Plant Circular RNA Database

Detail information of Zm00001d003894_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d003894_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007194
					
						Alias
						zma_circ_0001080
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 65545286-65549056  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d003894						
					
						Parent gene annotation
						
							Double Clp-N motif-containing P-loop nucleoside triphosphate hyd
rolases superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						Exon boundary  
						
							No-Yes							"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
						Zm00001d003894_T003:6
Zm00001d003894_T010:3
Zm00001d003894_T007:5
Zm00001d003894_T009:4
Zm00001d003894_T001:6
Zm00001d003894_T008:6
Zm00001d003894_T006:6
Zm00001d003894_T002:6
Zm00001d003894_T004:6
Zm00001d003894_T005:6

General Information
CircRNA Name	Zm00001d003894_circ_g.1
ID in PlantcircBase	zma_circ_007194
Alias	zma_circ_0001080
Organism	Zea mays
Position	chr2: 65545286-65549056 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d003894
Parent gene annotation	Double Clp-N motif-containing P-loop nucleoside triphosphate hyd rolases superfamily protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
Exon boundary	No-Yes "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	Zm00001d003894_T003:6 Zm00001d003894_T010:3 Zm00001d003894_T007:5 Zm00001d003894_T009:4 Zm00001d003894_T001:6 Zm00001d003894_T008:6 Zm00001d003894_T006:6 Zm00001d003894_T002:6 Zm00001d003894_T004:6 Zm00001d003894_T005:6

			
						 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  
						
							TCTTAAGAGGACTTCGTGAGAGATATGAACTTCATCACAAACTGAGATACACAGATGATGCTTT
AATTGCTGCTGCACAGCTGTCTTATCAGTATATCAGggcttggtagatacagacctgggattgc
cttttcctagttcagcatggagggcactctagttcagtctgcggttgttccaaccgtttacaga
agcagctc

									
								

					

