Plant Circular RNA Database

Detail information of Zm00001d035001_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Zm00001d035001_circ_ag.1
					
						ID in PlantcircBase
						zma_circ_008864
					
						Alias
						zma_circ_0002337
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 1392186-1396003  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Zm00001d035002_circ_igg.1 Zm00001d035001_circ_g.1 Zm00001d035001_circ_ag.2 Zm00001d035001_circ_ag.3 Zm00001d035001_circ_ag.4 Zm00001d035001_circ_ag.5 Zm00001d035001_circ_ag.6 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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  
						
							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	Zm00001d035001_circ_ag.1
ID in PlantcircBase	zma_circ_008864
Alias	zma_circ_0002337
Organism	Zea mays
Position	chr6: 1392186-1396003 JBrowse»
Reference genome	AGPv4.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Zm00001d035002_circ_igg.1 Zm00001d035001_circ_g.1 Zm00001d035001_circ_ag.2 Zm00001d035001_circ_ag.3 Zm00001d035001_circ_ag.4 Zm00001d035001_circ_ag.5 Zm00001d035001_circ_ag.6
Support reads	NA
Tissues	leaf, 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	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  
						
							AGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTCGGAGGTGGGGTACGCCACGCAGGT
GAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAGgtagctctggtcggactggtccacggag
ccggagacgaccttgccggcgcaggaggagcaggaccccgcgcggcaggagtagggcaggtcga
tgccgtcc

									
								

					

