Plant Circular RNA Database

Detail information of 1_circ_ag.5

			
						 General Information
					
						CircRNA Name
						1_circ_ag.5
					
						ID in PlantcircBase
						ath_circ_008880
					
						Alias
						1:24558075-24560390
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 24558075-24560390  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
						
							1_circ_ag.4 						
					
						Support reads
						3/1
					
						Tissues
						root;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	1_circ_ag.5
ID in PlantcircBase	ath_circ_008880
Alias	1:24558075-24560390
Organism	Arabidpsis thaliana
Position	chr1: 24558075-24560390 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	1_circ_ag.4
Support reads	3/1
Tissues	root;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  
						
							AGCATATCATTCATACTCACCGCTAAAGCAAATGATCTCATCAACACCCTTTGACTTCAGCTCC
TCTGCTTTCTCAATGAACCCAGGAACATGCTTCATGctgcatgtgggagtgaaagcaccaggaa
caccaaagagaatgacttttttaccggcggcgatagagtgaacggagacggtctgaagctgatc
attttcat

									
								

					

						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
						
							CTGCATGTGGGAGTGAAAGCACCAGGAACACCAAAGAGAATGACTTTTTTACCGGCGGCGATAG
AGTGAACGGAGACGGTCTGAAGCTGATCATTTTCATCGAAGAAAGAGATAGTTCCGTCTGGTAC
AACATCGCCGACAGTAATTGGAGCCATGAAGAGATCTCTGTGGTTTTGAAGACAGAGGAAAATA
GAAGAGTTTTGTTTGACTTGAGTGCGAAAATGTATTTAGGCCTTAGGACAATTTATAGTGCTTT
ACGGAATGATGTAAATCATTAATAGATTTCTAATTTTAGTTTGACCATAAAAAATATAATAGAA
TTTCTAAAATTATGATTAAAACAAAAATTGGATGTAAAATCTAGAACCAATATCTAAAAATAAA
CTTTTTTTTCCAAAAATACAACATTTTGTTTAAGTAACCCTCACTAATAGACTCATCTGCAAGA
ACATGTACACATATTTTGGAAAACATTGTATGACGATAAAAATTGAGTCTGATTTCTTCGTGAG
CAAGCAAGATTTTTTAAATCCAAAATTAATGCATCATATTCGTAACCTTATTGAGGGAAACAAA
TTAATAATTCAAATATGCTATTTTGATTAGGAAATATATGAAAATCGTTTCTCTAGAGAATACA
ATCGAATAGAGAGAGAATATGCCCTTGATTAGCTTTTAATTACATACCAAACAAAATGAATGGT
TAAGACTAAATCTATCGTAAAAACATTGTTAAGACCTGATTAGTTATTATTTGATTTCGTGATT
CGACCTATTTGATCCTAGCCCGCCCATATGATAAACACGCGGATCCTATACTTTTCTAATTTCA
ATAAGCACTCTAAATGCTAAAATTGAATTGCAATCTTATAACAATTTAGTATAATTTGCAATTT
GTACTTCTCTTACTATTATTTTCAAATTCAACATGTTGAATTGAATACCGCACAAAACAAATAG
AAGGTCATACGCTTACACAATCAAGATAAGCATTAGATACCGCACAAAACAAAAAAAGGGTCAT
ACGCTTACACAATCAAGATAAGCGTCATCGGACATATATATCCGATGAGCAAGGCTAAAAGATA
GAGCGGTAAAAAAAATAGAGACAAACTTACCAAAGTTTGATAATGTGTGAGAAGCCTATGTACA
TTATAAATGCAATATAGCAACTATACTTACCAGAAACTCAGGTAACCTAACTTTTTGGTATGTG
TCTACCATAGTCAAGAACAACAATGGCAAAATTTGGCATAAATGTTCACGTCAATGAGTCACAT
CTTTCATTAATCAACGCACAGAAAAACAACAAAACCAAATACTTTGTTATGCCAAACAAGTCAC
AATGAAACCGCTTTATTACAACCTTGGTTAATGTCTGAGAACAAGCTATAGAATCCTCTACTAC
ACATACAGCGGTTTACATAGACAACACAAGTGGTACATTTCTTAGAGAGCCTTGAGGATATCAT
CGGCGCTGGAAACTGTGAATTCGCCACCAGATTCGACATTGGCTACAGTCACTTTGAGATCATC
AAGTAACAGAGCAAATCTCCTTGACCTAACACCAAGACCCTTGTCTTTAAGGTCAAGCTCAAGT
CCGAGAAGGTGTGTGTATTCTCCAGACCCATCAGCTACAAACTTCACATGTTTGTTCTCTGGGT
ATGTTTTTCCCCATGCTTTCATCACAAACGGATCGTTCACTGCAACATATCAATCCAAGTGATA
ACGTCAATGCCATAAACCATTTGAATCAGTCTACCATCAAGCAAACTCAACCAAATACATTAAC
CAATACTCTGAATCTCTTCTACAATTTACTATTATGAATACCAACTACCATTAGCCTAGCTTTC
ACATGTTTGACTAGCAAGAGATCAGATTTCAGAAGTAGACACAAACACAAAGGTCAGAAATAGT
ACAGGTTATACCTAAGAACAGACCTGATATCAAACCATATACATATGATGAACAGTTCACTGCA
ACAATCGATCCAAATGACGGCGTAAATACTATAAAACCAAGCAGCATATATAAACGTCTGCCAA
AACATTTGCACAAGAAGCAGACTCAGCCAAATACACTAACTGATCTAATTGTATACTCTACAAT
TTACAAATAGGGACACCAACTACCAAACGAATCTAATAATAGGTAAGAACATATCATATCATAG
AGGTTTCAGAAGTATACTCAAACTCATTATAGAGATCAAAAGCATATCATTCATACTCACCGCT
AAAGCAAATGATCTCATCAACACCCTTTGACTTCAGCTCCTCTGCTTTCTCAATGAACCCAGGA
ACATGCTTCATG
						