						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
						
							GGCTTGGTAGATACAGACCTGGGATTGCCTTTTCCTAGTTCAGCATGGAGGGCACTCTAGTTCA
GTCTGCGGTTGTTCCAACCGTTTACAGAAGCAGCTCAGGTCGGTTCCGTGTGCGTGCAAGGGCC
AGAACCAATGCTACAATGGTGCGAAATATGCCAACAAGGACTCTTACTCTTGGTGGTTTCCAAG
GATTGCGTCAGACAAACTTTTTAGACACGAGGTCCGTGATCAAGCGTGACTTTGGATCGATCGT
GGCAAGTCAGATTGCAAGACCGCGTGGATCAGCCTCAAGAGGGGTGGTTCGTGCCATGTTTGAG
CGCTTCACTGAGAAAGCAATCAAGGTGATTATGCTTGCACAGGAGGAGGCAAGGCGCCTGGGAC
ATAACTTTGTTGGGACAGAGCAGATTTTGCTGGGGCTTATTGGTGAGGGCACGGGTATTGCGGC
GAAGGTTCTGAAGTCTATGGGAATCAATCTTAAGGATGCCCGAGTTGAAGTCGAGAAGATAATT
GGACGTGGCAGTGGGTTTGTGGCTGTTGAAATCCCATTCACACCTCGTGCAAAACGTGTATTGG
AATTGTCCCTTGAAGAAGCTCGTCAACTTGGTATTATCTTCACCTATCTGCACAGTTAGTTCAT
TCTGTGTTATTAGGTTTGTTTGGTTAATGTCTTCACCTATAGTTTTATCTGAATACTTTCTGTG
GGCTTTGTTAGCACACCTTAATTTTAACAAATCAGTATAAATTCTAGTATTTTTAATTCCTGGT
TGGCGTTGTGTTCTTCTTCACCATTTTTTACTGGACATGCAAAATGCCAGTGTATGTTTGTTTA
GTGATTGCTCATTAAGGAATATGAATGAAAAGGGGTGTCTGCTTTATGTGATTTGAGTAGAAAG
AAAACACTACCATAATAGCTTATTGTAATACACACCATGATGTCCTTGTATATAGCATTGCACT
ATAAGTTGCGAAGAAGCTGATGCTAATTATTGTATTGTTCTTGAGGATGCTGCTGATATATATT
TGTTTTAGTTCAGTTGAAACCAAGTGATATCAAATGGGCTTGTGTGGTCCTTAAACAACACTTG
CTACTTGTCTATAGTTCATTTCTGAGTCTATGAGACTAGGGTGTTTGTCCTAAGAAACACTGAT
TTGTCTGTGGTCTTTATTGCCCCTAAATTTTTAATTTGGTCAGTGTAAATTAAACTCTTGTTTT
TCTCTTCCCTGTATGGTATCCTGTTCTGACTTTCTCATACTAGACATGCAAGACACTCAGTTTA
TGTTTGTTGGTACTTTTTTTTTGATAGGGTACAAGGACGCCACACACACAACACTACACACTAA
ATTGATTGAGAGGTCTAGACCTCTAGTACGTGGGCACACATAATACCATTGAACGTACATGCGT
GTGTGTACTCTATACCTGGAAAATCCCAGGTAAATGGTACGTCACCCAGGGCTCGAACCCTGGG
CGGGAGCGCTTCCGGCCAGTGGCCTTTGCCACTGCACCATGAGCCCCTTCGCTGTTTGTTGGTA
CTTGATAATGGTACACTGTAGATTGATCACTAACATGTGCGGATATGCTTGAATCTGTGACTAA
TTATTGATTCAGAATGATGCCAAGTTAGTATGGGAACCATTAAATCATGTGGGGTTTGAGTTGG
TTCCAGGCACTATCGTACCAAATCATTGGTAAATTTTGATACATACTGTCATTAACGGTGTGTT
TGGTTGAGGAGCGGAGGGGAATGGAACGGCTCCATTCTTATTTTTTTGATGTTTGGTTACCATG
GAGGAGAGCGGAGCGGCTCCTGGAGTCTATAAATAGCAAATATTTGGGATGCCCTCGCTCCACC
ATAACGACCGGATGCGAGCGCTCTCGCGGACATGAGCGCTCTCATCCCTCTTCTCCACTCAACA
GTCATATGACTCTCCAACCAAACAATAAACGGAGCGGCTCCGCTCTATTCTACTCTTCAACCAA
ACAAAAAATGGAACGATTCCGTTCTGCTTGCCTAACACAGAATGAAATGGCTCAATTCTTAGAA
ACTGGAATGGAGCCGCTCCATCCCAGTTGGTTCCTCAACCAAACACACGCTAAATGATTAAACA
AGCATTACTAGTAGGTTAGCCATTTACTATTTTTGAGTTCAACCCGTGAGAGGGATTAATTGTT
TGCTGTAAAAAATATGTGTCTCATTATGTTTTTTTTGGTTTCTCAGGGCATAACTATGTAGGAT
CTGAACACTTGCTCCTTGGGCTACTTCGTGAGGGTGAAGGTGTTGCTGCTCGTGTGCTTGAAAG
CCTTGGCGCTGATCCAAACAACATCCGCACCCAGGCAATTCTCTTTTATTGATGTTTTTGTTAT
CCATTTTTTGACCAGAATTGAGCAGGAACTGATGTTCGATATGATGTTCAGGTCATAAGAATGG
TTGGGGAAAGCACAGAAGCTGTTGGGGCTGGAGTTGGTGGAGGAAGCAGTGGCCAGAAGATGCC
CACACTTGAAGAATACGGTACTAATTTGACAAAATTAGCAGAAGAGGTATTTCCACTTTCCCCA
GTTTACTTGTTCTTTTGCACAAGTAACTAGTGAATATAAACAATTATCACTATCTTCTTCTGCA
GGGCAAATTGGACCCAGTCGTTGGTAGACAAGATCAGATTGAGCGTGTTACTCAGATTTTGGGC
AGGCGGACAAAGAACAACCCCTGCCTAATTGGAGAGCCTGGTGTTGGAAAGACTGCTATTGCTG
AGGGGCTTGCTCAGCGTATTGCCAATGGGGATGTTCCTGAAACAATTGAAGGAAAGAAGGTTAG
TTTGGACCATTTGTGGTGCTTCAAATGTTCTTTTTGTCTATTTTGCGTAGATAAGTAGCAGTAG
TATCCTTGGGGTTGAATCCATTGTATTCATTTACAGAGTAGTAGATTTGTTTTAGTATTAATTT
ACAAAAGTAGTTAATAATGTATAAAAAGGTTCCCTTTGCTGGCTACTACATATGTGACATGCCC
AGATTGTTTTGTGAATTTACTTTTCTGGATTACCTGCCATTAGTGGATTGATTGGATATGTATT
GATTTCTGATATCAGATGTTAGCAAAAAGAAAATAAACCTTTTTTTGCAACTTACAATCAGATG
TTTGTTCATTCTTTTGTTGTTTCAAGAACTAATCAATATTTATTATTTTTTCTGGTTAGGTTAT
TACTCTTGACATGGGGCTCCTTGTTGCTGGAACTAAATACCGAGGAGAGTTTGAAGAGAGACTA
AAGAAACTTATGGAGGAAATTAAGCAAAATGAAGACATTATTCTCTTTATTGATGAAGTGCACA
CACTGATTGGAGCAGGTGCAGCAGAAGGTGCGATTGATGCTGCTAATATTTTGAAGCCAGCTCT
TGCTAGAGGTGAACTTCAGGTATAGAATTCTGGTGCTTTATTATGTCTTATTAGCTCATATGTA
AGGTTTATTTTGGAGAAGGATAAGGTCGTGTAGACTGACTCCAGAGTTTTGTAATTTTCCCAAA
ATAACCACATTGCTGGTGATTTTATCTGTGTAGTGCATTGGTGCCACAACACTGGATGAGTATA
GGAAGCATATAGAGAAAGATCCTGCCTTGGAAAGAAGGTTTCAACCAGTTAAGGTTCCAGAGCC
TACTGTGGATGAAACAATACAGATCTTAAGAGGACTTCGTGAGAGATATGAACTTCATCACAAA
CTGAGATACACAGATGATGCTTTAATTGCTGCTGCACAGCTGTCTTATCAGTATATCAG
						