						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
						
							GTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGAC
CCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCGTCCTCCTCGGCCTGGTCCAGGATGTACACGT
CGTCGGGCACCTGCAGCTCCACCTCCCCCTCCGGCGTGATCAGCTTCACGTTGTAGGTGGCCTG
CGCGCGCAGCCTGCCCCTGCTGCTGGCGCTACGGCCCATGATGCCCACCTTGGCCGCAGGCAGC
GCCACGGCGGTGGGCGCCGGCGCGGCACGGAGGGAGGACGGCGAGAAGAAGAAGGCCGGCGCGC
GGGGGCTGCCTAGGACGGTGGCCATTGTTGTCGAGGGGTCGGGGTACGGTGGTGTGGCGGCCGG
TGCAGTTAGGGAGCTCTAGATGGAGAGAGTGGGGCTGGGGAGAGCGGCTGCTGGATAGATGGCC
AATAGATAGCTTCTCCTGCCCTCCCCTGCCCTGCCCCAGATGACAATACCAATGCAAGGGATGG
ATAGGCTTATCTTCTTGCATTGCCGCCCCAATTTTGGCCACCCGTTTTTATCGCCCTTCAAACT
CACGGGAATTTTGCATGCTGCGGAAATTCAAATTCACATTATTCATGTGTAATGTCGATATTCG
CATATAAAATAATTCATGGTAACTGATTATTGTGCGCGTGTGTAGGCCACGAGTCCCTTCAGGT
CGTGGGACACGTGGGGTCATGTGGCGCACGAACGAACTTTATAGTTCGGTGTAACTTATCATTG
TTTCTTTAGTTTTTTTTACTTAAATTTAGTTCCGGCGGTTCCTGTTGAATTTTTGAGGAGTTCC
TCCCTTTTCGAGAAAGAGCCCATAAAAAACCTCCCTTTTGGTAGTTTTTTCAAGGAGTTGTTGA
ATGAGCCCTACCAGAGGAGGCCTTAGTCGCATAATCTTGGACAAGTTGTGATAGAGTTAGATGA
GAACCAAATAGATCCACAGTCTCCTCATTGCGACGGGGAGGCAGAGACAGGTGGTCCGAGGAAC
AAGTGTCATCGACGTCGAAGTGGGCGACAAGCACTGGTGGTGGTGTAGTCGTGTAGAAGGGCGA
CAATGGTGGAGTAGGGCATTAGCATTGAGAAGAGATAAGGTTTTTAGTGTCAATGATGGCATGT
GAGGCCCACATGTTTGATTTTAAACATTGTTTTTTTACTGTCAATGGGGGAGAGAAGTTCTTCC
CCATCTAAGATTTATATATATTACTTCTGTCTGAGAGAAACACATGAGATTACATTAGTACGTG
AAGTTCATCAAAGTATCCGAAGGGACCAGCCAGTGGATAACATTCTTGGTAGCATAAGGACACG
GGTAACAACTCGATCTCGCTTAACAATTTTTTGTGAATCTTACTTGTTTGTTTCCTCTCTTGAG
CCACTTAGGGTAGAAGAAGCACTGGGTGATCTAGAGTGGATAGTAGCAATGCAAGAGTAATTCA
ATAACTTCACCCGGAATGAAGTTTAGCCCTTTGTGGAAAGACCCAAGCAAAATGTCATTGGAAC
TAAGTGTGTTTTCCGCAACATGCAAGATGAACATGGCTTGGTCACAAGAAACAAGGCGTGGTTG
GTTGCTCAAGGCTTCACTCAAGTAGAAGGGCTTGATTTTGGAGAGACATATGCACCAGTGGCAA
TGTTAGAGTCAATTAAAATTTTGATTGCTTATGCAACTAACCATGATTTCAAGCTATATTAAAT
GGACGACAAGAGTGCATTTCTAAATGGACCACTACAAGAGTTGGTCTATGTGAAGCAACCATCG
GACTTTGAAGATCAAATAAGCCTAACCATGTATTTCTCCTCCATAAGGTGCTCTATGGGCTTAA
GCAATCTCCTAGAGCATAGTATAAATGCCTTAAGGAGTTATTGATTAAAAATGGCTTTCAAATA
GGCAAAGCCGACTCTACTCTATTTACTCGCAAGTTTGATAATGAACTATTTGTGTGCCAAATAT
ATGTCGATAACATTATACTTGGCAGTACTAATGATGAGTTTTGTGGGGAATTTAGCAGGGTAAT
GATGAATATGTTTGAGATGTCTATGATGGGTGAGTTAAAGTTCTTCTGAGGATTCCAAGTAAAA
CAATTAAAGAAAGAGACTTTTCTATGCCAAACCAAGTATATTTGGTTCATACACCTAACCTAGG
CCTTTGGTATCCTAAAGACTCCACTTTCAATTTGCTTCGCTACTCTGACTCAGATTACATCAGT
TGTAAAGTAGATAAAAAGTACCATCGAGACTTGCCAATTCGTTGGGCGGTCCTTAGTGTCGTGG
AGTTCCAAGAAACAAAATTGTGTTGCACTTTCCACTGCCGAGGCTGAGTATATAGCAGCTGATG
TTTGTTGCGCCCAATTTTTATGGATGAAGCAAACCTTGAGGGATTTTGGTTGTGAGTTTAGCAA
AATTCCGCTACTTTGTGTTAATGAGAGTGCCATAAAACTTTCAAACAATCACGTGCAACACTTT
AGAACTAAACACATTGACATTAGACATCACTTCTTAAGATACCATGAGGACAAAGGAGATATCA
AAATATGGCATGTGAGTGCTGAGAACCAACTAGCCGATATCTTCATCATACCCCTAAATGAGAC
TAGGTTTGTTTTCTCAGAAGTGAACTAAATATCTTGGACTCTCGTAACATGTCTTGGAAAGTGT
GTGCTTAAAATTTGGATGTTTCATGTGCTGTAAAACTTTTTAAAATGACTAATTTCTATATATT
TATACAAATTTTTTTGTTAAGTTAGGCAAAATAGATGCCATAATGAAGATCGCCAAAGGGTTTC
TCTGATAATTTTCGGTTGATAGAGTGAGTTGAATAGGCCATTCAACCAAATTCTTCTCTGGTCA
GACTTGGTTCAACCGGGGAAAAACTCGGTTCAACCGACTTTTGACCTGCTTTGCCAGTCAACCC
TGCCATCTGTCAGTTTGGCCTCGCAGACTGCTCTTCTAGAAAGTCGGTTCAACCGAGATTAAAC
CCAATTCAACTTAGTTTGCGCAGAGAGTCGACCGGGTTTATTTCTTTTTTTCTCTTCTCTCTCT
CTTCTCATTCCTTAGTCGAGTTATTTGAAAAGGAGACGCCGCCCCTTCTCTATCCCCCTCTCAA
ACCCTCCCCTCAACCAAAATATTGAGCCAAATCCATTGAAACTTGGAGGACTTCATCATGTTGA
GGTCCTCCACCTATTCCCTCCATTGATTTGAAGTTTCGCGAGTGGAATCGATAGATCGAGGTAA
AGCTCTCTTCTCTATCTTTTGCCCTGATCTTTGGTTATAGCTAAGGTCTTGTGAATCCCTTTGA
GTAAAAGGATCTTGTGGATGTAAGAAACATATTGCTCTAAGGGATTTCTCTAATTTATTGACGT
ACTCGACGAAAAAGGGTAATGAATCGTTCATGTGAGGTTGACCCGAATAGTTGAACGGCATATA
TTCCGTTCACTCTCTCTTCCTATCATTTGTTGAATCACCATTTGGTTATTCTTTTTATCTTATA
CCTGTGTTTTTAGTTCAAGAATGAAGAACTAGCCGGCGATAAATATTTAAAAAATATTTGAAAA
CAGAGGTAATAGTTTACAATACAGTTTGAAACGGACAAAAAAATTACATGCACAGCCAGTATTG
AGACATCTTCTACTCTCCTGTGCTTGCAAGTCGACGTGATAATTGGCGGTGCTTTATTAATTTG
CTTAGGAGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTCGGAGGTGGGGTACGCCAC
GCAGGTGAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAG
						
