Plant Circular RNA Database

Detail information of Zm00001d033159_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d033159_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006860
					
						Alias
						zma_circ_0000481
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 252522261-252526068  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d033159						
					
						Parent gene annotation
						
							DEK domain-containing chromatin associated protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						Exon boundary  
						
							No-No							"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
						Zm00001d033159_T003:4
Zm00001d033159_T002:4
Zm00001d033159_T001:4

General Information
CircRNA Name	Zm00001d033159_circ_g.2
ID in PlantcircBase	zma_circ_006860
Alias	zma_circ_0000481
Organism	Zea mays
Position	chr1: 252522261-252526068 JBrowse»
Reference genome	AGPv4.38
Type	ei-circRNA
Identification method	find_circ
Parent gene	Zm00001d033159
Parent gene annotation	DEK domain-containing chromatin associated protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
Exon boundary	No-No "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	Zm00001d033159_T003:4 Zm00001d033159_T002:4 Zm00001d033159_T001:4

			
						 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  
						
							ATGGGCTTGGGGTGTTCAGCAAACTTTTGGCTTCCCTAGATTTTGATCCATCATGTTTATTATC
ATTTCCCTGGCTTCTATCCCTGGCACTCCTTGCTTTatagtcaccttcctgtttgtcaccagct
tcatctgaatcttcatctctgttttcctcactgtctgacttcatggattcatcctcatcagtat
catactcg

									
								

					

