACTGAAGAAATGTCATCAGTCAAAAACACAACTCAGGTTATTGGCGTTGACCCATCCTC CACCGTACGAGTTACCATCGTTCAATCTTCCACCGTCTATAATGATACCCCGGCCACTTTAGTA GACAAGGCGGAGAAGTTTATTGTGGAGGCACCGTAAAGTCATGCCCACATCTTTGGAACGTTGC ATATGGGGTCAAGGGGACGGATCAACCATCCCCGTTTACGACACTCCTATTGGCAAAATCGGTG CTGCTATTTGCTGGGAGAATAGGATGCCCCTCTACAGAACTGCATTGTACGCTAAAGGAGGCAT TGAGATTTATTGTGCACCTACTGCTGAATCGATGATTCACATTGCGGTAGAAGGTGGATGTTTC GTGTTGTCAGCGCACCAGTTCTGCAAGCGTAGAGAGTTCCCTGAACATCCTGATTACTTGTTTA ATGACATAGTAGACACTAAAGAACATGATCCTACTGTCTCCGGAGGTGGAAGTGTCATTATTTC ACCTTTGGGAAAGGTTCTCGCCGGACCAAACTATGAATCAGAGGGTCTCGTCACAGCTGATCTT G Transcript length: 909 Transcript exons: 15988687-15988914,15993365-15993548,15993641-15993669,15 994662-15994870,15994951-15994981,15995007-15995234 ATCTTGGTGATATAGCAAGAGCCAAGTTATACTTCGATTCGGTTGGACATTACTCGAGACCAGA TGTTTTACACTTGACCGTAAATGAGCACCCGAGGAAATCGGTTACATTCGTGACGAAGGTGGAG AAAGCTGAGGATGACTCAAACAAATAGTAAGAGACTTGAAGTTCGTATCTGCTGGAGTTATGTC AATCGTATGGAGTCAAGTCCAAAATGTTCTGTTGCGCAAGTCTCTTCAGTGTCATCAAAGTATA AAGTAAAAACAAAGACTCGAGTTAATATGTCTAGTACTGAAGAAATGTCATCAGTCAAAAACAC AACTCAGGTTATTGGCGTTGACCCATCCTCCACCGTACGAGTTACCATCGTTCAATCTTCCACC GTCTATAATGATACCCCGGCCACTTTAGTAGACAAGGCGGAGAAGTTTATTGTGGAGCTCTATT GCACAGCTCTTTTCTTCAGTCCACAAGGTCAGTTTTTAGGTAAGCACCGTAAAGTCATGCCCAC ATCTTTGGAACGTTGCATATGGGGTCAAGGGGACGGATCAACCATCCCCGTTTACGACACTCCT ATTGGCAAAATCGGTGCTGCTATTTGCTGGGAGAATAGGATGCCCCTCTACAGAACTGCATTGT ACGCTAAAGGAGGCATTGAGATTTATTGTGCACCTACTGCTCGATGATTCACATTGCGGTAGAA GGTGGATGTTTCGTGTTGTCAGCGCACCAGTTCTGCAAGCGTAGAGAGTTCCCTGAACATCCTG ATTACTTGTTTAATGACATAGTAGACACTAAAGAACATGATCCTACTGTCTCCGGAGGTGGAAG TGTCATTATTTCACCTTTGGGAAAGGTTCTCGCCGGACCAAACTATGAATCAGAGGGTCTCGTC ACAGCTGATCTTG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.838756687

Conservation Information
Conserved circRNAs	NA
PMCS	0.838756687

			
						 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;Chen et al., 2017a

circRNA

Detail information of 3_circ_ag.7

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