					

			
		

Sequences
Splice junction sequence	AGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTCGGAGGTGGGGTACGCCACGCAGGT GAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAGgtagctctggtcggactggtccacggag ccggagacgaccttgccggcgcaggaggagcaggaccccgcgcggcaggagtagggcaggtcga tgccgtcc
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	GTAGCTCTGGTCGGACTGGTCCACGGAGCCGGAGACGACCTTGCCGGCGCAGGAGGAGCAGGAC CCCGCGCGGCAGGAGTAGGGCAGGTCGATGCCGTCCTCCTCGGCCTGGTCCAGGATGTACACGT CGTCGGGCACCTGCAGCTCCACCTCCCCCTCCGGCGTGATCAGCTTCACGTTGTAGGTGGCCTG CGCGCGCAGCCTGCCCCTGCTGCTGGCGCTACGGCCCATGATGCCCACCTTGGCCGCAGGCAGC GCCACGGCGGTGGGCGCCGGCGCGGCACGGAGGGAGGACGGCGAGAAGAAGAAGGCCGGCGCGC GGGGGCTGCCTAGGACGGTGGCCATTGTTGTCGAGGGGTCGGGGTACGGTGGTGTGGCGGCCGG TGCAGTTAGGGAGCTCTAGATGGAGAGAGTGGGGCTGGGGAGAGCGGCTGCTGGATAGATGGCC AATAGATAGCTTCTCCTGCCCTCCCCTGCCCTGCCCCAGATGACAATACCAATGCAAGGGATGG ATAGGCTTATCTTCTTGCATTGCCGCCCCAATTTTGGCCACCCGTTTTTATCGCCCTTCAAACT CACGGGAATTTTGCATGCTGCGGAAATTCAAATTCACATTATTCATGTGTAATGTCGATATTCG CATATAAAATAATTCATGGTAACTGATTATTGTGCGCGTGTGTAGGCCACGAGTCCCTTCAGGT CGTGGGACACGTGGGGTCATGTGGCGCACGAACGAACTTTATAGTTCGGTGTAACTTATCATTG TTTCTTTAGTTTTTTTTACTTAAATTTAGTTCCGGCGGTTCCTGTTGAATTTTTGAGGAGTTCC TCCCTTTTCGAGAAAGAGCCCATAAAAAACCTCCCTTTTGGTAGTTTTTTCAAGGAGTTGTTGA ATGAGCCCTACCAGAGGAGGCCTTAGTCGCATAATCTTGGACAAGTTGTGATAGAGTTAGATGA GAACCAAATAGATCCACAGTCTCCTCATTGCGACGGGGAGGCAGAGACAGGTGGTCCGAGGAAC AAGTGTCATCGACGTCGAAGTGGGCGACAAGCACTGGTGGTGGTGTAGTCGTGTAGAAGGGCGA CAATGGTGGAGTAGGGCATTAGCATTGAGAAGAGATAAGGTTTTTAGTGTCAATGATGGCATGT GAGGCCCACATGTTTGATTTTAAACATTGTTTTTTTACTGTCAATGGGGGAGAGAAGTTCTTCC CCATCTAAGATTTATATATATTACTTCTGTCTGAGAGAAACACATGAGATTACATTAGTACGTG AAGTTCATCAAAGTATCCGAAGGGACCAGCCAGTGGATAACATTCTTGGTAGCATAAGGACACG GGTAACAACTCGATCTCGCTTAACAATTTTTTGTGAATCTTACTTGTTTGTTTCCTCTCTTGAG CCACTTAGGGTAGAAGAAGCACTGGGTGATCTAGAGTGGATAGTAGCAATGCAAGAGTAATTCA ATAACTTCACCCGGAATGAAGTTTAGCCCTTTGTGGAAAGACCCAAGCAAAATGTCATTGGAAC TAAGTGTGTTTTCCGCAACATGCAAGATGAACATGGCTTGGTCACAAGAAACAAGGCGTGGTTG GTTGCTCAAGGCTTCACTCAAGTAGAAGGGCTTGATTTTGGAGAGACATATGCACCAGTGGCAA TGTTAGAGTCAATTAAAATTTTGATTGCTTATGCAACTAACCATGATTTCAAGCTATATTAAAT GGACGACAAGAGTGCATTTCTAAATGGACCACTACAAGAGTTGGTCTATGTGAAGCAACCATCG GACTTTGAAGATCAAATAAGCCTAACCATGTATTTCTCCTCCATAAGGTGCTCTATGGGCTTAA GCAATCTCCTAGAGCATAGTATAAATGCCTTAAGGAGTTATTGATTAAAAATGGCTTTCAAATA