						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
						
							ATAGTCACCTTCCTGTTTGTCACCAGCTTCATCTGAATCTTCATCTCTGTTTTCCTCACTGTCT
GACTTCATGGATTCATCCTCATCAGTATCATACTCGAGCGCTTTTTTCTGCCTTTTACTAGAAG
TGCTGTCATTGATAAATTTCTGCACCAAGTACAGGCAATGAGAATGTTGGTAATACAGCGATAA
AAAACAGGATGACCAACTGACTATGATTATGTTAAATTAATCATTGGCTATTTATTGTTCCTTT
CTTAGACAGGCTACACAATATACATAGTCAAGAAGCTTTCGTGATCTTTCTAGGTCGGTGCTCT
GATTGAGCTTCTTCTTAATATTATACTGTAGGGGCGGTCTTTCCCCTACCGGCCGAGTTTTAAT
ATACATAGGCAAGAAGAAAAACTTCATTTAAGCTCAGGGTCAAATAGCCGCTAAGGAAGGCTAC
AACATAGCTTTAAGTCATGTTCAGAACTTTCAGTTGTATACTTATATTCAATACACCATGTAAG
CCAATTTTGGCACTGTACCTTCCTTGACCTACTAGGTGTGCTATCAGGAGTCTTACGTGCACTT
TCACCTCCTCTCTTGCGTTTTTTAGAATTTGAACCCTGACCAGTGGATAAGAACAAAGCATGCA
GAGAGAATAATCATGCAAGTTAATTCTGGTTCCAACCACAAAACATCAGCAACAGCATCGCTGA
TAAGAAAACAGAATCATAATGTACAAATATGTGTTGTAACCTGGTCATCAGAGAGCCCAGAATC
AGCTGCAGAGTGAGGTTCAGCAATAAAGTCCAACAGCTTTGACACAATATCTTCCTATATGAGT
TAATCAAACTACATTAGAATGTAATGTATCGAATTAACCAAAATATAATTCCAAGAACAAGGCA
GTAAAACAAAACCTTTCTAATGTTTGCTTTTGGAGTTGGAATGCCAAGGGTCCAACAAAGGTCC
AACAGCGTTTCTTTTACACACTTGTCAAGCTTTTCTTTTGCCTTGACTCTGTGCTTTTCCTACA
AACAAAAACTGCCTAAATTAATCAATTTGAATAAGCTAGAGCAGACTAGTTATCAGGCTTTTGA
GAAAAGAAGCTTACATCACTTTCATGCCAAACAAATCCAGAGAACTGGAGTATATGTCCTTTAA
AATCGACAGCCTGAAACATAACATAAGATATTAGAACTTAGTGTTAATATCATTCAAGAGTAAT
GTCACACTTTAAGATTTGTTAAGGAAGCAAATGGAAGAAAACAAAAGCATACTTCACTTGAGAA
TCTAAGCCACAACTAGCCATCTTTTAAGTAGCTGGGGGCTAAAAAGTATATAAAACAGAGCAGA
CAATTGTACAGAATAAAAAAACAAGTGACCATGAAACTAGCTAAACCTTACTCTTGCTACTTAA
TATACAATCCTGACATGCAATCAGCTAATATCTGTACACACTGAGCAAAATTTACTTTGACAAA
CATTTGAAACTTTAAACAGAACAACAATCAGGTAGGCTGTTGCATTATTTGTTTTCGATTTTTT
TATTTCTTTATGTGTTTGGTTCCAGAACAGTATATGCAAAAGGATAACAAAATTGCACAACCCA
CGGTGCCAAATTACACATGTTCATTCTTAATTGTGCTTCTTTCACTTCATGAAAATTATTAAAT
GTGCTTCTTCTGCTTAGACAATAGACATATTAGAGGGACTAGCACTTATAAGAAATAATAAAGT
GCGGTAGTTTCCTTGCATATTTTACATGCACTTGATACAACAAAGCGCCTGGATGATAAATGAA
TTTGCATCAGGTAGTTACAAAGAAGTCTATATGTGCATATGTCGAAGATTTACCTTGCCTTTCC
TCCCAAAAAGAATACTGTGAAGAAATTTAAGATCAGAAGGTTTCTTCCTTGATATTCTGTGTGC
CACTGTTCATAAGTTTCAAAAGAAAAGGCAAATCAGTGAAAGAGAACATTATAAAACTAAAGAA
ATTTCACAAACTTAAACATTAGGTGGAAACCCTAAAAAACAGAGAATGACATATCTTTGTTCTA
ATGAAGAACATAATGCGAATATAAGAAGCAACGCATAAAAAGAGATTACAGGTGAAATCAAAGT
AGTCCACTGACTTGTAGCCATCATCATTAACTCTTGATAAATCAACAACAATTCAGCAAATCAT
CATACAGAAAAGACAGCAATGCTAGAAAATAAAATTATTCATAAAACAGGGAACAAGGAAAGTA
AATAGAGTTGAATGTACCGACGTCAACAGAGGAGAAAGGACTGAATACTACTTATTGCATACCA
CTTCCATCTACTCAAAATAATGAAATATTCCACTTAGCAAGATGCAATGACATCAGCCATGTGA
TCATCTACAGACTATAGTCTGAATTGTTGCTTTCCACTTCAGTTTCAACAGAAAAGATCAGAAA
ACACAAAAGGAATCTATTGCTCATCTAAGCTGATGGGTGATGAAAAAAAAAGAATAGCGAAGTT
GCTAAGTGTTTTTCACATAAACTAATAGGATCATAAAATTTTAGCCTCATTTTGCTACTGCTAG
ACACACAATTAGTAGACACCAGAGAACAAAAAAAAAATAAACCATTAACATAGGCATATAGCAC
CTAGGTTATAGCTTCACCGATGGACGATGATTATGTGACGCTCCAAATATGGAGCATGTATATG
GCTTATAGCGGAGCATTTCGTGGTTGAGGGTGCTAGTCCTCGTGCCCCTAAAACTGATGCTACA
CAGTAATACAGTTCCCCAGCATAATCTCTTTTTTTAGATTCTGCATATCATGTTACTGGGTTCT
GCTGGGATCTTAACATGTTTTTTGCCTTATGGCTGCCATTTGAATTTTAAAGCTAACAGCAGCC
TACCACATAAACACCACCTACTTTGTTCATAGAACTTCAAGGCAAGTACAGGTTGGTCGGGTTG
TATGTTCTGGGAGGGATTAACCCCCTGCTCTATGTACCTTTTCTTAATGAAATGACACGCAACT
CTCCTACATTGTTCGAGGGGAAAAACTACAAGCACAGGAATCAATTTAGTCATTCAAAACAAAG
AATCATACGAGATGAAGATTATAAGAAACCTATTAACAGAAGCCCTTAATGAATATAAATTACA
ATAGCAAATAAATTTGAAGGCAGGCGCATCATAATACAAGAGAAACAAACAAAAGTTTCTGAAG
CGACTGACATATCACAAGGTTTAGTCTCTCCATTTAGATCACAAGGTTCTGTTTTTTTTCATGG
TGGATAATCAAAACAGAAGATGAAAACTGCACAGAAAACAATTAAAGAGTTCCACTCAAACCTA
GAAACCATCAGTTTCAATCAAGAATTCAAGAACCAGTAAAACATAACAAATCACGTGGAACACA
AAAGAATCTCTGTCATCATTAAGGTTCAAGACAGAAGAGAAGGCCGACTACGCTGCTTAAGCGA
CAGAAACAAGCACACAGTAAACAGTATGAAAAGAGGCACGTACCACTTGGTATATCCTTCAGAG
GAGTCCCTCGTCCCTGTGATAAAAAAGAATGTCAGCCACACTATTACATGTCGAAATGAAAAAA
TGGGACAAAATGAAATGCAAGCAACGAACCTTCTCAACCACGAAATTCCTGTTTGGCTCTTTCT
CAATCACCTCAACCAACCTCTCCACTATTTTCCTCTCACGTTGAGGACGATCGGTACCATATGG
GCTTGGGGTGTTCAGCAAACTTTTGGCTTCCCTAGATTTTGATCCATCATGTTTATTATCATTT
CCCTGGCTTCTATCCCTGGCACTCCTTGCTTT
						
