Plant Circular RNA Database

Detail information of 4_circ_ag.6

			
						 General Information
					
						CircRNA Name
						4_circ_ag.6
					
						ID in PlantcircBase
						ath_circ_032182
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 11805583-11819176  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.2 AT4G22285_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 AT4G22285_circ_g.15 4_circ_ag.16 4_circ_ag.17 AT4G22300_circ_g.1 4_circ_ag.2 AT4G22305_circ_g.1 AT4G22305_circ_g.2 AT4G22305_circ_g.3 AT4G22310_circ_g.1 AT4G22330_circ_g.1 AT4G22340_circ_g.1 AT4G22340_circ_g.2 AT4G22340_circ_g.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 AT4G22360_circ_g.1 AT4G22360_circ_g.2 AT4G22360_circ_g.3 AT4G22360_circ_g.4 						
					
						Support reads
						5
					
						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  
						
							CT-AC							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	4_circ_ag.6
ID in PlantcircBase	ath_circ_032182
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 11805583-11819176 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.2 AT4G22285_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 AT4G22285_circ_g.15 4_circ_ag.16 4_circ_ag.17 AT4G22300_circ_g.1 4_circ_ag.2 AT4G22305_circ_g.1 AT4G22305_circ_g.2 AT4G22305_circ_g.3 AT4G22310_circ_g.1 AT4G22330_circ_g.1 AT4G22340_circ_g.1 AT4G22340_circ_g.2 AT4G22340_circ_g.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 AT4G22360_circ_g.1 AT4G22360_circ_g.2 AT4G22360_circ_g.3 AT4G22360_circ_g.4
Support reads	5
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	CT-AC 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  
						
							GGAGCCACGACATAAACTCTACTGGATCTGATTGTTGGCCAATCCGAAAGCGTTTCTTGCTGGC
TTTCATGACAGCTTGCAAGAACTCATGTGGACTCACttgtcctttaaagtttcgagcatgccaa
atcttgcgagttagttccccaaaacggtgaccaagaggagacttgcagtgctgataattttcag
gaatgagg

									
								

					

						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: 617
Transcript exons: 11805583-11805760,11805847-11805966,11806202-11806452,11
806584-11806651
TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA
GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA
TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGTTCCTGGAAGATAGTCG
GAGCCATCAAGAGCCCTAGACCACTGCCTATTCTTGTCAAGCTCGTTTACTTGTGCTCTACTAA
ACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTACCTTGGGTTTAAAACATGGCG
AATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGAAGACAATAAACCTTCTCTGTC
AGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTGTATAAGCATGAGACTTCTGGC
TTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACACATTCAGATTTGACAATGAGAC
AGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAACCTGACGATTAACAGTATCAAGATAA
GGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCC
Transcript length: 705
Transcript exons: 11805583-11805760,11805902-11805966,11806202-11806452,11
806584-11806651,11819034-11819176
TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA
GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA
TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGTTCCTCGTTTACTTGTG
CTCTACTAAACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTACCTTGGGTTTAA
AACATGGCGAATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGAAGACAATAAACC
TTCTCTGTCAGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTGTATAAGCATGAG
ACTTCTGGCTTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACACATTCAGATTTGA
CAATGAGACAGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAACCTGACGATTAACAGTA
TCAAGATAAGGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCCCTGGCGTCCTTTGA
AGTTCTAAGATCCATGTGCAAAGTGTTGAGGAGCCACGACATAAACTCTACTGGATCTGATTGT
TGGCCAATCCGAAAGCGTTTCTTGCTGGCTTTCATGACAGCTTGCAAGAACTCATGTGGACTCA
C
Transcript length: 713
Transcript exons: 11805583-11805756,11805886-11805966,11806202-11806453,11
806584-11806651,11819039-11819176
TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA
GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA
TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGCCTATTCTTGTCAAGCT
CGTTTACTTGTGCTCTACTAAACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTA
CCTTGGGTTTAAAACATGGCGAATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGA
AGACAATAAACCTTCTCTGTCAGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTG
TATAAGCATGAGACTTCTGGCTTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACAC
ATTCAGATTTGACAATGAGACAGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAAACCTG
ACGATTAACAGTATCAAGATAAGGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCCG
TCCTTTGAAGTTCTAAGATCCATGTGCAAAGTGTTGAGGAGCCACGACATAAACTCTACTGGAT
CTGATTGTTGGCCAATCCGAAAGCGTTTCTTGCTGGCTTTCATGACAGCTTGCAAGAACTCATG
TGGACTCAC
						