					

			
		

Sequences
Splice junction sequence	AGCATATCATTCATACTCACCGCTAAAGCAAATGATCTCATCAACACCCTTTGACTTCAGCTCC TCTGCTTTCTCAATGAACCCAGGAACATGCTTCATGctgcatgtgggagtgaaagcaccaggaa caccaaagagaatgacttttttaccggcggcgatagagtgaacggagacggtctgaagctgatc attttcat
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	CTGCATGTGGGAGTGAAAGCACCAGGAACACCAAAGAGAATGACTTTTTTACCGGCGGCGATAG AGTGAACGGAGACGGTCTGAAGCTGATCATTTTCATCGAAGAAAGAGATAGTTCCGTCTGGTAC AACATCGCCGACAGTAATTGGAGCCATGAAGAGATCTCTGTGGTTTTGAAGACAGAGGAAAATA GAAGAGTTTTGTTTGACTTGAGTGCGAAAATGTATTTAGGCCTTAGGACAATTTATAGTGCTTT ACGGAATGATGTAAATCATTAATAGATTTCTAATTTTAGTTTGACCATAAAAAATATAATAGAA TTTCTAAAATTATGATTAAAACAAAAATTGGATGTAAAATCTAGAACCAATATCTAAAAATAAA CTTTTTTTTCCAAAAATACAACATTTTGTTTAAGTAACCCTCACTAATAGACTCATCTGCAAGA ACATGTACACATATTTTGGAAAACATTGTATGACGATAAAAATTGAGTCTGATTTCTTCGTGAG CAAGCAAGATTTTTTAAATCCAAAATTAATGCATCATATTCGTAACCTTATTGAGGGAAACAAA TTAATAATTCAAATATGCTATTTTGATTAGGAAATATATGAAAATCGTTTCTCTAGAGAATACA ATCGAATAGAGAGAGAATATGCCCTTGATTAGCTTTTAATTACATACCAAACAAAATGAATGGT TAAGACTAAATCTATCGTAAAAACATTGTTAAGACCTGATTAGTTATTATTTGATTTCGTGATT CGACCTATTTGATCCTAGCCCGCCCATATGATAAACACGCGGATCCTATACTTTTCTAATTTCA ATAAGCACTCTAAATGCTAAAATTGAATTGCAATCTTATAACAATTTAGTATAATTTGCAATTT GTACTTCTCTTACTATTATTTTCAAATTCAACATGTTGAATTGAATACCGCACAAAACAAATAG AAGGTCATACGCTTACACAATCAAGATAAGCATTAGATACCGCACAAAACAAAAAAAGGGTCAT ACGCTTACACAATCAAGATAAGCGTCATCGGACATATATATCCGATGAGCAAGGCTAAAAGATA GAGCGGTAAAAAAAATAGAGACAAACTTACCAAAGTTTGATAATGTGTGAGAAGCCTATGTACA TTATAAATGCAATATAGCAACTATACTTACCAGAAACTCAGGTAACCTAACTTTTTGGTATGTG TCTACCATAGTCAAGAACAACAATGGCAAAATTTGGCATAAATGTTCACGTCAATGAGTCACAT CTTTCATTAATCAACGCACAGAAAAACAACAAAACCAAATACTTTGTTATGCCAAACAAGTCAC AATGAAACCGCTTTATTACAACCTTGGTTAATGTCTGAGAACAAGCTATAGAATCCTCTACTAC ACATACAGCGGTTTACATAGACAACACAAGTGGTACATTTCTTAGAGAGCCTTGAGGATATCAT CGGCGCTGGAAACTGTGAATTCGCCACCAGATTCGACATTGGCTACAGTCACTTTGAGATCATC AAGTAACAGAGCAAATCTCCTTGACCTAACACCAAGACCCTTGTCTTTAAGGTCAAGCTCAAGT CCGAGAAGGTGTGTGTATTCTCCAGACCCATCAGCTACAAACTTCACATGTTTGTTCTCTGGGT ATGTTTTTCCCCATGCTTTCATCACAAACGGATCGTTCACTGCAACATATCAATCCAAGTGATA ACGTCAATGCCATAAACCATTTGAATCAGTCTACCATCAAGCAAACTCAACCAAATACATTAAC CAATACTCTGAATCTCTTCTACAATTTACTATTATGAATACCAACTACCATTAGCCTAGCTTTC ACATGTTTGACTAGCAAGAGATCAGATTTCAGAAGTAGACACAAACACAAAGGTCAGAAATAGT ACAGGTTATACCTAAGAACAGACCTGATATCAAACCATATACATATGATGAACAGTTCACTGCA ACAATCGATCCAAATGACGGCGTAAATACTATAAAACCAAGCAGCATATATAAACGTCTGCCAA AACATTTGCACAAGAAGCAGACTCAGCCAAATACACTAACTGATCTAATTGTATACTCTACAAT TTACAAATAGGGACACCAACTACCAAACGAATCTAATAATAGGTAAGAACATATCATATCATAG AGGTTTCAGAAGTATACTCAAACTCATTATAGAGATCAAAAGCATATCATTCATACTCACCGCT AAAGCAAATGATCTCATCAACACCCTTTGACTTCAGCTCCTCTGCTTTCTCAATGAACCCAGGA ACATGCTTCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.640902811

Conservation Information
Conserved circRNAs	NA
PMCS	0.640902811

			
						 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 1_circ_ag.5

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