					

			
		

Sequences
Splice junction sequence	ATGGGCTTGGGGTGTTCAGCAAACTTTTGGCTTCCCTAGATTTTGATCCATCATGTTTATTATC ATTTCCCTGGCTTCTATCCCTGGCACTCCTTGCTTTatagtcaccttcctgtttgtcaccagct tcatctgaatcttcatctctgttttcctcactgtctgacttcatggattcatcctcatcagtat catactcg
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	ATAGTCACCTTCCTGTTTGTCACCAGCTTCATCTGAATCTTCATCTCTGTTTTCCTCACTGTCT GACTTCATGGATTCATCCTCATCAGTATCATACTCGAGCGCTTTTTTCTGCCTTTTACTAGAAG TGCTGTCATTGATAAATTTCTGCACCAAGTACAGGCAATGAGAATGTTGGTAATACAGCGATAA AAAACAGGATGACCAACTGACTATGATTATGTTAAATTAATCATTGGCTATTTATTGTTCCTTT CTTAGACAGGCTACACAATATACATAGTCAAGAAGCTTTCGTGATCTTTCTAGGTCGGTGCTCT GATTGAGCTTCTTCTTAATATTATACTGTAGGGGCGGTCTTTCCCCTACCGGCCGAGTTTTAAT ATACATAGGCAAGAAGAAAAACTTCATTTAAGCTCAGGGTCAAATAGCCGCTAAGGAAGGCTAC AACATAGCTTTAAGTCATGTTCAGAACTTTCAGTTGTATACTTATATTCAATACACCATGTAAG CCAATTTTGGCACTGTACCTTCCTTGACCTACTAGGTGTGCTATCAGGAGTCTTACGTGCACTT TCACCTCCTCTCTTGCGTTTTTTAGAATTTGAACCCTGACCAGTGGATAAGAACAAAGCATGCA GAGAGAATAATCATGCAAGTTAATTCTGGTTCCAACCACAAAACATCAGCAACAGCATCGCTGA TAAGAAAACAGAATCATAATGTACAAATATGTGTTGTAACCTGGTCATCAGAGAGCCCAGAATC AGCTGCAGAGTGAGGTTCAGCAATAAAGTCCAACAGCTTTGACACAATATCTTCCTATATGAGT TAATCAAACTACATTAGAATGTAATGTATCGAATTAACCAAAATATAATTCCAAGAACAAGGCA GTAAAACAAAACCTTTCTAATGTTTGCTTTTGGAGTTGGAATGCCAAGGGTCCAACAAAGGTCC AACAGCGTTTCTTTTACACACTTGTCAAGCTTTTCTTTTGCCTTGACTCTGTGCTTTTCCTACA AACAAAAACTGCCTAAATTAATCAATTTGAATAAGCTAGAGCAGACTAGTTATCAGGCTTTTGA GAAAAGAAGCTTACATCACTTTCATGCCAAACAAATCCAGAGAACTGGAGTATATGTCCTTTAA AATCGACAGCCTGAAACATAACATAAGATATTAGAACTTAGTGTTAATATCATTCAAGAGTAAT GTCACACTTTAAGATTTGTTAAGGAAGCAAATGGAAGAAAACAAAAGCATACTTCACTTGAGAA TCTAAGCCACAACTAGCCATCTTTTAAGTAGCTGGGGGCTAAAAAGTATATAAAACAGAGCAGA CAATTGTACAGAATAAAAAAACAAGTGACCATGAAACTAGCTAAACCTTACTCTTGCTACTTAA TATACAATCCTGACATGCAATCAGCTAATATCTGTACACACTGAGCAAAATTTACTTTGACAAA CATTTGAAACTTTAAACAGAACAACAATCAGGTAGGCTGTTGCATTATTTGTTTTCGATTTTTT TATTTCTTTATGTGTTTGGTTCCAGAACAGTATATGCAAAAGGATAACAAAATTGCACAACCCA CGGTGCCAAATTACACATGTTCATTCTTAATTGTGCTTCTTTCACTTCATGAAAATTATTAAAT GTGCTTCTTCTGCTTAGACAATAGACATATTAGAGGGACTAGCACTTATAAGAAATAATAAAGT GCGGTAGTTTCCTTGCATATTTTACATGCACTTGATACAACAAAGCGCCTGGATGATAAATGAA TTTGCATCAGGTAGTTACAAAGAAGTCTATATGTGCATATGTCGAAGATTTACCTTGCCTTTCC