Plant Circular RNA Database

Detail information of Zm00001d004125_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d004125_circ_g.2
					

						ID in PlantcircBase
						zma_circ_007218
					

						Alias
						zma_circ_0001103
					

						Organism
						
							Zea mays						
					

						Position
						
							chr2: 84503946-84504365  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d004125						
					

						Parent gene annotation
						
							 acetyl-CoA carboxylase2
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d004125_circ_g.3 Zm00001d004125_circ_g.4 						
					

						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
						Zm00001d004125_T095:1
Zm00001d004125_T046:1
Zm00001d004125_T116:1
Zm00001d004125_T153:1
Zm00001d004125_T149:1
Zm00001d004125_T088:1
Zm00001d004125_T105:1
Zm00001d004125_T125:1
Zm00001d004125_T037:1
Zm00001d004125_T070:1
Zm00001d004125_T163:1
Zm00001d004125_T092:1
Zm00001d004125_T055:1
Zm00001d004125_T090:1
Zm00001d004125_T039:1
Zm00001d004125_T126:1
Zm00001d004125_T061:1
Zm00001d004125_T098:1
Zm00001d004125_T096:1
Zm00001d004125_T012:1
Zm00001d004125_T165:1
Zm00001d004125_T084:1
Zm00001d004125_T110:1
Zm00001d004125_T030:1
Zm00001d004125_T134:1
Zm00001d004125_T121:1
Zm00001d004125_T150:1
Zm00001d004125_T059:1
Zm00001d004125_T140:1
Zm00001d004125_T041:1
Zm00001d004125_T003:1
Zm00001d004125_T085:1
Zm00001d004125_T172:1
Zm00001d004125_T054:1
Zm00001d004125_T078:1
Zm00001d004125_T097:1
Zm00001d004125_T162:1
Zm00001d004125_T144:1
Zm00001d004125_T066:1
Zm00001d004125_T139:1
Zm00001d004125_T156:1
Zm00001d004125_T107:1
Zm00001d004125_T015:1
Zm00001d004125_T001:1
Zm00001d004125_T114:1
Zm00001d004125_T076:1
Zm00001d004125_T130:2
Zm00001d004125_T051:1
Zm00001d004125_T091:1
Zm00001d004125_T024:1
Zm00001d004125_T082:1
Zm00001d004125_T043:1
Zm00001d004125_T038:1
Zm00001d004125_T147:1
Zm00001d004125_T006:1
Zm00001d004125_T013:1
Zm00001d004125_T154:1
Zm00001d004125_T157:1
Zm00001d004125_T087:1
Zm00001d004125_T132:1
Zm00001d004125_T031:1
Zm00001d004125_T123:1
Zm00001d004125_T135:1
Zm00001d004125_T005:1
Zm00001d004125_T072:1
Zm00001d004125_T071:1
Zm00001d004125_T100:1
Zm00001d004125_T060:1
Zm00001d004125_T002:1
Zm00001d004125_T036:1
Zm00001d004125_T171:1
Zm00001d004125_T164:1
Zm00001d004125_T004:1
Zm00001d004125_T035:1
Zm00001d004125_T127:1
Zm00001d004125_T093:1
Zm00001d004125_T115:1
Zm00001d004125_T167:1
Zm00001d004125_T067:1
Zm00001d004125_T075:1
Zm00001d004125_T103:1
Zm00001d004125_T094:1
Zm00001d004125_T089:1
Zm00001d004125_T063:1
Zm00001d004125_T048:1
Zm00001d004125_T023:1
Zm00001d004125_T159:1
Zm00001d004125_T068:1
Zm00001d004125_T077:1
Zm00001d004125_T131:1
Zm00001d004125_T143:1
Zm00001d004125_T086:1
Zm00001d004125_T073:1
Zm00001d004125_T007:1
Zm00001d004125_T108:1
Zm00001d004125_T074:1
Zm00001d004125_T174:1
Zm00001d004125_T022:1
Zm00001d004125_T081:1
Zm00001d004125_T129:1
Zm00001d004125_T020:1
Zm00001d004125_T057:1
Zm00001d004125_T064:1
Zm00001d004125_T168:1
Zm00001d004125_T101:1
Zm00001d004125_T027:1
Zm00001d004125_T136:1
Zm00001d004125_T158:1
Zm00001d004125_T170:1
Zm00001d004125_T032:1
Zm00001d004125_T112:1
Zm00001d004125_T118:1
Zm00001d004125_T062:1

					

			
		

