Plant Circular RNA Database

Detail information of 3_circ_ag.4

			
						 General Information
					
						CircRNA Name
						3_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_024167
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 10449265-10452133  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G28070_circ_g.1 3_circ_ag.2 3_circ_ag.3 3_circ_ag.5 3_circ_ag.6 AT3G28070_circ_g.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 AT3G28080_circ_g.1 3_circ_ag.2 AT3G28100_circ_g.1 						
					
						Support reads
						6
					
						Tissues
						leaf
					
						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.4
ID in PlantcircBase	ath_circ_024167
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 10449265-10452133 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G28070_circ_g.1 3_circ_ag.2 3_circ_ag.3 3_circ_ag.5 3_circ_ag.6 AT3G28070_circ_g.7 3_circ_ag.8 3_circ_ag.9 3_circ_ag.10 AT3G28080_circ_g.1 3_circ_ag.2 AT3G28100_circ_g.1
Support reads	6
Tissues	leaf
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  
						
							TTACAGGAGGCATAGGCATCGAATACAGCAACCCAACCTTAGCCTCCGCCATAGGCAATATTGT
TCCTGCTCTTACCTTCATCCTCGCTGTTATCTTCAGaatggaaaaagtatctttcaaagagagg
agtagtctagccaaattgatggggacgatattgtcactgataggtgcacttgtggtgattttct
accacggt

									
								

					

						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
						
							AATGGAAAAAGTATCTTTCAAAGAGAGGAGTAGTCTAGCCAAATTGATGGGGACGATATTGTCA
CTGATAGGTGCACTTGTGGTGATTTTCTACCACGGTCCACGTGTCTTCCTCGCATCTTCTCCGC
CCTATGTAAACTTCCGTCAGTTTTCTCCACCGTTGTCATCTTCAAACTCCGATTGGCTCATCGG
TGGAGCTCTTCTAACCATGCAAGGCATATTCGTTTCTGTTTCTTTCATTCTTCAGGTACCAATT
TTTTTTCCTTATATATAGTAGAAATAATTTTAAATTTATGGTTAAGTCAAAAATTAGTCATTAA
AAAAGGTGGAAACATACGAACACATGGTTTAGAGTAGACCTAGGCGTTCAGATATTTGGTTCGG
TTCTAGTTCGGTTCCAATTCTTTCGGCTCTCGAGTTTAGGATTCATATAGGAACTAAAACAGTT
TTGGTTTGGTTTGGGTTCGGGTTCGGTTTTTTCGGTTCTGAAGTTTAATTAGGACCCATTCGGA
TATTTATTTCAGATATTTTTTAGTATTTTCGGATATTTTCGAGTATTTTTGGATATTTTGGTAT
TTTTATATATTTTTCAACTATATTTTCGGTATTTTTGAATGTTCAATCTAAAAATAACTAATAT
TTTTGGATATATAATCATATTTAGATATTCTCGGATACCCGAAATATTTCAGTTCGGTTCGGGT
TCGGTTCCAATTATTTTGGTTCTAGAATTTAGGATTCATTTGAGTATTTTACCATTTTGGTTTG
