Plant Circular RNA Database

Detail information of 3_circ_ag.7

			
						 General Information
					
						CircRNA Name
						3_circ_ag.7
					
						ID in PlantcircBase
						ath_circ_022189
					
						Alias
						Ath_circ_FC2024
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 5579858-5594085  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G16420_circ_g.1 AT3G16420_circ_g.2 AT3G16420_circ_g.3 3_circ_ag.4 3_circ_ag.5 AT3G16420_circ_g.6 AT3G16420_circ_g.8 AT3G16420_circ_g.9 AT3G16420_circ_g.10 AT3G16420_circ_g.11 AT3G16420_circ_g.12 AT3G16420_circ_g.13 3_circ_ag.14 3_circ_ag.15 3_circ_ag.16 AT3G16430_circ_g.1 AT3G16430_circ_g.2 3_circ_ag.3 AT3G16450_circ_g.1 AT3G16450_circ_g.2 AT3G16450_circ_g.3 AT3G16450_circ_g.4 3_circ_ag.5 AT3G16460_circ_g.1 AT3G16460_circ_g.2 AT3G16460_circ_g.3 AT3G16460_circ_g.4 AT3G16460_circ_g.5 AT3G16460_circ_g.6 						
					
						Support reads
						44
					
						Tissues
						root
					
						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_022189
Alias	Ath_circ_FC2024
Organism	Arabidpsis thaliana
Position	chr3: 5579858-5594085 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G16420_circ_g.1 AT3G16420_circ_g.2 AT3G16420_circ_g.3 3_circ_ag.4 3_circ_ag.5 AT3G16420_circ_g.6 AT3G16420_circ_g.8 AT3G16420_circ_g.9 AT3G16420_circ_g.10 AT3G16420_circ_g.11 AT3G16420_circ_g.12 AT3G16420_circ_g.13 3_circ_ag.14 3_circ_ag.15 3_circ_ag.16 AT3G16430_circ_g.1 AT3G16430_circ_g.2 3_circ_ag.3 AT3G16450_circ_g.1 AT3G16450_circ_g.2 AT3G16450_circ_g.3 AT3G16450_circ_g.4 3_circ_ag.5 AT3G16460_circ_g.1 AT3G16460_circ_g.2 AT3G16460_circ_g.3 AT3G16460_circ_g.4 AT3G16460_circ_g.5 AT3G16460_circ_g.6
Support reads	44
Tissues	root
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  
						
							GGAAGGTATTCAATACGTCAAGTTCGACTATGTGAAAGGTGGAGTAACAAAACAAGGAGTTCTA
CACGGTAAACAACAAAGTAGACAAAATCCAAGAGAGtttgtgattaaccatccagacgaacatc
tagtttctgtagaaggttggtatagccctgaaggtatcattcaaggaattaagttcatctccaa
caagaaga

									
								

					

						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: 1596
Transcript exons: 5579858-5579875,5580216-5580301,5580420-5580658,5582344-
5582571,5582706-5582754,5586611-5586731,5586925-5587067,
5587288-5587309,5588567-5588787,5588971-5589015,5589238-
5589427,5593852-5594085
TTTGTGATTAACCATCCACAGCTGTTAAGTTTGTGTACGACAAAAGCCCTGAGGAGGTCACAGG
AGAAGAACATGGAAAGAGTACTCTACTCGGATTCGAAGAGCAGTTCGTACTTGACTATCCAAGT
GAATACATCACCGCAGTCGATGGCACTTATGATAAAATCTTTGGGAGTGATGGCTCAGTCATAA
CTATGCTCAGGTTCAAGACTAATAAGCAAACGTCTCCTCCCTTTGGACTTGAAGCTGGCACAGT
CTTCGAACTCAAAGAGGAAGGCCACAAGATCGTTGGTTTCCATGGAAGAGCCGATGTTCTGCTC
CACAAAATTGGAGTCCATGTTCGTTACTTTGCTCCGTTGACTATCCCATTGACTCCTGCCAAGC
CGCTACCGGCACTTGGTAGTGATGATGGAACAGCATGGGATGATGGTGCTTACGTTGGGGTTAA
GAAGGTGTACGTAGGACAAGCCCAAGATGGTATATCGGCTGTTAAGTTTGTATACGACAAAAGC
CCTGAGGAGGTCACAGGAGAAGAACATGGAAAGAGTACTCTACTCGGATTCGAAGAGGTAGTTC
GTACTTGACTATCCAAGTGAATACATCATCGCAGTCGAAGGCACGTTTGAGGTTGATGCAGACG
ACTACATCGTAGCAGTGCAGGTGACCTATGACAAAATATTTGGCTATGACTCCGACATCATCAC
ATCCATAACCTTCTCTACATTCAAGGGAAAAACCTCGATGGTGCTTTCGATGGTGTTAAGAAAG
TGTATATAGGGCAAGCCCAAGATGGTATATCGGCCGTGAAGTTTGTGTACGATAAGGGCGCCGA
GGATATTGTAGGAGATGAACATGGAAATGATACTCTACTCGGATTTGAAGAGAGTTCCAACTTG
ACTATCCAAGCAGGTAACTAATTAATATTCAAAAAGATGGCTCAAAAAGTGGAAGCAGGGGGTG
GCGCCGGAGGAGCTTCATGGGATGATGGTGTCCACGATGGCGTTAGAAAGGTGCATGTAGGGCA
AGGCCAAGATGGTGTGTCATCTATCAACGTCGTGTATGCGAAGGACTCTCAGGATGTTGAAGGA
GGTGAACACGGAAAGAAAACGTTACTTGGATTTGAAACGGTTTGAGGTTGATGCAGACGACTAC
ATAGTAGCAGTGCAAGTGACCAAAAAACTATCTGCAATTGGTGGTGATGAAGGAACTGCATGGG
ACGACGGTGCGTACGATGGTGTCAAGAAGGTGTACGTAGGACAAGGCCAAGATGGGATATCAGC
CGTTAAGTTTGAGTACAACAAAGGCGCGGAGAATATCGTAGGAGGTGAACATGGAAAGCCTACT
TTACTCGGATTCGAGGAGGGCACTGGAACCGGAACTGGTACCGGTTCAGGTGCTCAGAAATTGG
AAGCACAAGGCAACAGTACAGGAGGTACATCATGGGACGATGGATCCGATTACGATGGCGTGAC
CAAGATATACGCAAGCTACGGTGGGGAAGGTATTCAATACGTCAAGTTCGACTATGTGAAAGGT
GGAGTAACAAAACAAGGAGTTCTACACGGTAAACAACAAAGTAGACAAAATCCAAGAGAG
						
