Plant Circular RNA Database

Detail information of 4_circ_ag.3

			
						 General Information
					
						CircRNA Name
						4_circ_ag.3
					
						ID in PlantcircBase
						ath_circ_032311
					
						Alias
						4:12203719-12206956
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 12203719-12206956  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
						
							4_circ_ag.2 						
					
						Support reads
						3/3
					
						Tissues
						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  
						
							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.3
ID in PlantcircBase	ath_circ_032311
Alias	4:12203719-12206956
Organism	Arabidpsis thaliana
Position	chr4: 12203719-12206956 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	4_circ_ag.2
Support reads	3/3
Tissues	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	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  
						
							TGGAAATTGGTTGAATAATGGCACCAAGTGCTATAGTCTTGCTAACTTGCACAAATCCAGGACA
TGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAAagtccaagaggcatataaacgagcataa
tcaccgtggtatagcgatggattcacctgttttatatacatattttcaaacttttgttaacttt
aaactcat

									
								

					

						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
						
							AGTCCAAGAGGCATATAAACGAGCATAATCACCGTGGTATAGCGATGGATTCACCTGTTTTATA
TACATATTTTCAAACTTTTGTTAACTTTAAACTCATGCAACTTATAGTTGATGAGGCGTATTAG
CGAACATGGTCACTTTTTATTAAGGAACCAGAAGTGACTTACTTTCCATCCAACAGAAATGCTG
GCGAAATTATCTTTAGCACCTCCACCAACTGCTATGTATGCAACACTAACTTGATCTTCCAAGA
TTTTTGGTCTCCATACGTTAAGGTTTCCTCTTACTCCAGCAAAAAGATCTGGTCCATAGTTACC
TCTTGCAACCTAATATCCATAAAGAACAAAGAAACTCAAAAAACGAAAGTAGAAAGGAAATAAA
ATGGTGGTTGGTATATATACTCTCAACTTATAAGGGTTCTTACGTATAATTTTCCATTTGAATT
AGTGTTGTTGGTTGTCTTTGTTAGAAAAGGTCTCGGGCCATCAAATCCCATGGATTTCAAACGT
TGTGCATGCATAAGATCTTCCATTGTAGTCCTTTTTACAATTACTGTGCCATTTGGACAGCTTA
TACCTTCTTGCAAAAGACTAAAACTCCCTGAAATGTTGTTTCCAGTGATCCATTCAGGTACTGT
TGTTGGCTTTAGCTGCATATACAAAGTCAGTAATCATTCTCTAAGGAGAGTCATCTTTTAATAC
AGAAGGCAATAGCTAGATAAAGAGAGTATTAATTATGTATAAAACAAAACCTGAACAGAGTGGT
TTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTGAATATCGATACAATCAAATATATCACC
ATGTTCAGTCTGTTCATAAGAAAAAGAAGTTAGATATGAAACAATAAGCAGGTAAGATTAAGGA
AGGCTAAGCCAACCTTGAAACTCTTGATTGCAGGCTTGTTGATAGCTTTGAGTTGTCTCTTCAT
TTCATTCCTTTCTGCCTTTGATGGTATTGCTCGGCGTTCCTTAGTTGCTTCAGCGGATAGAATA