GCTTCGGATTCGGTTCTTTTTGCTTTGGTTCCAGTTCGTTTTTTTTTGGTTCGGGTATTATGCC
CATGCATAGAGGGGTGAACTTTGGTTTTTGGTTGGAGATGATGTTATAATACATGTGGGAAAAC
ACATATCTTCATTTAGTAAACATCATTTCATTCTAATATTTATTCTATATAATGATTTTTGGAC
AGGCACATATAATGAGTGTATATCCAGCAGCATTCAGAGTCTCCTTTCTTTACACTGTATGTGT
TTCAATCGTGACCTCGACGATTGGACTAGTAGTTGAAAAGAACAACCCAAGCGTTTGGATCATT
CATTTCGATATTACTTTGATTACAATTGTTACCATGGTATGTTATATATATATATATATTTTAA
AGATATCAAAATATCTACTTTTTGATCTTAACACTTTTTTAAAAATAAAATATTTCAGGCAATA
GTAACTTCAGTATACTATGTGATTCATTCATGGACAGTACGACATAAAGGACCTCTGTACTTAG
CCATATTTAAACCTTTGTCCATTTTAATAGCAGTGGTTATGGGGGCCATTTTTCTCAATGATTC
TCTCTATCTCGGATGGTATTAATGAATCAATAGTCTTCATAAACATATCTATAAACAAAAACAT
CTACTCACCTTCGATTTTGTCCTTCGTTTTGCAGTTTGATCGGAGGAATTTTGATAACATTAGG
CTTTTACGCTGTGATGTGGGGCAAAGCAAACGAAGAGAAGGATCAGTTATCATTTTCAGAAAAA
GAGAAAACGCCTCTTCTATTAAACCGCAAAAACGACCAAGTTTAAAAAGAAAAAGAATATAGAC
AATAAAACTACTAATAGTTAACAAATACTGTTATTAATACCATATTTATAAAATTGTCTTATGT
CTCTATGAACCTAGGAGTTGGAAAAAAATGTGTGTATTTAGATTTTTTTTTCAAAATACTCCAA
CATTTATAAATACGAGTTAACATTTTTCCTTGACTCCTTTGGAACATATGAAAAGCTTAAATTG
ATATTCTTTGAAGCAATGATAGGTAACTGCACCAAGTATATATCCCGGTATAGTCACACATCCC
AAGTTTAGTGAACTACACGAATTATGTGTATTGTATGCTAATGTATACCAATTAGTAACATATG
ATCAACACCATCATATTCCTTTTACACCGTTTGTCAAATCCATTTTTAAAACCACTTTTGGTGA
ATTACGCCGTAGAAAAACAAGTCTAACACATTGTAACATTTTGAAGTGGTAATAAAATTTCTGA
TTCAAGGTTTCAATATCTATAATTATTGAAGTGGTTTCAATATCCATTATTGGATGATCATATT
TTGGCACAACTGTTTTCAAGTCTGCGCAAAGAATAGGGAATCTTATAATAAATTCAAGAAACAA
CAATTATTGGACCCACAATACACCACTTCCCCTCTAACTAGTACTATCATAAATGAAAAGCAAA
CAAATTAAGCGATAACAAATCAAAGACTCACATTTCAACACCAAACCTTTCTACCATTTCCAAT
GGCCGGAGCAGTAAGCCTTTGGCGGAGAGAGGCCGTGTTCTTGACGGCGATGCTGGCAGGCGAA
ACCAGCATCGTCGGACTAAGTACTCTGTTTAAGGTAGCAACTTCAAAGGGACTCAACATTTACC
CTTTCCTCAGCTATTCTTATCTTCTTGCTTCTCTTCTCCTTCTTCCTTCTCTGTTCTTCACCAA
CAGGTTCAAATAACTTTAATCTTTCTATGACCATTCTTTTGTATAGATTTTTATTTAATTTGTA
TGTTTTAATACAGGTCAAGATCACTTCCTCCACTAAGTGCCTCAATACTCTCTAAGATTGGACT
TCTTGGCTTTCTAGGGTAATATCCAAATACAACATTCCTTCTTCCAATATTTTTTATGAAATTA
TCATCCACTAAACTGTTGCTAATATATGATCTTTGGCTGAAAAAAATTCAAAACAAAAAAAGAA
CAGATCAATGTATGTTATTACAGGAGGCATAGGCATCGAATACAGCAACCCAACCTTAGCCTCC
GCCATAGGCAATATTGTTCCTGCTCTTACCTTCATCCTCGCTGTTATCTTCAG
						