					

						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	GGAGCCACGACATAAACTCTACTGGATCTGATTGTTGGCCAATCCGAAAGCGTTTCTTGCTGGC TTTCATGACAGCTTGCAAGAACTCATGTGGACTCACttgtcctttaaagtttcgagcatgccaa atcttgcgagttagttccccaaaacggtgaccaagaggagacttgcagtgctgataattttcag gaatgagg
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: 617 Transcript exons: 11805583-11805760,11805847-11805966,11806202-11806452,11 806584-11806651 TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGTTCCTGGAAGATAGTCG GAGCCATCAAGAGCCCTAGACCACTGCCTATTCTTGTCAAGCTCGTTTACTTGTGCTCTACTAA ACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTACCTTGGGTTTAAAACATGGCG AATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGAAGACAATAAACCTTCTCTGTC AGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTGTATAAGCATGAGACTTCTGGC TTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACACATTCAGATTTGACAATGAGAC AGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAACCTGACGATTAACAGTATCAAGATAA GGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCC Transcript length: 705 Transcript exons: 11805583-11805760,11805902-11805966,11806202-11806452,11 806584-11806651,11819034-11819176 TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGTTCCTCGTTTACTTGTG CTCTACTAAACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTACCTTGGGTTTAA AACATGGCGAATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGAAGACAATAAACC TTCTCTGTCAGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTGTATAAGCATGAG ACTTCTGGCTTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACACATTCAGATTTGA CAATGAGACAGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAACCTGACGATTAACAGTA TCAAGATAAGGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCCCTGGCGTCCTTTGA AGTTCTAAGATCCATGTGCAAAGTGTTGAGGAGCCACGACATAAACTCTACTGGATCTGATTGT TGGCCAATCCGAAAGCGTTTCTTGCTGGCTTTCATGACAGCTTGCAAGAACTCATGTGGACTCA C Transcript length: 713 Transcript exons: 11805583-11805756,11805886-11805966,11806202-11806453,11 806584-11806651,11819039-11819176 TTGTCCTTTAAAGTTTCGAGCATGCCAAATCTTGCGAGTTAGTTCCCCAAAACGGTGACCAAGA GGAGACTTGCAGTGCTGATAATTTTCAGGAATGAGGAAGAAATTCCTTAGAGGAGTAACTCTCA TCAACGACTGGATTGTAACATTCACAAACTCTGTCTTTTGTATGTTGCCTATTCTTGTCAAGCT CGTTTACTTGTGCTCTACTAAACCTGTAAATGGATAGCACCGAAGCCTTCATACAAAGGAACTA CCTTGGGTTTAAAACATGGCGAATGTCATCCAAAGAAGGGTCATTGATCTCGTAACTATCAGGA AGACAATAAACCTTCTCTGTCAGAAGATTGATGTAAACGTGGTGTCCTGCTTCCAAGCTATGTG TATAAGCATGAGACTTCTGGCTTCTTCCTTGAAAGTACTTCCCACAAACAAGACACGCATACAC ATTCAGATTTGACAATGAGACAGAGCAAAACCTCTCGAAATCAAAATCCAACACCTGAAACCTG ACGATTAACAGTATCAAGATAAGGACAATCACGACGAACTTCAACATGGCGTGAATGCTTTCCG TCCTTTGAAGTTCTAAGATCCATGTGCAAAGTGTTGAGGAGCCACGACATAAACTCTACTGGAT CTGATTGTTGGCCAATCCGAAAGCGTTTCTTGCTGGCTTTCATGACAGCTTGCAAGAACTCATG TGGACTCAC
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
						0.66943892

Conservation Information
Conserved circRNAs	NA
PMCS	0.66943892

			
						 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 4_circ_ag.6

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