Plant Circular RNA Database

Detail information of Zm00001d021000_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d021000_circ_g.2
					

						ID in PlantcircBase
						zma_circ_005482
					

						Alias
						seedlingc_test_circ_001427
					

						Organism
						
							Zea mays						
					

						Position
						
							chr7: 139914171-139914310  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							ui-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d021000						
					

						Parent gene annotation
						
							ATPase 4 plasma membrane-type
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							NA						
					

						Support reads
						NA
					

						Tissues
						seedling
					

						Exon boundary  
						
							Yes-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  
						
							TG-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
						Zm00001d021000_T024:1
Zm00001d021000_T001:1
Zm00001d021000_T037:1
Zm00001d021000_T012:1
Zm00001d021000_T032:1
Zm00001d021000_T027:1
Zm00001d021000_T003:1
Zm00001d021000_T052:1
Zm00001d021000_T050:1
Zm00001d021000_T008:1
Zm00001d021000_T023:1
Zm00001d021000_T040:1
Zm00001d021000_T013:1
Zm00001d021000_T006:1
Zm00001d021000_T005:1
Zm00001d021000_T046:1
Zm00001d021000_T051:1
Zm00001d021000_T042:1
Zm00001d021000_T030:1
Zm00001d021000_T039:1
Zm00001d021000_T002:1
Zm00001d021000_T049:1
Zm00001d021000_T015:1
Zm00001d021000_T038:1
Zm00001d021000_T014:1
Zm00001d021000_T045:1
Zm00001d021000_T041:1
Zm00001d021000_T028:1
Zm00001d021000_T043:1
Zm00001d021000_T019:1
Zm00001d021000_T004:1
Zm00001d021000_T021:1
Zm00001d021000_T020:1
Zm00001d021000_T017:1
Zm00001d021000_T047:1
Zm00001d021000_T033:1
Zm00001d021000_T022:1
Zm00001d021000_T010:1
Zm00001d021000_T044:1
Zm00001d021000_T034:1
Zm00001d021000_T029:1
Zm00001d021000_T036:1
Zm00001d021000_T011:1
Zm00001d021000_T056:1
Zm00001d021000_T057:1
Zm00001d021000_T035:1
Zm00001d021000_T055:1
Zm00001d021000_T054:1
Zm00001d021000_T016:1
Zm00001d021000_T007:1
Zm00001d021000_T025:1
Zm00001d021000_T053:1
Zm00001d021000_T031:1
Zm00001d021000_T009:1
Zm00001d021000_T026:1
Zm00001d021000_T058:1

					

			
		

General Information
CircRNA Name	Zm00001d021000_circ_g.2
ID in PlantcircBase	zma_circ_005482
Alias	seedlingc_test_circ_001427
Organism	Zea mays
Position	chr7: 139914171-139914310 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	find_circ
Parent gene	Zm00001d021000
Parent gene annotation	ATPase 4 plasma membrane-type
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	seedling
Exon boundary	Yes-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	TG-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	Zm00001d021000_T024:1 Zm00001d021000_T001:1 Zm00001d021000_T037:1 Zm00001d021000_T012:1 Zm00001d021000_T032:1 Zm00001d021000_T027:1 Zm00001d021000_T003:1 Zm00001d021000_T052:1 Zm00001d021000_T050:1 Zm00001d021000_T008:1 Zm00001d021000_T023:1 Zm00001d021000_T040:1 Zm00001d021000_T013:1 Zm00001d021000_T006:1 Zm00001d021000_T005:1 Zm00001d021000_T046:1 Zm00001d021000_T051:1 Zm00001d021000_T042:1 Zm00001d021000_T030:1 Zm00001d021000_T039:1 Zm00001d021000_T002:1 Zm00001d021000_T049:1 Zm00001d021000_T015:1 Zm00001d021000_T038:1 Zm00001d021000_T014:1 Zm00001d021000_T045:1 Zm00001d021000_T041:1 Zm00001d021000_T028:1 Zm00001d021000_T043:1 Zm00001d021000_T019:1 Zm00001d021000_T004:1 Zm00001d021000_T021:1 Zm00001d021000_T020:1 Zm00001d021000_T017:1 Zm00001d021000_T047:1 Zm00001d021000_T033:1 Zm00001d021000_T022:1 Zm00001d021000_T010:1 Zm00001d021000_T044:1 Zm00001d021000_T034:1 Zm00001d021000_T029:1 Zm00001d021000_T036:1 Zm00001d021000_T011:1 Zm00001d021000_T056:1 Zm00001d021000_T057:1 Zm00001d021000_T035:1 Zm00001d021000_T055:1 Zm00001d021000_T054:1 Zm00001d021000_T016:1 Zm00001d021000_T007:1 Zm00001d021000_T025:1 Zm00001d021000_T053:1 Zm00001d021000_T031:1 Zm00001d021000_T009:1 Zm00001d021000_T026:1 Zm00001d021000_T058:1

			
						 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  
						
							GAGATGAAGAGACGACTTTTTTGAAAGAGCCATATCCATGAACTTAGCAAAAGGCCTAATAAAT
GTGACCcgcgagcttgtagaaacatagatgatccatgcatgtcgtcatacttcttgatgattgt
attcttggtgct

						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
						
							CGCGAGCTTGTAGAAACATAGATGATCCATGCATGTCGTCATACTTCTTGATGATTGTATTCTT
GGTGCTGAGATGAAGAGACGACTTTTTTGAAAGAGCCATATCCATGAACTTAGCAAAAGGCCTA
ATAAATGTGACC

Sequences
Splice junction sequence	GAGATGAAGAGACGACTTTTTTGAAAGAGCCATATCCATGAACTTAGCAAAAGGCCTAATAAAT GTGACCcgcgagcttgtagaaacatagatgatccatgcatgtcgtcatacttcttgatgattgt attcttggtgct
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	CGCGAGCTTGTAGAAACATAGATGATCCATGCATGTCGTCATACTTCTTGATGATTGTATTCTT GGTGCTGAGATGAAGAGACGACTTTTTTGAAAGAGCCATATCCATGAACTTAGCAAAAGGCCTA ATAAATGTGACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.480403616

Conservation Information
Conserved circRNAs	NA
PMCS	0.480403616

			
						 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
						Tang et al., 2018

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Detail information of Zm00001d021000_circ_g.2

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