GGCAAAGCCGACTCTACTCTATTTACTCGCAAGTTTGATAATGAACTATTTGTGTGCCAAATAT ATGTCGATAACATTATACTTGGCAGTACTAATGATGAGTTTTGTGGGGAATTTAGCAGGGTAAT GATGAATATGTTTGAGATGTCTATGATGGGTGAGTTAAAGTTCTTCTGAGGATTCCAAGTAAAA CAATTAAAGAAAGAGACTTTTCTATGCCAAACCAAGTATATTTGGTTCATACACCTAACCTAGG CCTTTGGTATCCTAAAGACTCCACTTTCAATTTGCTTCGCTACTCTGACTCAGATTACATCAGT TGTAAAGTAGATAAAAAGTACCATCGAGACTTGCCAATTCGTTGGGCGGTCCTTAGTGTCGTGG AGTTCCAAGAAACAAAATTGTGTTGCACTTTCCACTGCCGAGGCTGAGTATATAGCAGCTGATG TTTGTTGCGCCCAATTTTTATGGATGAAGCAAACCTTGAGGGATTTTGGTTGTGAGTTTAGCAA AATTCCGCTACTTTGTGTTAATGAGAGTGCCATAAAACTTTCAAACAATCACGTGCAACACTTT AGAACTAAACACATTGACATTAGACATCACTTCTTAAGATACCATGAGGACAAAGGAGATATCA AAATATGGCATGTGAGTGCTGAGAACCAACTAGCCGATATCTTCATCATACCCCTAAATGAGAC TAGGTTTGTTTTCTCAGAAGTGAACTAAATATCTTGGACTCTCGTAACATGTCTTGGAAAGTGT GTGCTTAAAATTTGGATGTTTCATGTGCTGTAAAACTTTTTAAAATGACTAATTTCTATATATT TATACAAATTTTTTTGTTAAGTTAGGCAAAATAGATGCCATAATGAAGATCGCCAAAGGGTTTC TCTGATAATTTTCGGTTGATAGAGTGAGTTGAATAGGCCATTCAACCAAATTCTTCTCTGGTCA GACTTGGTTCAACCGGGGAAAAACTCGGTTCAACCGACTTTTGACCTGCTTTGCCAGTCAACCC TGCCATCTGTCAGTTTGGCCTCGCAGACTGCTCTTCTAGAAAGTCGGTTCAACCGAGATTAAAC CCAATTCAACTTAGTTTGCGCAGAGAGTCGACCGGGTTTATTTCTTTTTTTCTCTTCTCTCTCT CTTCTCATTCCTTAGTCGAGTTATTTGAAAAGGAGACGCCGCCCCTTCTCTATCCCCCTCTCAA ACCCTCCCCTCAACCAAAATATTGAGCCAAATCCATTGAAACTTGGAGGACTTCATCATGTTGA GGTCCTCCACCTATTCCCTCCATTGATTTGAAGTTTCGCGAGTGGAATCGATAGATCGAGGTAA AGCTCTCTTCTCTATCTTTTGCCCTGATCTTTGGTTATAGCTAAGGTCTTGTGAATCCCTTTGA GTAAAAGGATCTTGTGGATGTAAGAAACATATTGCTCTAAGGGATTTCTCTAATTTATTGACGT ACTCGACGAAAAAGGGTAATGAATCGTTCATGTGAGGTTGACCCGAATAGTTGAACGGCATATA TTCCGTTCACTCTCTCTTCCTATCATTTGTTGAATCACCATTTGGTTATTCTTTTTATCTTATA CCTGTGTTTTTAGTTCAAGAATGAAGAACTAGCCGGCGATAAATATTTAAAAAATATTTGAAAA CAGAGGTAATAGTTTACAATACAGTTTGAAACGGACAAAAAAATTACATGCACAGCCAGTATTG AGACATCTTCTACTCTCCTGTGCTTGCAAGTCGACGTGATAATTGGCGGTGCTTTATTAATTTG CTTAGGAGATAAGGTCATCCTCCTTGTGCGTCTCGATGACGACGTCGGAGGTGGGGTACGCCAC GCAGGTGAGCACCCAGCCGGCGGCGATCTGGCCGTCGTCGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.466239567

Conservation Information
Conserved circRNAs	NA
PMCS	0.466239567

			
						 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
						Ma et al., 2021b

circRNA

Detail information of Zm00001d035001_circ_ag.1

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