General Information
CircRNA Name	Zm00001d004125_circ_g.2
ID in PlantcircBase	zma_circ_007218
Alias	zma_circ_0001103
Organism	Zea mays
Position	chr2: 84503946-84504365 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d004125
Parent gene annotation	acetyl-CoA carboxylase2
Parent gene strand	+
Alternative splicing	Zm00001d004125_circ_g.3 Zm00001d004125_circ_g.4
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	Zm00001d004125_T095:1 Zm00001d004125_T046:1 Zm00001d004125_T116:1 Zm00001d004125_T153:1 Zm00001d004125_T149:1 Zm00001d004125_T088:1 Zm00001d004125_T105:1 Zm00001d004125_T125:1 Zm00001d004125_T037:1 Zm00001d004125_T070:1 Zm00001d004125_T163:1 Zm00001d004125_T092:1 Zm00001d004125_T055:1 Zm00001d004125_T090:1 Zm00001d004125_T039:1 Zm00001d004125_T126:1 Zm00001d004125_T061:1 Zm00001d004125_T098:1 Zm00001d004125_T096:1 Zm00001d004125_T012:1 Zm00001d004125_T165:1 Zm00001d004125_T084:1 Zm00001d004125_T110:1 Zm00001d004125_T030:1 Zm00001d004125_T134:1 Zm00001d004125_T121:1 Zm00001d004125_T150:1 Zm00001d004125_T059:1 Zm00001d004125_T140:1 Zm00001d004125_T041:1 Zm00001d004125_T003:1 Zm00001d004125_T085:1 Zm00001d004125_T172:1 Zm00001d004125_T054:1 Zm00001d004125_T078:1 Zm00001d004125_T097:1 Zm00001d004125_T162:1 Zm00001d004125_T144:1 Zm00001d004125_T066:1 Zm00001d004125_T139:1 Zm00001d004125_T156:1 Zm00001d004125_T107:1 Zm00001d004125_T015:1 Zm00001d004125_T001:1 Zm00001d004125_T114:1 Zm00001d004125_T076:1 Zm00001d004125_T130:2 Zm00001d004125_T051:1 Zm00001d004125_T091:1 Zm00001d004125_T024:1 Zm00001d004125_T082:1 Zm00001d004125_T043:1 Zm00001d004125_T038:1 Zm00001d004125_T147:1 Zm00001d004125_T006:1 Zm00001d004125_T013:1 Zm00001d004125_T154:1 Zm00001d004125_T157:1 Zm00001d004125_T087:1 Zm00001d004125_T132:1 Zm00001d004125_T031:1 Zm00001d004125_T123:1 Zm00001d004125_T135:1 Zm00001d004125_T005:1 Zm00001d004125_T072:1 Zm00001d004125_T071:1 Zm00001d004125_T100:1 Zm00001d004125_T060:1 Zm00001d004125_T002:1 Zm00001d004125_T036:1 Zm00001d004125_T171:1 Zm00001d004125_T164:1 Zm00001d004125_T004:1 Zm00001d004125_T035:1 Zm00001d004125_T127:1 Zm00001d004125_T093:1 Zm00001d004125_T115:1 Zm00001d004125_T167:1 Zm00001d004125_T067:1 Zm00001d004125_T075:1 Zm00001d004125_T103:1 Zm00001d004125_T094:1 Zm00001d004125_T089:1 Zm00001d004125_T063:1 Zm00001d004125_T048:1 Zm00001d004125_T023:1 Zm00001d004125_T159:1 Zm00001d004125_T068:1 Zm00001d004125_T077:1 Zm00001d004125_T131:1 Zm00001d004125_T143:1 Zm00001d004125_T086:1 Zm00001d004125_T073:1 Zm00001d004125_T007:1 Zm00001d004125_T108:1 Zm00001d004125_T074:1 Zm00001d004125_T174:1 Zm00001d004125_T022:1 Zm00001d004125_T081:1 Zm00001d004125_T129:1 Zm00001d004125_T020:1 Zm00001d004125_T057:1 Zm00001d004125_T064:1 Zm00001d004125_T168:1 Zm00001d004125_T101:1 Zm00001d004125_T027:1 Zm00001d004125_T136:1 Zm00001d004125_T158:1 Zm00001d004125_T170:1 Zm00001d004125_T032:1 Zm00001d004125_T112:1 Zm00001d004125_T118:1 Zm00001d004125_T062:1

			
						 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  
						
							ATGCATGCAGTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAG
GACTTTCCATCCAAGTTGCTAAGAGACATCATTGAGgaaagatgatccattttagtagatagat
atattatcttatttttacacattggcttatgttgatggcagaaaaagccatcagagaaactatg
gtatttta

						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
						
							GAAAGATGATCCATTTTAGTAGATAGATATATTATCTTATTTTTACACATTGGCTTATGTTGAT
GGCAGAAAAAGCCATCAGAGAAACTATGGTATTTTATAACATTAGTTTGCACCGTGTTATGCTC
ACAAACCCTGTAGTTTGCTGCAGTTTGTTTTGTAAAATTTGAAATTGTCTTGATTGTTAAATTG
AAAACTCAGAATATTTCACTCTAGCATTTGAATCTTTCAGTAAGTTTGTTTTGATTCTGTGATT
ATAGTTTTTCTGGTATGTCCTTACATAATCCTTTTTTGTTCTAGCTCTGATGTTTTTATCTTTC
ATGCATGCAGTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAG
GACTTTCCATCCAAGTTGCTAAGAGACATCATTGAG

Sequences
Splice junction sequence	ATGCATGCAGTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAG GACTTTCCATCCAAGTTGCTAAGAGACATCATTGAGgaaagatgatccattttagtagatagat atattatcttatttttacacattggcttatgttgatggcagaaaaagccatcagagaaactatg gtatttta
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	GAAAGATGATCCATTTTAGTAGATAGATATATTATCTTATTTTTACACATTGGCTTATGTTGAT GGCAGAAAAAGCCATCAGAGAAACTATGGTATTTTATAACATTAGTTTGCACCGTGTTATGCTC ACAAACCCTGTAGTTTGCTGCAGTTTGTTTTGTAAAATTTGAAATTGTCTTGATTGTTAAATTG AAAACTCAGAATATTTCACTCTAGCATTTGAATCTTTCAGTAAGTTTGTTTTGATTCTGTGATT ATAGTTTTTCTGGTATGTCCTTACATAATCCTTTTTTGTTCTAGCTCTGATGTTTTTATCTTTC ATGCATGCAGTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAG GACTTTCCATCCAAGTTGCTAAGAGACATCATTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.066884167

Conservation Information
Conserved circRNAs	NA
PMCS	0.066884167

			
						 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 Zm00001d004125_circ_g.2

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