					

			
		

Sequences
Splice junction sequence	TTACAGGAGGCATAGGCATCGAATACAGCAACCCAACCTTAGCCTCCGCCATAGGCAATATTGT TCCTGCTCTTACCTTCATCCTCGCTGTTATCTTCAGaatggaaaaagtatctttcaaagagagg agtagtctagccaaattgatggggacgatattgtcactgataggtgcacttgtggtgattttct accacggt
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	AATGGAAAAAGTATCTTTCAAAGAGAGGAGTAGTCTAGCCAAATTGATGGGGACGATATTGTCA CTGATAGGTGCACTTGTGGTGATTTTCTACCACGGTCCACGTGTCTTCCTCGCATCTTCTCCGC CCTATGTAAACTTCCGTCAGTTTTCTCCACCGTTGTCATCTTCAAACTCCGATTGGCTCATCGG TGGAGCTCTTCTAACCATGCAAGGCATATTCGTTTCTGTTTCTTTCATTCTTCAGGTACCAATT TTTTTTCCTTATATATAGTAGAAATAATTTTAAATTTATGGTTAAGTCAAAAATTAGTCATTAA AAAAGGTGGAAACATACGAACACATGGTTTAGAGTAGACCTAGGCGTTCAGATATTTGGTTCGG TTCTAGTTCGGTTCCAATTCTTTCGGCTCTCGAGTTTAGGATTCATATAGGAACTAAAACAGTT TTGGTTTGGTTTGGGTTCGGGTTCGGTTTTTTCGGTTCTGAAGTTTAATTAGGACCCATTCGGA TATTTATTTCAGATATTTTTTAGTATTTTCGGATATTTTCGAGTATTTTTGGATATTTTGGTAT TTTTATATATTTTTCAACTATATTTTCGGTATTTTTGAATGTTCAATCTAAAAATAACTAATAT TTTTGGATATATAATCATATTTAGATATTCTCGGATACCCGAAATATTTCAGTTCGGTTCGGGT TCGGTTCCAATTATTTTGGTTCTAGAATTTAGGATTCATTTGAGTATTTTACCATTTTGGTTTG GCTTCGGATTCGGTTCTTTTTGCTTTGGTTCCAGTTCGTTTTTTTTTGGTTCGGGTATTATGCC CATGCATAGAGGGGTGAACTTTGGTTTTTGGTTGGAGATGATGTTATAATACATGTGGGAAAAC ACATATCTTCATTTAGTAAACATCATTTCATTCTAATATTTATTCTATATAATGATTTTTGGAC AGGCACATATAATGAGTGTATATCCAGCAGCATTCAGAGTCTCCTTTCTTTACACTGTATGTGT TTCAATCGTGACCTCGACGATTGGACTAGTAGTTGAAAAGAACAACCCAAGCGTTTGGATCATT CATTTCGATATTACTTTGATTACAATTGTTACCATGGTATGTTATATATATATATATATTTTAA AGATATCAAAATATCTACTTTTTGATCTTAACACTTTTTTAAAAATAAAATATTTCAGGCAATA GTAACTTCAGTATACTATGTGATTCATTCATGGACAGTACGACATAAAGGACCTCTGTACTTAG CCATATTTAAACCTTTGTCCATTTTAATAGCAGTGGTTATGGGGGCCATTTTTCTCAATGATTC TCTCTATCTCGGATGGTATTAATGAATCAATAGTCTTCATAAACATATCTATAAACAAAAACAT CTACTCACCTTCGATTTTGTCCTTCGTTTTGCAGTTTGATCGGAGGAATTTTGATAACATTAGG CTTTTACGCTGTGATGTGGGGCAAAGCAAACGAAGAGAAGGATCAGTTATCATTTTCAGAAAAA GAGAAAACGCCTCTTCTATTAAACCGCAAAAACGACCAAGTTTAAAAAGAAAAAGAATATAGAC AATAAAACTACTAATAGTTAACAAATACTGTTATTAATACCATATTTATAAAATTGTCTTATGT CTCTATGAACCTAGGAGTTGGAAAAAAATGTGTGTATTTAGATTTTTTTTTCAAAATACTCCAA CATTTATAAATACGAGTTAACATTTTTCCTTGACTCCTTTGGAACATATGAAAAGCTTAAATTG ATATTCTTTGAAGCAATGATAGGTAACTGCACCAAGTATATATCCCGGTATAGTCACACATCCC AAGTTTAGTGAACTACACGAATTATGTGTATTGTATGCTAATGTATACCAATTAGTAACATATG ATCAACACCATCATATTCCTTTTACACCGTTTGTCAAATCCATTTTTAAAACCACTTTTGGTGA ATTACGCCGTAGAAAAACAAGTCTAACACATTGTAACATTTTGAAGTGGTAATAAAATTTCTGA TTCAAGGTTTCAATATCTATAATTATTGAAGTGGTTTCAATATCCATTATTGGATGATCATATT TTGGCACAACTGTTTTCAAGTCTGCGCAAAGAATAGGGAATCTTATAATAAATTCAAGAAACAA CAATTATTGGACCCACAATACACCACTTCCCCTCTAACTAGTACTATCATAAATGAAAAGCAAA CAAATTAAGCGATAACAAATCAAAGACTCACATTTCAACACCAAACCTTTCTACCATTTCCAAT GGCCGGAGCAGTAAGCCTTTGGCGGAGAGAGGCCGTGTTCTTGACGGCGATGCTGGCAGGCGAA ACCAGCATCGTCGGACTAAGTACTCTGTTTAAGGTAGCAACTTCAAAGGGACTCAACATTTACC CTTTCCTCAGCTATTCTTATCTTCTTGCTTCTCTTCTCCTTCTTCCTTCTCTGTTCTTCACCAA CAGGTTCAAATAACTTTAATCTTTCTATGACCATTCTTTTGTATAGATTTTTATTTAATTTGTA TGTTTTAATACAGGTCAAGATCACTTCCTCCACTAAGTGCCTCAATACTCTCTAAGATTGGACT TCTTGGCTTTCTAGGGTAATATCCAAATACAACATTCCTTCTTCCAATATTTTTTATGAAATTA TCATCCACTAAACTGTTGCTAATATATGATCTTTGGCTGAAAAAAATTCAAAACAAAAAAAGAA CAGATCAATGTATGTTATTACAGGAGGCATAGGCATCGAATACAGCAACCCAACCTTAGCCTCC GCCATAGGCAATATTGTTCCTGCTCTTACCTTCATCCTCGCTGTTATCTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229694263

Conservation Information
Conserved circRNAs	NA
PMCS	0.229694263

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5021 						
					
						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	ath-miR5021
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 3_circ_ag.4

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