Plant Circular RNA Database

Detail information of Zm00001d004125_circ_g.3

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d004125_circ_g.3
					

						ID in PlantcircBase
						zma_circ_001077
					

						Alias
						circ452
					

						Organism
						
							Zea mays						
					

						Position
						
							chr2: 84504275-84505394  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d004125						
					

						Parent gene annotation
						
							 acetyl-CoA carboxylase2
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d004125_circ_g.2 Zm00001d004125_circ_g.4 						
					

						Support reads
						2
					

						Tissues
						seedling leaves
					

						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-CA							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_T170:5
Zm00001d004125_T082:5
Zm00001d004125_T006:5
Zm00001d004125_T015:5
Zm00001d004125_T100:5
Zm00001d004125_T098:5
Zm00001d004125_T041:5
Zm00001d004125_T110:5
Zm00001d004125_T063:5
Zm00001d004125_T066:5
Zm00001d004125_T172:5
Zm00001d004125_T154:5
Zm00001d004125_T134:5
Zm00001d004125_T081:5
Zm00001d004125_T132:5
Zm00001d004125_T147:5
Zm00001d004125_T171:4
Zm00001d004125_T177:4
Zm00001d004125_T060:5
Zm00001d004125_T162:5
Zm00001d004125_T055:5
Zm00001d004125_T078:5
Zm00001d004125_T002:5
Zm00001d004125_T031:5
Zm00001d004125_T114:5
Zm00001d004125_T037:5
Zm00001d004125_T123:5
Zm00001d004125_T107:5
Zm00001d004125_T074:5
Zm00001d004125_T181:3
Zm00001d004125_T077:5
Zm00001d004125_T129:5
Zm00001d004125_T024:5
Zm00001d004125_T073:5
Zm00001d004125_T135:5
Zm00001d004125_T112:5
Zm00001d004125_T005:5
Zm00001d004125_T043:5
Zm00001d004125_T068:4
Zm00001d004125_T157:5
Zm00001d004125_T167:5
Zm00001d004125_T159:5
Zm00001d004125_T164:5
Zm00001d004125_T140:5
Zm00001d004125_T048:4
Zm00001d004125_T071:5
Zm00001d004125_T027:5
Zm00001d004125_T001:5
Zm00001d004125_T131:5
Zm00001d004125_T072:5
Zm00001d004125_T116:5
Zm00001d004125_T039:5
Zm00001d004125_T121:5
Zm00001d004125_T182:2
Zm00001d004125_T007:5
Zm00001d004125_T093:5
Zm00001d004125_T086:5
Zm00001d004125_T156:5
Zm00001d004125_T064:5
Zm00001d004125_T178:4
Zm00001d004125_T179:3
Zm00001d004125_T032:5
Zm00001d004125_T165:5
Zm00001d004125_T085:5
Zm00001d004125_T004:5
Zm00001d004125_T097:5
Zm00001d004125_T105:5
Zm00001d004125_T067:5
Zm00001d004125_T089:5
Zm00001d004125_T013:5
Zm00001d004125_T101:5
Zm00001d004125_T020:5
Zm00001d004125_T149:5
Zm00001d004125_T130:5
Zm00001d004125_T150:5
Zm00001d004125_T103:5
Zm00001d004125_T057:5
Zm00001d004125_T092:5
Zm00001d004125_T096:5
Zm00001d004125_T118:5
Zm00001d004125_T158:5
Zm00001d004125_T088:5
Zm00001d004125_T115:4
Zm00001d004125_T091:5
Zm00001d004125_T136:5
Zm00001d004125_T143:5
Zm00001d004125_T012:4
Zm00001d004125_T038:5
Zm00001d004125_T094:5
Zm00001d004125_T090:5
Zm00001d004125_T076:5
Zm00001d004125_T095:5
Zm00001d004125_T144:5
Zm00001d004125_T075:5
Zm00001d004125_T087:5
Zm00001d004125_T084:5
Zm00001d004125_T003:5
Zm00001d004125_T054:5
Zm00001d004125_T070:5
Zm00001d004125_T023:5
Zm00001d004125_T035:5
Zm00001d004125_T059:5
Zm00001d004125_T127:5
Zm00001d004125_T036:5
Zm00001d004125_T153:5
Zm00001d004125_T174:5
Zm00001d004125_T030:5
Zm00001d004125_T051:5
Zm00001d004125_T139:5
Zm00001d004125_T125:5
Zm00001d004125_T126:5
Zm00001d004125_T061:5
Zm00001d004125_T108:5
Zm00001d004125_T183:1
Zm00001d004125_T163:5
Zm00001d004125_T022:5
Zm00001d004125_T046:5
Zm00001d004125_T062:5
Zm00001d004125_T168:5

					

			
		

