Plant Circular RNA Database

Detail information of Zm00001d031203_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Zm00001d031203_circ_ag.1
					
						ID in PlantcircBase
						zma_circ_006689
					
						Alias
						Zm01circ00111, zma_circ_0000350
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 181979562-181983386  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, root
					
						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	Zm00001d031203_circ_ag.1
ID in PlantcircBase	zma_circ_006689
Alias	Zm01circ00111, zma_circ_0000350
Organism	Zea mays
Position	chr1: 181979562-181983386 JBrowse»
Reference genome	AGPv4.38
Type	ag-circRNA
Identification method	CIRI2, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm, root
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  
						
							ACGGTATTCCTAGAACGGCGGCGGCGCGCACCCGGTCCGGCCGGAACAGGCAGAGGTGCCACGC
CACCTGCGCGCCCCAGTCGTGCCCCACCACGAACACctttgtgagttggaggtggtcaaggagc
gcgaccaagtcgccgacgaggtggaggatggagtaggcggcggggtcggtgggcacagacgagt
cgccgtag

									
								

					

						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
						
							CTTTGTGAGTTGGAGGTGGTCAAGGAGCGCGACCAAGTCGCCGACGAGGTGGAGGATGGAGTAG
GCGGCGGGGTCGGTGGGCACAGACGAGTCGCCGTAGCCACGGAGGTCGGGAGCCAGCGCGCGGA
AGCCGCGGGCGGCGAGCGCGGCCATCTGGTGGCGCCACGAGAGCCAGAGCTCCGGGAAGCCGTG
GATGAGGAGGACCGCCGGCGCGTCGGCGGCGCCGCGCTCGGCGACGTGGAGGGAAATGCCGTTG
ACGTCCGCGGTCCAGTGCCGCACCTGGCCCTCGGCGGCGGCGGCTTCGGCATCCATGCTTTTCG
CTGCTCTGCTCGCTTGACGCGCTACCTGCTGCTCAATGGCTGTTCTCACTTCCAGAAATACAAA
TCATCTCAACCATAAATACTAATCATCTCAACCACCTGGCTCGTTCTGGATCACATGTTCCATA
GTGCACGCGTCGATTGCACCTTCTGCCTACAAGACTGCAAGGCTGCAATGACTAGCAGAAGCAA
CACAAGCACGCAAGCTTTGAGCACCAAGTTTTTTTTTTGTCACGTGCTCTTTTTATTCGTACAA
GTAACATCAAGCCAGCAAATGCCTAGCTCACACTTAATTTGGGATGAAAACAAAACAACCCCTA
TCTTGTTTCGGTTGCCACATTATATCATCGGAAACAGAACCGATTCTAGAATAGTCGGGTACGA
AAACGGGAGCGGAATAAACAGGTGTACGAAAATGAATGAGAGCGAAAATATTAAGCAGAAACTC
GTAATTTAATATAGACACACATATGATATTGATAACTGACTAGCAAGGCAATAACATAAAACAA
ATAGATATAAAAAGATAACATTTAATTGTTGTTTGATTATTAGCGGTGTACATATAGCTACGAT
CGATGTTGTTTGAACTTTTAGACCACTTATTATTGAGGAGAGCCGGTGACTAGAATGACCATTT
ATGTTATAATATATAACTTTAAAATATGATGCTTTAGTTTGTAAACTAATACATATTGGGTCAT
CTTGGTTTCTTGAATACGGAATAAATATGGGTTAAATCTAGAAAAAAACGGGATTCCGCAAAAA
TGGTCGGGATAGATCCTCTCTCGTTTCTGTCCTATTTCTAGATTTTTCCACAAATACGAAAACG
GACGGGTCAAATGTGGAAAACAGTACGGACGGGACTTCCATCCCTTTTCAACTCTACTCACACT
TTATTCGGCAATTCAAGACCTTTTCAGTTCAGAAAGAAATGGAGTCCCATCGCACATCATTTTT
TTTCTGGTCAGGTTCAACTGGGAGCAAAGCATCAAGATGATGCCTCCTGGCTAGTAAACCTGAC