AGAGTGATTATTAACAGAATCAGTAACACAAAGTGGTTGAAGGAAGCCATTGATACTATGAAAG
AGGCTCTTATCTTTATTCTTTCTTCTACAAACCAGAAATGAATCAAAATGATTTATTTATAATG
TAGAAAATCACATGAAAACTAAATTTATTGACACAATTAGTTCATGCATTTTTGTATCATTTAT
TATCTTTATGCAAATTTAAAGAATATGGACTAAATGATATTGACTTATGAATAGTTAACAAAAT
AATATTTGACCATAATAGTTTCCATTTGTTACAGATCTTCTGTGAGTTTTTAGTCTATATTACC
ATTTTGCTTTCCTCTTCTTTTTTTGTTTTTTCTTGAAGGGTGAGTTTGCACTCAATCTATGTTC
ATTCGATATTTTGTGCTGAATTGTGAACTTATGAGTATTCATTAGAGCGCAAGTAATGCTTAGA
TATATATATCAATTATGTCAATTTTCTATTATACCCTATCTAAAAGTCTTACGATCTTGCAACT
CTTTATTTCGTAGATCATTATTACCCTATGCATCCTCCAAAGTAAAAAGCTCTTAACCAAGGCT
CATCATCCTCATGAACATATATGGCTTTGTAACATTTTGGTCTCCTTTCATGTACCATCATTAT
ATCCACTTCTGGATCGAAAACTGTTCCCGAACCATCGATGATTTTGATGCCTCTCACATAAGCT
GCTTTACTTAAGCATTCAATATCTTGATGATACTTGTGGCGCAAGTATCACTTTCTTGCCCACA
AAACAGAGAAGAAACGATAGAGAGACTCTGTTCACCAACTTTCTCAATACAACTCGATGTTCAG
ACAATCGCAGCCGACCGTTACTCCATGCTTGCATTAGATCTCCAATGTTAACAACAAGGTGATC
CTCACACGGATTTATATCGATCCATTTCCCTTCTTTAGACCTCATTTGAAGCCCACCAACGGAA
TCTTGATAGACTATTGTTATGCAGCTCATATCCTTATGCTTTCAAAGACCTTCAACGAGCTCTT
CTTGCTTCTCTACGTCGTGTGGAGGTGTGTAGTTCACTAGCCTTAAGTATCCATGACAGTTGCT
AAACACACTTTGGTAGAATCTTTTCCCTCATCAAGAGAATCTTTATGAGTCTTTTGAACTGGTG
AATCAATTGATATACTCTCGTGAAAGAGTAGGGTAGGGGCAAGCTATGCTATTATCATCAAGAC
AATCTTTATGACTCTTTAGTCTTAAGGGGTTTAGAGGTAAAGAGTAGGGGCAAGCTAGGCTATG
TATATGGGTATATATATTTAAGACATGATTTTTTTTTTTGTCATCATATTTAAGACATGATTAA
AAGAAGCTTTTAGATGAATTTCAGACAAAAGCACAGTAGAACCCACATTTTTGGTTATCACCAT
GTTGGTTTTATAAAGGATGGTAATTTATGATGATTTGACTTAGGCATAAACATCAAACATATTG
CAAAAAAAGTTGTGAAGATTCATGGAAACTTTATTATTCGTACAGAGCGCAAGTAATGCTTAGA
TATATTTCAAATATGTGGTTTTTTTCCTATAGCCTATTTAAAACTTTTAAGATATTGCTACTCT
TTATTTCGTAGATCAATAATTACACTATGCATCCTCCAGGACCTCCATAGTAAAAAGATTTTAA
CCAAGGCTTCTTAGCATCATGAACAAATCTGGCTTTGTAACAGCTTCGCATGGTCTCATGTAAC
TTCACTGTACCCGTTTGTGGATTAAAAACTCTTCCATTAACATTAATGATTTGGAGGTTGCTAA
CATAAGCAGATTTATGGAAGCCCTCACTAGGCCAATGACCACTTCCCATAGGTGGACTCTTCTC
TGTCACTGGGCTATACACTTGGCCACCCCAAGATGCATAACTTGCGGCGTTAGATTCTCTCCAG
GACTTGAACAATGATGCTGGCCAGTATCCAACGTCCTCATCATTACATGCAAACCACCAATCTC
CCTTGATTTGATTCTGTTCCCAATTTTTGAAAGATGAATCCAAATGACTTTTAAAAGAAGTGAT
CAAAAAGATGAGTAGACTTTACCTGATACAAGGTCAAACGCAATTCATACTGTGGACCCTTATA
GATGGAAATTGGTTGAATAATGGCACCAAGTGCTATAGTCTTGCTAACTTGCACAAATCCAGGA
CATGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAA
						
