Plant Circular RNA Database

Detail information of Zm00001d043845_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d043845_circ_g.1
					

						ID in PlantcircBase
						zma_circ_007830
					

						Alias
						zma_circ_0001327
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 211906450-211907270  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d043845						
					

						Parent gene annotation
						
							Glutamate synthase 1 [NADH] chloroplastic
							
					

						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
						Zm00001d043845_T010:2
Zm00001d043845_T017:2
Zm00001d043845_T018:2
Zm00001d043845_T041:2
Zm00001d043845_T070:2
Zm00001d043845_T033:2
Zm00001d043845_T067:2
Zm00001d043845_T009:1
Zm00001d043845_T039:2
Zm00001d043845_T061:2
Zm00001d043845_T043:2
Zm00001d043845_T032:2
Zm00001d043845_T053:2
Zm00001d043845_T006:2
Zm00001d043845_T015:2
Zm00001d043845_T030:1
Zm00001d043845_T063:2
Zm00001d043845_T024:2
Zm00001d043845_T013:2
Zm00001d043845_T019:2
Zm00001d043845_T012:2
Zm00001d043845_T076:2
Zm00001d043845_T031:2
Zm00001d043845_T003:2
Zm00001d043845_T074:2
Zm00001d043845_T011:2
Zm00001d043845_T065:2
Zm00001d043845_T023:2
Zm00001d043845_T016:2
Zm00001d043845_T025:2
Zm00001d043845_T079:1
Zm00001d043845_T069:2
Zm00001d043845_T057:2
Zm00001d043845_T044:2
Zm00001d043845_T028:2
Zm00001d043845_T029:1
Zm00001d043845_T038:2
Zm00001d043845_T035:1
Zm00001d043845_T078:2
Zm00001d043845_T036:2
Zm00001d043845_T045:2
Zm00001d043845_T040:2
Zm00001d043845_T027:2
Zm00001d043845_T022:2
Zm00001d043845_T077:2
Zm00001d043845_T021:2
Zm00001d043845_T005:2
Zm00001d043845_T014:2
Zm00001d043845_T001:2
Zm00001d043845_T004:1
Zm00001d043845_T066:2
Zm00001d043845_T020:2
Zm00001d043845_T042:1
Zm00001d043845_T068:2
Zm00001d043845_T058:2
Zm00001d043845_T034:2
Zm00001d043845_T026:2
Zm00001d043845_T002:1
Zm00001d043845_T075:2
Zm00001d043845_T072:1
Zm00001d043845_T007:2
Zm00001d043845_T050:2
Zm00001d043845_T008:2
Zm00001d043845_T060:2
Zm00001d043845_T037:2
Zm00001d043845_T052:2

					

			
		

General Information
CircRNA Name	Zm00001d043845_circ_g.1
ID in PlantcircBase	zma_circ_007830
Alias	zma_circ_0001327
Organism	Zea mays
Position	chr3: 211906450-211907270 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d043845
Parent gene annotation	Glutamate synthase 1 [NADH] chloroplastic
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	Zm00001d043845_T010:2 Zm00001d043845_T017:2 Zm00001d043845_T018:2 Zm00001d043845_T041:2 Zm00001d043845_T070:2 Zm00001d043845_T033:2 Zm00001d043845_T067:2 Zm00001d043845_T009:1 Zm00001d043845_T039:2 Zm00001d043845_T061:2 Zm00001d043845_T043:2 Zm00001d043845_T032:2 Zm00001d043845_T053:2 Zm00001d043845_T006:2 Zm00001d043845_T015:2 Zm00001d043845_T030:1 Zm00001d043845_T063:2 Zm00001d043845_T024:2 Zm00001d043845_T013:2 Zm00001d043845_T019:2 Zm00001d043845_T012:2 Zm00001d043845_T076:2 Zm00001d043845_T031:2 Zm00001d043845_T003:2 Zm00001d043845_T074:2 Zm00001d043845_T011:2 Zm00001d043845_T065:2 Zm00001d043845_T023:2 Zm00001d043845_T016:2 Zm00001d043845_T025:2 Zm00001d043845_T079:1 Zm00001d043845_T069:2 Zm00001d043845_T057:2 Zm00001d043845_T044:2 Zm00001d043845_T028:2 Zm00001d043845_T029:1 Zm00001d043845_T038:2 Zm00001d043845_T035:1 Zm00001d043845_T078:2 Zm00001d043845_T036:2 Zm00001d043845_T045:2 Zm00001d043845_T040:2 Zm00001d043845_T027:2 Zm00001d043845_T022:2 Zm00001d043845_T077:2 Zm00001d043845_T021:2 Zm00001d043845_T005:2 Zm00001d043845_T014:2 Zm00001d043845_T001:2 Zm00001d043845_T004:1 Zm00001d043845_T066:2 Zm00001d043845_T020:2 Zm00001d043845_T042:1 Zm00001d043845_T068:2 Zm00001d043845_T058:2 Zm00001d043845_T034:2 Zm00001d043845_T026:2 Zm00001d043845_T002:1 Zm00001d043845_T075:2 Zm00001d043845_T072:1 Zm00001d043845_T007:2 Zm00001d043845_T050:2 Zm00001d043845_T008:2 Zm00001d043845_T060:2 Zm00001d043845_T037:2 Zm00001d043845_T052:2