GAGGTAGGAAATTATCTCCGAATTCACCCTCTCGGCCTGTTCTTGCTGGAGAAAATGGTGGCCT
TCAATGACCGCGACTTCAAGATCTGGGACAGTGGACTTGAATTCCCCACTCTTGATGTACTTCT
CAACCCCAAAGGACTGGACACCGATGTCCTTATCACCAGCTATGAACTTGACGGGCACTGTAAT
CTTGGCCTCGTTCCAGGGTGCAAGAAGTCTCCAATTCCTGCAGTTACTCACAACTACATCACAT
ACTACAGTGTGTGTAAGGCAATAACAAGACACAAGGATAGGATACAAGGTGAGGAAATTACGTC
TCCCACATGCGGTAGTAGTTGAGGGGTCCAGTGAACCCAGACTTCCGAAACTTTTCGGCGTACT
GGCCCAGTTCTTCCTCGCTGAGCCAAGGAAGTGGTGATGGAGATGCCTCGAGAAAGTCTATGAT
CTCCACTCCAGGAGGAGCAGTGAGTTCATCTATTTCAATGGAGTAGAACTTCTTTAGTACAGTT
GCAACATCGTATTGAGCGAATGCGGCTTCAGCTCTTCCGGGCTCCTGCAAATATGAATCTGGAA
CTTTCAAACAGAGCTCAGCCGTAACCGCAAGAGACAGACCCTGGACTTGAAAGGTTTGAAGCTA
CTAGAGCAGACCAACTTGGTGTTTGGAAAAAATATTGAAATAACTGGACCTATTTTATTTCCTA
AGAAGATGAGCTGCTGCTTCAATTTTGAGAACATAAGGTAAACCTTTGCGTTCAAGAAAAGAGA
ATATAAGGTAAACCAGGATTCAAAGTGAAATTTTGCATTTCCCCCAATGGCTGAGCTTAAAGAA
TTCTCTCAAGCATAGGCACAATAATCATATCTAACCAAACACGCACACACCAGCACACCCTTGC
ACATCATCTTACGTCAAATAAAATCATATTTGGGACAGTCTGGATCCCTTCGTCTCGAAGGAAT
TTGAATCTATTAATGGAGTAGGCTATTTGGTTTGAAATTTGGCATTTCATAACCTTTTAATGTT
TAAATTGTTGACGCCTTTTCGGAGGCGCCAATTACTCAAGAGAACCAGCGGCGGTGCCCTCTGC
ACAGGGGCGGACGGTCCGCGCGCAGGGGCCGGACGGTCCGCGGCCTGGTGCGAGGCGCGGTGGT
GCTCTCTGCGCAAGGGCGGACTGTCCGCGGCCTAGGGCTGGACGGTCCGCGGCCTGGTGCAGGA
GCTCGGGTTCCCTGCCTGACGACCGAACGGTCCGCGCCCTAGGGCCGGACGGTCCGCGCGTGCG
CAGGGGCGGCGGAAGATCGCCGGCGGCGCCTGGATCTCGCTCCCGGGAGGGACCCGTCGGGGAG
GAGAGATCCTAGGTGGTGTCTAGGCTCGGGCCGGCCGACCTAGACTCCTCTAATCGGCGTAGAG
TCGAAGAGAGACGAATAATTTGGGGATTGGAAGACTAATCCTAAACTAGACTAGAACTACTCCT
AATTGTACAGGAAATAAATGCGAAATAGAAGTTGTATTGATTCGATTGATCCTTACAAATCGGC
CGTAGACCTCTCATTATATAGAGGAGGGGGGCTGGACCCTTTACACGACTGGATTCCGGGTTAA
TTCCGCAAATCTAGCCAACAAACATAGCACAAAACTCGGAACCCTAAACTACTCTGCGCATGCG
CGGACCGTCCGGCCCACAGGCGCGGACTGTCCGGACCGCGGACCGTCCGGCCTCAGGGCCGGAC
CGTCCGGCCGCTCAATATGGTGCTCAACATAAATATATAAGTCTATCATTAATTTATCGAGTGA
GAGATGAAAATTAATTCTATAAATGCTCATGCTATGTTTTTAATGTGCAACTTATACCACACTT
TTGGACTCACTTCCCTGTAGCAGAAGTGCAACACATAGAACAACATTCCTAATTAATTTGTGTC
TAAATTATGATTATTAGAGTAAAATTCAATTCCAAAGATAGCCTATGAAATTAAACCATTTTTC
TATCTATTAATGAAATGACACACAGATCATGTTCGAGAAAAATAAAATAAATTCATATGATCAA
TCAAATCAGAGCACTTGCAGAAAATCAATCTTATAAATCTCTGCAGTTACTGTTCAAATAGCAT
GAGGTAAACTGCTACTCAAATCTTCAGCGGCTTCAAATTCTGTGTTCTATATTACTCTATCAGA
GCAAGAGTTTCAGTTCGGTGCAATCCAGCAACGACAAAAAAAATATTTCGATTTACTGATGGAT
GCAAAATTGCTAGTACAAAATCAGCCAAAGTAGATGACATGGTTGAGGAAGATCGGGTCAGCAC
CTGAAACTGATTTATGTAAAAGCCATCGCCAAACGCCGCGAAGACCTCCATGATGGGGTGAGCT
TGTCGAGCGTAGTACGGTATTCCTAGAACGGCGGCGGCGCGCACCCGGTCCGGCCGGAACAGGC
AGAGGTGCCACGCCACCTGCGCGCCCCAGTCGTGCCCCACCACGAACAC
						