					

						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	GGAAGGTATTCAATACGTCAAGTTCGACTATGTGAAAGGTGGAGTAACAAAACAAGGAGTTCTA CACGGTAAACAACAAAGTAGACAAAATCCAAGAGAGtttgtgattaaccatccagacgaacatc tagtttctgtagaaggttggtatagccctgaaggtatcattcaaggaattaagttcatctccaa caagaaga
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: 1596 Transcript exons: 5579858-5579875,5580216-5580301,5580420-5580658,5582344- 5582571,5582706-5582754,5586611-5586731,5586925-5587067, 5587288-5587309,5588567-5588787,5588971-5589015,5589238- 5589427,5593852-5594085 TTTGTGATTAACCATCCACAGCTGTTAAGTTTGTGTACGACAAAAGCCCTGAGGAGGTCACAGG AGAAGAACATGGAAAGAGTACTCTACTCGGATTCGAAGAGCAGTTCGTACTTGACTATCCAAGT GAATACATCACCGCAGTCGATGGCACTTATGATAAAATCTTTGGGAGTGATGGCTCAGTCATAA CTATGCTCAGGTTCAAGACTAATAAGCAAACGTCTCCTCCCTTTGGACTTGAAGCTGGCACAGT CTTCGAACTCAAAGAGGAAGGCCACAAGATCGTTGGTTTCCATGGAAGAGCCGATGTTCTGCTC CACAAAATTGGAGTCCATGTTCGTTACTTTGCTCCGTTGACTATCCCATTGACTCCTGCCAAGC CGCTACCGGCACTTGGTAGTGATGATGGAACAGCATGGGATGATGGTGCTTACGTTGGGGTTAA GAAGGTGTACGTAGGACAAGCCCAAGATGGTATATCGGCTGTTAAGTTTGTATACGACAAAAGC CCTGAGGAGGTCACAGGAGAAGAACATGGAAAGAGTACTCTACTCGGATTCGAAGAGGTAGTTC GTACTTGACTATCCAAGTGAATACATCATCGCAGTCGAAGGCACGTTTGAGGTTGATGCAGACG ACTACATCGTAGCAGTGCAGGTGACCTATGACAAAATATTTGGCTATGACTCCGACATCATCAC ATCCATAACCTTCTCTACATTCAAGGGAAAAACCTCGATGGTGCTTTCGATGGTGTTAAGAAAG TGTATATAGGGCAAGCCCAAGATGGTATATCGGCCGTGAAGTTTGTGTACGATAAGGGCGCCGA GGATATTGTAGGAGATGAACATGGAAATGATACTCTACTCGGATTTGAAGAGAGTTCCAACTTG ACTATCCAAGCAGGTAACTAATTAATATTCAAAAAGATGGCTCAAAAAGTGGAAGCAGGGGGTG GCGCCGGAGGAGCTTCATGGGATGATGGTGTCCACGATGGCGTTAGAAAGGTGCATGTAGGGCA AGGCCAAGATGGTGTGTCATCTATCAACGTCGTGTATGCGAAGGACTCTCAGGATGTTGAAGGA GGTGAACACGGAAAGAAAACGTTACTTGGATTTGAAACGGTTTGAGGTTGATGCAGACGACTAC ATAGTAGCAGTGCAAGTGACCAAAAAACTATCTGCAATTGGTGGTGATGAAGGAACTGCATGGG ACGACGGTGCGTACGATGGTGTCAAGAAGGTGTACGTAGGACAAGGCCAAGATGGGATATCAGC CGTTAAGTTTGAGTACAACAAAGGCGCGGAGAATATCGTAGGAGGTGAACATGGAAAGCCTACT TTACTCGGATTCGAGGAGGGCACTGGAACCGGAACTGGTACCGGTTCAGGTGCTCAGAAATTGG AAGCACAAGGCAACAGTACAGGAGGTACATCATGGGACGATGGATCCGATTACGATGGCGTGAC CAAGATATACGCAAGCTACGGTGGGGAAGGTATTCAATACGTCAAGTTCGACTATGTGAAAGGT GGAGTAACAAAACAAGGAGTTCTACACGGTAAACAACAAAGTAGACAAAATCCAAGAGAG
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
						0.54831724

Conservation Information
Conserved circRNAs	NA
PMCS	0.54831724

			
						 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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