General Information
CircRNA Name	Zm00001d004125_circ_g.3
ID in PlantcircBase	zma_circ_001077
Alias	circ452
Organism	Zea mays
Position	chr2: 84504275-84505394 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d004125
Parent gene annotation	acetyl-CoA carboxylase2
Parent gene strand	+
Alternative splicing	Zm00001d004125_circ_g.2 Zm00001d004125_circ_g.4
Support reads	2
Tissues	seedling leaves
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-CA 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_T170:5 Zm00001d004125_T082:5 Zm00001d004125_T006:5 Zm00001d004125_T015:5 Zm00001d004125_T100:5 Zm00001d004125_T098:5 Zm00001d004125_T041:5 Zm00001d004125_T110:5 Zm00001d004125_T063:5 Zm00001d004125_T066:5 Zm00001d004125_T172:5 Zm00001d004125_T154:5 Zm00001d004125_T134:5 Zm00001d004125_T081:5 Zm00001d004125_T132:5 Zm00001d004125_T147:5 Zm00001d004125_T171:4 Zm00001d004125_T177:4 Zm00001d004125_T060:5 Zm00001d004125_T162:5 Zm00001d004125_T055:5 Zm00001d004125_T078:5 Zm00001d004125_T002:5 Zm00001d004125_T031:5 Zm00001d004125_T114:5 Zm00001d004125_T037:5 Zm00001d004125_T123:5 Zm00001d004125_T107:5 Zm00001d004125_T074:5 Zm00001d004125_T181:3 Zm00001d004125_T077:5 Zm00001d004125_T129:5 Zm00001d004125_T024:5 Zm00001d004125_T073:5 Zm00001d004125_T135:5 Zm00001d004125_T112:5 Zm00001d004125_T005:5 Zm00001d004125_T043:5 Zm00001d004125_T068:4 Zm00001d004125_T157:5 Zm00001d004125_T167:5 Zm00001d004125_T159:5 Zm00001d004125_T164:5 Zm00001d004125_T140:5 Zm00001d004125_T048:4 Zm00001d004125_T071:5 Zm00001d004125_T027:5 Zm00001d004125_T001:5 Zm00001d004125_T131:5 Zm00001d004125_T072:5 Zm00001d004125_T116:5 Zm00001d004125_T039:5 Zm00001d004125_T121:5 Zm00001d004125_T182:2 Zm00001d004125_T007:5 Zm00001d004125_T093:5 Zm00001d004125_T086:5 Zm00001d004125_T156:5 Zm00001d004125_T064:5 Zm00001d004125_T178:4 Zm00001d004125_T179:3 Zm00001d004125_T032:5 Zm00001d004125_T165:5 Zm00001d004125_T085:5 Zm00001d004125_T004:5 Zm00001d004125_T097:5 Zm00001d004125_T105:5 Zm00001d004125_T067:5 Zm00001d004125_T089:5 Zm00001d004125_T013:5 Zm00001d004125_T101:5 Zm00001d004125_T020:5 Zm00001d004125_T149:5 Zm00001d004125_T130:5 Zm00001d004125_T150:5 Zm00001d004125_T103:5 Zm00001d004125_T057:5 Zm00001d004125_T092:5 Zm00001d004125_T096:5 Zm00001d004125_T118:5 Zm00001d004125_T158:5 Zm00001d004125_T088:5 Zm00001d004125_T115:4 Zm00001d004125_T091:5 Zm00001d004125_T136:5 Zm00001d004125_T143:5 Zm00001d004125_T012:4 Zm00001d004125_T038:5 Zm00001d004125_T094:5 Zm00001d004125_T090:5 Zm00001d004125_T076:5 Zm00001d004125_T095:5 Zm00001d004125_T144:5 Zm00001d004125_T075:5 Zm00001d004125_T087:5 Zm00001d004125_T084:5 Zm00001d004125_T003:5 Zm00001d004125_T054:5 Zm00001d004125_T070:5 Zm00001d004125_T023:5 Zm00001d004125_T035:5 Zm00001d004125_T059:5 Zm00001d004125_T127:5 Zm00001d004125_T036:5 Zm00001d004125_T153:5 Zm00001d004125_T174:5 Zm00001d004125_T030:5 Zm00001d004125_T051:5 Zm00001d004125_T139:5 Zm00001d004125_T125:5 Zm00001d004125_T126:5 Zm00001d004125_T061:5 Zm00001d004125_T108:5 Zm00001d004125_T183:1 Zm00001d004125_T163:5 Zm00001d004125_T022:5 Zm00001d004125_T046:5 Zm00001d004125_T062:5 Zm00001d004125_T168:5

			
						 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  
						
							CCCATTACCTGTTGAAGATGCTCTGATTTCTTTGTTTGATTACAGTGATCGAACTGTTCAGCAG
AAAGTGATTGAGACATACATATCACGATTGTACCAGgttagaggataaatacaaggaatacaag
ttgaatttttaccatggaaaaaacgaggactttccatccaagttgctaagagacatcattgagg
tcagttat