TCCCAAAAAGAATACTGTGAAGAAATTTAAGATCAGAAGGTTTCTTCCTTGATATTCTGTGTGC CACTGTTCATAAGTTTCAAAAGAAAAGGCAAATCAGTGAAAGAGAACATTATAAAACTAAAGAA ATTTCACAAACTTAAACATTAGGTGGAAACCCTAAAAAACAGAGAATGACATATCTTTGTTCTA ATGAAGAACATAATGCGAATATAAGAAGCAACGCATAAAAAGAGATTACAGGTGAAATCAAAGT AGTCCACTGACTTGTAGCCATCATCATTAACTCTTGATAAATCAACAACAATTCAGCAAATCAT CATACAGAAAAGACAGCAATGCTAGAAAATAAAATTATTCATAAAACAGGGAACAAGGAAAGTA AATAGAGTTGAATGTACCGACGTCAACAGAGGAGAAAGGACTGAATACTACTTATTGCATACCA CTTCCATCTACTCAAAATAATGAAATATTCCACTTAGCAAGATGCAATGACATCAGCCATGTGA TCATCTACAGACTATAGTCTGAATTGTTGCTTTCCACTTCAGTTTCAACAGAAAAGATCAGAAA ACACAAAAGGAATCTATTGCTCATCTAAGCTGATGGGTGATGAAAAAAAAAGAATAGCGAAGTT GCTAAGTGTTTTTCACATAAACTAATAGGATCATAAAATTTTAGCCTCATTTTGCTACTGCTAG ACACACAATTAGTAGACACCAGAGAACAAAAAAAAAATAAACCATTAACATAGGCATATAGCAC CTAGGTTATAGCTTCACCGATGGACGATGATTATGTGACGCTCCAAATATGGAGCATGTATATG GCTTATAGCGGAGCATTTCGTGGTTGAGGGTGCTAGTCCTCGTGCCCCTAAAACTGATGCTACA CAGTAATACAGTTCCCCAGCATAATCTCTTTTTTTAGATTCTGCATATCATGTTACTGGGTTCT GCTGGGATCTTAACATGTTTTTTGCCTTATGGCTGCCATTTGAATTTTAAAGCTAACAGCAGCC TACCACATAAACACCACCTACTTTGTTCATAGAACTTCAAGGCAAGTACAGGTTGGTCGGGTTG TATGTTCTGGGAGGGATTAACCCCCTGCTCTATGTACCTTTTCTTAATGAAATGACACGCAACT CTCCTACATTGTTCGAGGGGAAAAACTACAAGCACAGGAATCAATTTAGTCATTCAAAACAAAG AATCATACGAGATGAAGATTATAAGAAACCTATTAACAGAAGCCCTTAATGAATATAAATTACA ATAGCAAATAAATTTGAAGGCAGGCGCATCATAATACAAGAGAAACAAACAAAAGTTTCTGAAG CGACTGACATATCACAAGGTTTAGTCTCTCCATTTAGATCACAAGGTTCTGTTTTTTTTCATGG TGGATAATCAAAACAGAAGATGAAAACTGCACAGAAAACAATTAAAGAGTTCCACTCAAACCTA GAAACCATCAGTTTCAATCAAGAATTCAAGAACCAGTAAAACATAACAAATCACGTGGAACACA AAAGAATCTCTGTCATCATTAAGGTTCAAGACAGAAGAGAAGGCCGACTACGCTGCTTAAGCGA CAGAAACAAGCACACAGTAAACAGTATGAAAAGAGGCACGTACCACTTGGTATATCCTTCAGAG GAGTCCCTCGTCCCTGTGATAAAAAAGAATGTCAGCCACACTATTACATGTCGAAATGAAAAAA TGGGACAAAATGAAATGCAAGCAACGAACCTTCTCAACCACGAAATTCCTGTTTGGCTCTTTCT CAATCACCTCAACCAACCTCTCCACTATTTTCCTCTCACGTTGAGGACGATCGGTACCATATGG GCTTGGGGTGTTCAGCAAACTTTTGGCTTCCCTAGATTTTGATCCATCATGTTTATTATCATTT CCCTGGCTTCTATCCCTGGCACTCCTTGCTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.030702471

Conservation Information
Conserved circRNAs	NA
PMCS	0.030702471

			
						 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 Zm00001d033159_circ_g.2

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