					

			
		

Sequences
Splice junction sequence	TCTTAAGAGGACTTCGTGAGAGATATGAACTTCATCACAAACTGAGATACACAGATGATGCTTT AATTGCTGCTGCACAGCTGTCTTATCAGTATATCAGggcttggtagatacagacctgggattgc cttttcctagttcagcatggagggcactctagttcagtctgcggttgttccaaccgtttacaga agcagctc
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	GGCTTGGTAGATACAGACCTGGGATTGCCTTTTCCTAGTTCAGCATGGAGGGCACTCTAGTTCA GTCTGCGGTTGTTCCAACCGTTTACAGAAGCAGCTCAGGTCGGTTCCGTGTGCGTGCAAGGGCC AGAACCAATGCTACAATGGTGCGAAATATGCCAACAAGGACTCTTACTCTTGGTGGTTTCCAAG GATTGCGTCAGACAAACTTTTTAGACACGAGGTCCGTGATCAAGCGTGACTTTGGATCGATCGT GGCAAGTCAGATTGCAAGACCGCGTGGATCAGCCTCAAGAGGGGTGGTTCGTGCCATGTTTGAG CGCTTCACTGAGAAAGCAATCAAGGTGATTATGCTTGCACAGGAGGAGGCAAGGCGCCTGGGAC ATAACTTTGTTGGGACAGAGCAGATTTTGCTGGGGCTTATTGGTGAGGGCACGGGTATTGCGGC GAAGGTTCTGAAGTCTATGGGAATCAATCTTAAGGATGCCCGAGTTGAAGTCGAGAAGATAATT GGACGTGGCAGTGGGTTTGTGGCTGTTGAAATCCCATTCACACCTCGTGCAAAACGTGTATTGG AATTGTCCCTTGAAGAAGCTCGTCAACTTGGTATTATCTTCACCTATCTGCACAGTTAGTTCAT TCTGTGTTATTAGGTTTGTTTGGTTAATGTCTTCACCTATAGTTTTATCTGAATACTTTCTGTG GGCTTTGTTAGCACACCTTAATTTTAACAAATCAGTATAAATTCTAGTATTTTTAATTCCTGGT TGGCGTTGTGTTCTTCTTCACCATTTTTTACTGGACATGCAAAATGCCAGTGTATGTTTGTTTA GTGATTGCTCATTAAGGAATATGAATGAAAAGGGGTGTCTGCTTTATGTGATTTGAGTAGAAAG AAAACACTACCATAATAGCTTATTGTAATACACACCATGATGTCCTTGTATATAGCATTGCACT ATAAGTTGCGAAGAAGCTGATGCTAATTATTGTATTGTTCTTGAGGATGCTGCTGATATATATT TGTTTTAGTTCAGTTGAAACCAAGTGATATCAAATGGGCTTGTGTGGTCCTTAAACAACACTTG CTACTTGTCTATAGTTCATTTCTGAGTCTATGAGACTAGGGTGTTTGTCCTAAGAAACACTGAT TTGTCTGTGGTCTTTATTGCCCCTAAATTTTTAATTTGGTCAGTGTAAATTAAACTCTTGTTTT TCTCTTCCCTGTATGGTATCCTGTTCTGACTTTCTCATACTAGACATGCAAGACACTCAGTTTA TGTTTGTTGGTACTTTTTTTTTGATAGGGTACAAGGACGCCACACACACAACACTACACACTAA ATTGATTGAGAGGTCTAGACCTCTAGTACGTGGGCACACATAATACCATTGAACGTACATGCGT GTGTGTACTCTATACCTGGAAAATCCCAGGTAAATGGTACGTCACCCAGGGCTCGAACCCTGGG CGGGAGCGCTTCCGGCCAGTGGCCTTTGCCACTGCACCATGAGCCCCTTCGCTGTTTGTTGGTA CTTGATAATGGTACACTGTAGATTGATCACTAACATGTGCGGATATGCTTGAATCTGTGACTAA TTATTGATTCAGAATGATGCCAAGTTAGTATGGGAACCATTAAATCATGTGGGGTTTGAGTTGG TTCCAGGCACTATCGTACCAAATCATTGGTAAATTTTGATACATACTGTCATTAACGGTGTGTT TGGTTGAGGAGCGGAGGGGAATGGAACGGCTCCATTCTTATTTTTTTGATGTTTGGTTACCATG GAGGAGAGCGGAGCGGCTCCTGGAGTCTATAAATAGCAAATATTTGGGATGCCCTCGCTCCACC