					

			
		

Sequences
Splice junction sequence	ACGGTATTCCTAGAACGGCGGCGGCGCGCACCCGGTCCGGCCGGAACAGGCAGAGGTGCCACGC CACCTGCGCGCCCCAGTCGTGCCCCACCACGAACACctttgtgagttggaggtggtcaaggagc gcgaccaagtcgccgacgaggtggaggatggagtaggcggcggggtcggtgggcacagacgagt cgccgtag
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	CTTTGTGAGTTGGAGGTGGTCAAGGAGCGCGACCAAGTCGCCGACGAGGTGGAGGATGGAGTAG GCGGCGGGGTCGGTGGGCACAGACGAGTCGCCGTAGCCACGGAGGTCGGGAGCCAGCGCGCGGA AGCCGCGGGCGGCGAGCGCGGCCATCTGGTGGCGCCACGAGAGCCAGAGCTCCGGGAAGCCGTG GATGAGGAGGACCGCCGGCGCGTCGGCGGCGCCGCGCTCGGCGACGTGGAGGGAAATGCCGTTG ACGTCCGCGGTCCAGTGCCGCACCTGGCCCTCGGCGGCGGCGGCTTCGGCATCCATGCTTTTCG CTGCTCTGCTCGCTTGACGCGCTACCTGCTGCTCAATGGCTGTTCTCACTTCCAGAAATACAAA TCATCTCAACCATAAATACTAATCATCTCAACCACCTGGCTCGTTCTGGATCACATGTTCCATA GTGCACGCGTCGATTGCACCTTCTGCCTACAAGACTGCAAGGCTGCAATGACTAGCAGAAGCAA CACAAGCACGCAAGCTTTGAGCACCAAGTTTTTTTTTTGTCACGTGCTCTTTTTATTCGTACAA GTAACATCAAGCCAGCAAATGCCTAGCTCACACTTAATTTGGGATGAAAACAAAACAACCCCTA TCTTGTTTCGGTTGCCACATTATATCATCGGAAACAGAACCGATTCTAGAATAGTCGGGTACGA AAACGGGAGCGGAATAAACAGGTGTACGAAAATGAATGAGAGCGAAAATATTAAGCAGAAACTC GTAATTTAATATAGACACACATATGATATTGATAACTGACTAGCAAGGCAATAACATAAAACAA ATAGATATAAAAAGATAACATTTAATTGTTGTTTGATTATTAGCGGTGTACATATAGCTACGAT CGATGTTGTTTGAACTTTTAGACCACTTATTATTGAGGAGAGCCGGTGACTAGAATGACCATTT ATGTTATAATATATAACTTTAAAATATGATGCTTTAGTTTGTAAACTAATACATATTGGGTCAT CTTGGTTTCTTGAATACGGAATAAATATGGGTTAAATCTAGAAAAAAACGGGATTCCGCAAAAA TGGTCGGGATAGATCCTCTCTCGTTTCTGTCCTATTTCTAGATTTTTCCACAAATACGAAAACG GACGGGTCAAATGTGGAAAACAGTACGGACGGGACTTCCATCCCTTTTCAACTCTACTCACACT TTATTCGGCAATTCAAGACCTTTTCAGTTCAGAAAGAAATGGAGTCCCATCGCACATCATTTTT TTTCTGGTCAGGTTCAACTGGGAGCAAAGCATCAAGATGATGCCTCCTGGCTAGTAAACCTGAC GAGGTAGGAAATTATCTCCGAATTCACCCTCTCGGCCTGTTCTTGCTGGAGAAAATGGTGGCCT TCAATGACCGCGACTTCAAGATCTGGGACAGTGGACTTGAATTCCCCACTCTTGATGTACTTCT CAACCCCAAAGGACTGGACACCGATGTCCTTATCACCAGCTATGAACTTGACGGGCACTGTAAT CTTGGCCTCGTTCCAGGGTGCAAGAAGTCTCCAATTCCTGCAGTTACTCACAACTACATCACAT ACTACAGTGTGTGTAAGGCAATAACAAGACACAAGGATAGGATACAAGGTGAGGAAATTACGTC TCCCACATGCGGTAGTAGTTGAGGGGTCCAGTGAACCCAGACTTCCGAAACTTTTCGGCGTACT GGCCCAGTTCTTCCTCGCTGAGCCAAGGAAGTGGTGATGGAGATGCCTCGAGAAAGTCTATGAT CTCCACTCCAGGAGGAGCAGTGAGTTCATCTATTTCAATGGAGTAGAACTTCTTTAGTACAGTT GCAACATCGTATTGAGCGAATGCGGCTTCAGCTCTTCCGGGCTCCTGCAAATATGAATCTGGAA