					

			
		

Sequences
Splice junction sequence	TGGAAATTGGTTGAATAATGGCACCAAGTGCTATAGTCTTGCTAACTTGCACAAATCCAGGACA TGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAAagtccaagaggcatataaacgagcataa tcaccgtggtatagcgatggattcacctgttttatatacatattttcaaacttttgttaacttt aaactcat
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	AGTCCAAGAGGCATATAAACGAGCATAATCACCGTGGTATAGCGATGGATTCACCTGTTTTATA TACATATTTTCAAACTTTTGTTAACTTTAAACTCATGCAACTTATAGTTGATGAGGCGTATTAG CGAACATGGTCACTTTTTATTAAGGAACCAGAAGTGACTTACTTTCCATCCAACAGAAATGCTG GCGAAATTATCTTTAGCACCTCCACCAACTGCTATGTATGCAACACTAACTTGATCTTCCAAGA TTTTTGGTCTCCATACGTTAAGGTTTCCTCTTACTCCAGCAAAAAGATCTGGTCCATAGTTACC TCTTGCAACCTAATATCCATAAAGAACAAAGAAACTCAAAAAACGAAAGTAGAAAGGAAATAAA ATGGTGGTTGGTATATATACTCTCAACTTATAAGGGTTCTTACGTATAATTTTCCATTTGAATT AGTGTTGTTGGTTGTCTTTGTTAGAAAAGGTCTCGGGCCATCAAATCCCATGGATTTCAAACGT TGTGCATGCATAAGATCTTCCATTGTAGTCCTTTTTACAATTACTGTGCCATTTGGACAGCTTA TACCTTCTTGCAAAAGACTAAAACTCCCTGAAATGTTGTTTCCAGTGATCCATTCAGGTACTGT TGTTGGCTTTAGCTGCATATACAAAGTCAGTAATCATTCTCTAAGGAGAGTCATCTTTTAATAC AGAAGGCAATAGCTAGATAAAGAGAGTATTAATTATGTATAAAACAAAACCTGAACAGAGTGGT TTTTTAGTAGATGATGATCAAATGCTAGTTGTTTGTGAATATCGATACAATCAAATATATCACC ATGTTCAGTCTGTTCATAAGAAAAAGAAGTTAGATATGAAACAATAAGCAGGTAAGATTAAGGA AGGCTAAGCCAACCTTGAAACTCTTGATTGCAGGCTTGTTGATAGCTTTGAGTTGTCTCTTCAT TTCATTCCTTTCTGCCTTTGATGGTATTGCTCGGCGTTCCTTAGTTGCTTCAGCGGATAGAATA AGAGTGATTATTAACAGAATCAGTAACACAAAGTGGTTGAAGGAAGCCATTGATACTATGAAAG AGGCTCTTATCTTTATTCTTTCTTCTACAAACCAGAAATGAATCAAAATGATTTATTTATAATG TAGAAAATCACATGAAAACTAAATTTATTGACACAATTAGTTCATGCATTTTTGTATCATTTAT TATCTTTATGCAAATTTAAAGAATATGGACTAAATGATATTGACTTATGAATAGTTAACAAAAT AATATTTGACCATAATAGTTTCCATTTGTTACAGATCTTCTGTGAGTTTTTAGTCTATATTACC ATTTTGCTTTCCTCTTCTTTTTTTGTTTTTTCTTGAAGGGTGAGTTTGCACTCAATCTATGTTC ATTCGATATTTTGTGCTGAATTGTGAACTTATGAGTATTCATTAGAGCGCAAGTAATGCTTAGA TATATATATCAATTATGTCAATTTTCTATTATACCCTATCTAAAAGTCTTACGATCTTGCAACT CTTTATTTCGTAGATCATTATTACCCTATGCATCCTCCAAAGTAAAAAGCTCTTAACCAAGGCT CATCATCCTCATGAACATATATGGCTTTGTAACATTTTGGTCTCCTTTCATGTACCATCATTAT ATCCACTTCTGGATCGAAAACTGTTCCCGAACCATCGATGATTTTGATGCCTCTCACATAAGCT GCTTTACTTAAGCATTCAATATCTTGATGATACTTGTGGCGCAAGTATCACTTTCTTGCCCACA AAACAGAGAAGAAACGATAGAGAGACTCTGTTCACCAACTTTCTCAATACAACTCGATGTTCAG ACAATCGCAGCCGACCGTTACTCCATGCTTGCATTAGATCTCCAATGTTAACAACAAGGTGATC CTCACACGGATTTATATCGATCCATTTCCCTTCTTTAGACCTCATTTGAAGCCCACCAACGGAA TCTTGATAGACTATTGTTATGCAGCTCATATCCTTATGCTTTCAAAGACCTTCAACGAGCTCTT CTTGCTTCTCTACGTCGTGTGGAGGTGTGTAGTTCACTAGCCTTAAGTATCCATGACAGTTGCT AAACACACTTTGGTAGAATCTTTTCCCTCATCAAGAGAATCTTTATGAGTCTTTTGAACTGGTG AATCAATTGATATACTCTCGTGAAAGAGTAGGGTAGGGGCAAGCTATGCTATTATCATCAAGAC AATCTTTATGACTCTTTAGTCTTAAGGGGTTTAGAGGTAAAGAGTAGGGGCAAGCTAGGCTATG TATATGGGTATATATATTTAAGACATGATTTTTTTTTTTGTCATCATATTTAAGACATGATTAA AAGAAGCTTTTAGATGAATTTCAGACAAAAGCACAGTAGAACCCACATTTTTGGTTATCACCAT GTTGGTTTTATAAAGGATGGTAATTTATGATGATTTGACTTAGGCATAAACATCAAACATATTG CAAAAAAAGTTGTGAAGATTCATGGAAACTTTATTATTCGTACAGAGCGCAAGTAATGCTTAGA TATATTTCAAATATGTGGTTTTTTTCCTATAGCCTATTTAAAACTTTTAAGATATTGCTACTCT TTATTTCGTAGATCAATAATTACACTATGCATCCTCCAGGACCTCCATAGTAAAAAGATTTTAA CCAAGGCTTCTTAGCATCATGAACAAATCTGGCTTTGTAACAGCTTCGCATGGTCTCATGTAAC TTCACTGTACCCGTTTGTGGATTAAAAACTCTTCCATTAACATTAATGATTTGGAGGTTGCTAA CATAAGCAGATTTATGGAAGCCCTCACTAGGCCAATGACCACTTCCCATAGGTGGACTCTTCTC TGTCACTGGGCTATACACTTGGCCACCCCAAGATGCATAACTTGCGGCGTTAGATTCTCTCCAG GACTTGAACAATGATGCTGGCCAGTATCCAACGTCCTCATCATTACATGCAAACCACCAATCTC CCTTGATTTGATTCTGTTCCCAATTTTTGAAAGATGAATCCAAATGACTTTTAAAAGAAGTGAT CAAAAAGATGAGTAGACTTTACCTGATACAAGGTCAAACGCAATTCATACTGTGGACCCTTATA GATGGAAATTGGTTGAATAATGGCACCAAGTGCTATAGTCTTGCTAACTTGCACAAATCCAGGA CATGACATGTCGTTGCAGCCGGTATTGCTTCCATGTAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106291558

Conservation Information
Conserved circRNAs	NA
PMCS	0.106291558

			
						 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 4_circ_ag.3

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