			
						 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  
						
							TTTCTATGCTTCTAACTATGGAATGATGAAAGTTCTTGCAAAGATGGGAATATCCACCCTTGCA
TCCTACAAAGGTGCACAAATTTTTGAAGCTCTTGGTataacttatccaaaaaagtctggaagga
agggcttggaagagactttgaacagaatttgtgctgaagctcgtaaagccatacgcgagggata
cactattt

						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
						
							ATAACTTATCCAAAAAAGTCTGGAAGGAAGGGCTTGGAAGAGACTTTGAACAGAATTTGTGCTG
AAGCTCGTAAAGCCATACGCGAGGGATACACTATTTTGGTTCTCTCAGATAGAGGTTATAATTT
ATTTATGCTAGTCTATTCTCTATTTTTATTCCACACCTTATATACCATATATGATTATACCAAT
CACCCAATAGTCAATTAAACTTCCCCACATATGAGTTAAATGCATTGTACAAATTTGTTATAGC
TCACAGACATCTTCCAGTATACTATCTGTTGCTATTTTCATTTGCACAATGTACCATAACTTGT
TTGTTCCTTTTCATTTAGCTTGAGAATAGCTCCTACTTTACACAATTCAATTCTTATGACAGTC
CATCAAAGTTTAGCACCATGGAGATCTCACTTTGTTTGTTTGCTGAACTTTGTTATGCAGGATT
TTCCTCAGACCGTGTTGCTGCCAGTTCTCTCTTAGCAGTGGGAGCAGTGCATCAGCACCTTGTT
GCAAATCTTGAGAGGACACGCATAGGATTGTTGGTTGAGTCAGCTGAACCTCGTGAAGTGCACC
ATTTCTGCACCCTGGTTGGATTTGGCGCTGATGCTATATGCCCTTATTTGGCTATTGAAGCAAT
TTGGTGCTTACAGAATGACGGGAAGATTACTCCTAATGGAGATGGACAACCTTACTCAAAGGAA
GAGCTGGTGGCGAAGTATTTCTATGCTTCTAACTATGGAATGATGAAAGTTCTTGCAAAGATGG
GAATATCCACCCTTGCATCCTACAAAGGTGCACAAATTTTTGAAGCTCTTGGT

Sequences
Splice junction sequence	TTTCTATGCTTCTAACTATGGAATGATGAAAGTTCTTGCAAAGATGGGAATATCCACCCTTGCA TCCTACAAAGGTGCACAAATTTTTGAAGCTCTTGGTataacttatccaaaaaagtctggaagga agggcttggaagagactttgaacagaatttgtgctgaagctcgtaaagccatacgcgagggata cactattt
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	ATAACTTATCCAAAAAAGTCTGGAAGGAAGGGCTTGGAAGAGACTTTGAACAGAATTTGTGCTG AAGCTCGTAAAGCCATACGCGAGGGATACACTATTTTGGTTCTCTCAGATAGAGGTTATAATTT ATTTATGCTAGTCTATTCTCTATTTTTATTCCACACCTTATATACCATATATGATTATACCAAT CACCCAATAGTCAATTAAACTTCCCCACATATGAGTTAAATGCATTGTACAAATTTGTTATAGC TCACAGACATCTTCCAGTATACTATCTGTTGCTATTTTCATTTGCACAATGTACCATAACTTGT TTGTTCCTTTTCATTTAGCTTGAGAATAGCTCCTACTTTACACAATTCAATTCTTATGACAGTC CATCAAAGTTTAGCACCATGGAGATCTCACTTTGTTTGTTTGCTGAACTTTGTTATGCAGGATT TTCCTCAGACCGTGTTGCTGCCAGTTCTCTCTTAGCAGTGGGAGCAGTGCATCAGCACCTTGTT GCAAATCTTGAGAGGACACGCATAGGATTGTTGGTTGAGTCAGCTGAACCTCGTGAAGTGCACC ATTTCTGCACCCTGGTTGGATTTGGCGCTGATGCTATATGCCCTTATTTGGCTATTGAAGCAAT TTGGTGCTTACAGAATGACGGGAAGATTACTCCTAATGGAGATGGACAACCTTACTCAAAGGAA GAGCTGGTGGCGAAGTATTTCTATGCTTCTAACTATGGAATGATGAAAGTTCTTGCAAAGATGG GAATATCCACCCTTGCATCCTACAAAGGTGCACAAATTTTTGAAGCTCTTGGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.216180715

Conservation Information
Conserved circRNAs	NA
PMCS	0.216180715

			
						 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 Zm00001d043845_circ_g.1

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