ATAACGACCGGATGCGAGCGCTCTCGCGGACATGAGCGCTCTCATCCCTCTTCTCCACTCAACA GTCATATGACTCTCCAACCAAACAATAAACGGAGCGGCTCCGCTCTATTCTACTCTTCAACCAA ACAAAAAATGGAACGATTCCGTTCTGCTTGCCTAACACAGAATGAAATGGCTCAATTCTTAGAA ACTGGAATGGAGCCGCTCCATCCCAGTTGGTTCCTCAACCAAACACACGCTAAATGATTAAACA AGCATTACTAGTAGGTTAGCCATTTACTATTTTTGAGTTCAACCCGTGAGAGGGATTAATTGTT TGCTGTAAAAAATATGTGTCTCATTATGTTTTTTTTGGTTTCTCAGGGCATAACTATGTAGGAT CTGAACACTTGCTCCTTGGGCTACTTCGTGAGGGTGAAGGTGTTGCTGCTCGTGTGCTTGAAAG CCTTGGCGCTGATCCAAACAACATCCGCACCCAGGCAATTCTCTTTTATTGATGTTTTTGTTAT CCATTTTTTGACCAGAATTGAGCAGGAACTGATGTTCGATATGATGTTCAGGTCATAAGAATGG TTGGGGAAAGCACAGAAGCTGTTGGGGCTGGAGTTGGTGGAGGAAGCAGTGGCCAGAAGATGCC CACACTTGAAGAATACGGTACTAATTTGACAAAATTAGCAGAAGAGGTATTTCCACTTTCCCCA GTTTACTTGTTCTTTTGCACAAGTAACTAGTGAATATAAACAATTATCACTATCTTCTTCTGCA GGGCAAATTGGACCCAGTCGTTGGTAGACAAGATCAGATTGAGCGTGTTACTCAGATTTTGGGC AGGCGGACAAAGAACAACCCCTGCCTAATTGGAGAGCCTGGTGTTGGAAAGACTGCTATTGCTG AGGGGCTTGCTCAGCGTATTGCCAATGGGGATGTTCCTGAAACAATTGAAGGAAAGAAGGTTAG TTTGGACCATTTGTGGTGCTTCAAATGTTCTTTTTGTCTATTTTGCGTAGATAAGTAGCAGTAG TATCCTTGGGGTTGAATCCATTGTATTCATTTACAGAGTAGTAGATTTGTTTTAGTATTAATTT ACAAAAGTAGTTAATAATGTATAAAAAGGTTCCCTTTGCTGGCTACTACATATGTGACATGCCC AGATTGTTTTGTGAATTTACTTTTCTGGATTACCTGCCATTAGTGGATTGATTGGATATGTATT GATTTCTGATATCAGATGTTAGCAAAAAGAAAATAAACCTTTTTTTGCAACTTACAATCAGATG TTTGTTCATTCTTTTGTTGTTTCAAGAACTAATCAATATTTATTATTTTTTCTGGTTAGGTTAT TACTCTTGACATGGGGCTCCTTGTTGCTGGAACTAAATACCGAGGAGAGTTTGAAGAGAGACTA AAGAAACTTATGGAGGAAATTAAGCAAAATGAAGACATTATTCTCTTTATTGATGAAGTGCACA CACTGATTGGAGCAGGTGCAGCAGAAGGTGCGATTGATGCTGCTAATATTTTGAAGCCAGCTCT TGCTAGAGGTGAACTTCAGGTATAGAATTCTGGTGCTTTATTATGTCTTATTAGCTCATATGTA AGGTTTATTTTGGAGAAGGATAAGGTCGTGTAGACTGACTCCAGAGTTTTGTAATTTTCCCAAA ATAACCACATTGCTGGTGATTTTATCTGTGTAGTGCATTGGTGCCACAACACTGGATGAGTATA GGAAGCATATAGAGAAAGATCCTGCCTTGGAAAGAAGGTTTCAACCAGTTAAGGTTCCAGAGCC TACTGTGGATGAAACAATACAGATCTTAAGAGGACTTCGTGAGAGATATGAACTTCATCACAAA CTGAGATACACAGATGATGCTTTAATTGCTGCTGCACAGCTGTCTTATCAGTATATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120875435

Conservation Information
Conserved circRNAs	NA
PMCS	0.120875435

			
						 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 Zm00001d003894_circ_g.1

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