CTTTCAAACAGAGCTCAGCCGTAACCGCAAGAGACAGACCCTGGACTTGAAAGGTTTGAAGCTA CTAGAGCAGACCAACTTGGTGTTTGGAAAAAATATTGAAATAACTGGACCTATTTTATTTCCTA AGAAGATGAGCTGCTGCTTCAATTTTGAGAACATAAGGTAAACCTTTGCGTTCAAGAAAAGAGA ATATAAGGTAAACCAGGATTCAAAGTGAAATTTTGCATTTCCCCCAATGGCTGAGCTTAAAGAA TTCTCTCAAGCATAGGCACAATAATCATATCTAACCAAACACGCACACACCAGCACACCCTTGC ACATCATCTTACGTCAAATAAAATCATATTTGGGACAGTCTGGATCCCTTCGTCTCGAAGGAAT TTGAATCTATTAATGGAGTAGGCTATTTGGTTTGAAATTTGGCATTTCATAACCTTTTAATGTT TAAATTGTTGACGCCTTTTCGGAGGCGCCAATTACTCAAGAGAACCAGCGGCGGTGCCCTCTGC ACAGGGGCGGACGGTCCGCGCGCAGGGGCCGGACGGTCCGCGGCCTGGTGCGAGGCGCGGTGGT GCTCTCTGCGCAAGGGCGGACTGTCCGCGGCCTAGGGCTGGACGGTCCGCGGCCTGGTGCAGGA GCTCGGGTTCCCTGCCTGACGACCGAACGGTCCGCGCCCTAGGGCCGGACGGTCCGCGCGTGCG CAGGGGCGGCGGAAGATCGCCGGCGGCGCCTGGATCTCGCTCCCGGGAGGGACCCGTCGGGGAG GAGAGATCCTAGGTGGTGTCTAGGCTCGGGCCGGCCGACCTAGACTCCTCTAATCGGCGTAGAG TCGAAGAGAGACGAATAATTTGGGGATTGGAAGACTAATCCTAAACTAGACTAGAACTACTCCT AATTGTACAGGAAATAAATGCGAAATAGAAGTTGTATTGATTCGATTGATCCTTACAAATCGGC CGTAGACCTCTCATTATATAGAGGAGGGGGGCTGGACCCTTTACACGACTGGATTCCGGGTTAA TTCCGCAAATCTAGCCAACAAACATAGCACAAAACTCGGAACCCTAAACTACTCTGCGCATGCG CGGACCGTCCGGCCCACAGGCGCGGACTGTCCGGACCGCGGACCGTCCGGCCTCAGGGCCGGAC CGTCCGGCCGCTCAATATGGTGCTCAACATAAATATATAAGTCTATCATTAATTTATCGAGTGA GAGATGAAAATTAATTCTATAAATGCTCATGCTATGTTTTTAATGTGCAACTTATACCACACTT TTGGACTCACTTCCCTGTAGCAGAAGTGCAACACATAGAACAACATTCCTAATTAATTTGTGTC TAAATTATGATTATTAGAGTAAAATTCAATTCCAAAGATAGCCTATGAAATTAAACCATTTTTC TATCTATTAATGAAATGACACACAGATCATGTTCGAGAAAAATAAAATAAATTCATATGATCAA TCAAATCAGAGCACTTGCAGAAAATCAATCTTATAAATCTCTGCAGTTACTGTTCAAATAGCAT GAGGTAAACTGCTACTCAAATCTTCAGCGGCTTCAAATTCTGTGTTCTATATTACTCTATCAGA GCAAGAGTTTCAGTTCGGTGCAATCCAGCAACGACAAAAAAAATATTTCGATTTACTGATGGAT GCAAAATTGCTAGTACAAAATCAGCCAAAGTAGATGACATGGTTGAGGAAGATCGGGTCAGCAC CTGAAACTGATTTATGTAAAAGCCATCGCCAAACGCCGCGAAGACCTCCATGATGGGGTGAGCT TGTCGAGCGTAGTACGGTATTCCTAGAACGGCGGCGGCGCGCACCCGGTCCGGCCGGAACAGGC AGAGGTGCCACGCCACCTGCGCGCCCCAGTCGTGCCCCACCACGAACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.470233591

Conservation Information
Conserved circRNAs	NA
PMCS	0.470233591

			
						 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
						Han et al., 2020; Ma et al., 2021b

circRNA

Detail information of Zm00001d031203_circ_ag.1

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