						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
						
							GTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAGGACTTTCCA
TCCAAGTTGCTAAGAGACATCATTGAGGTCAGTTATGCTTCTTTTGTGGTATCCCTTAAACTGT
TCGCTATTGTCTTAACTGGTGCTTTCTCTGCAGGAAAATCTTTCTTATGGTTCAGAGAAGGAAA
AGGCTACAAATGAGAGGCTTGTTGAGCCTCTTATGAACCTACTGAAGTCATATGAGGGTGGGAG
AGAGAGCCATGCACATTTTGTTGTCAAGTCTCTTTTCGAGGAGTATCTTACAGTGGAAGAACTT
TTTAGTGATGGCATTCAGGTTATTGCACATTATAAGACTGAACAGATCAGTATTAGAAAAAAAA
ACACACAAAATGTTCAGTACTTTCCATTATCTTAGTTAGGAGAGACTTTTTGCATTGCTTCAGC
TGGAATTTACTTGAACAATCTGACTTGCTATTTTTCTCTATTTATTTCATGGCAGTCTGACGTG
ATTGAAACATTGCGGCATCAGCACAGTAAAGACCTGCAGAAGGTTGTAGACATTGTGTTGTCTC
ACCAGGTAAATTTCTTTATGGCTGGTGACATTTATGCAAATGATTAGTGAAACAATCTTTGTTA
TTGATAGTGTGATTTTATTCACAGGGTGTGAGGAACAAAGCTAAGCTTGTAACGGCACTTATGG
AAAAGCTGGTTTATCCAAATCCTGGTGGTTACAGGGATCTGTTAGTTCGCTTTTCTTCCCTCAA
TCATAAAAGATATTATAAGGTGCAGTGGTTAGAAATAACTTAGATAGATATTCCCATTATAATT
TATTTTGATATTTTTCCTAATGAATTCCATGCATCTTAATAAACACAGTTGGCCCTTAAAGCAA
GTGAACTTCTTGAACAAACCAAACTAAGTGAACTCCGTGCAAGCGTTGCAAGAAGCCTTTCGGA
TCTGGGGATGCATAAGGGAGAAATGAGTATTAAGGATAACATGGAAGATTTAGTCTCTGCCCCA
TTACCTGTTGAAGATGCTCTGATTTCTTTGTTTGATTACAGTGATCGAACTGTTCAGCAGAAAG
TGATTGAGACATACATATCACGATTGTACCAG

Sequences
Splice junction sequence	CCCATTACCTGTTGAAGATGCTCTGATTTCTTTGTTTGATTACAGTGATCGAACTGTTCAGCAG AAAGTGATTGAGACATACATATCACGATTGTACCAGgttagaggataaatacaaggaatacaag ttgaatttttaccatggaaaaaacgaggactttccatccaagttgctaagagacatcattgagg tcagttat
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	GTTAGAGGATAAATACAAGGAATACAAGTTGAATTTTTACCATGGAAAAAACGAGGACTTTCCA TCCAAGTTGCTAAGAGACATCATTGAGGTCAGTTATGCTTCTTTTGTGGTATCCCTTAAACTGT TCGCTATTGTCTTAACTGGTGCTTTCTCTGCAGGAAAATCTTTCTTATGGTTCAGAGAAGGAAA AGGCTACAAATGAGAGGCTTGTTGAGCCTCTTATGAACCTACTGAAGTCATATGAGGGTGGGAG AGAGAGCCATGCACATTTTGTTGTCAAGTCTCTTTTCGAGGAGTATCTTACAGTGGAAGAACTT TTTAGTGATGGCATTCAGGTTATTGCACATTATAAGACTGAACAGATCAGTATTAGAAAAAAAA ACACACAAAATGTTCAGTACTTTCCATTATCTTAGTTAGGAGAGACTTTTTGCATTGCTTCAGC TGGAATTTACTTGAACAATCTGACTTGCTATTTTTCTCTATTTATTTCATGGCAGTCTGACGTG ATTGAAACATTGCGGCATCAGCACAGTAAAGACCTGCAGAAGGTTGTAGACATTGTGTTGTCTC ACCAGGTAAATTTCTTTATGGCTGGTGACATTTATGCAAATGATTAGTGAAACAATCTTTGTTA TTGATAGTGTGATTTTATTCACAGGGTGTGAGGAACAAAGCTAAGCTTGTAACGGCACTTATGG AAAAGCTGGTTTATCCAAATCCTGGTGGTTACAGGGATCTGTTAGTTCGCTTTTCTTCCCTCAA TCATAAAAGATATTATAAGGTGCAGTGGTTAGAAATAACTTAGATAGATATTCCCATTATAATT TATTTTGATATTTTTCCTAATGAATTCCATGCATCTTAATAAACACAGTTGGCCCTTAAAGCAA GTGAACTTCTTGAACAAACCAAACTAAGTGAACTCCGTGCAAGCGTTGCAAGAAGCCTTTCGGA TCTGGGGATGCATAAGGGAGAAATGAGTATTAAGGATAACATGGAAGATTTAGTCTCTGCCCCA TTACCTGTTGAAGATGCTCTGATTTCTTTGTTTGATTACAGTGATCGAACTGTTCAGCAGAAAG TGATTGAGACATACATATCACGATTGTACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024627976

Conservation Information
Conserved circRNAs	NA
PMCS	0.024627976

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d004125_circ_g.3

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