Plant Circular RNA Database

Detail information of Zm00001d021741_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d021741_circ_g.2
					

						ID in PlantcircBase
						zma_circ_009436
					

						Alias
						zma_circ_0002619
					

						Organism
						
							Zea mays						
					

						Position
						
							chr7: 161996147-161996359  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d021741						
					

						Parent gene annotation
						
							Eukaryotic translation initiation factor 4G
							
					

						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  
						
							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
						Zm00001d021741_T076:1
Zm00001d021741_T056:1
Zm00001d021741_T073:1
Zm00001d021741_T026:1
Zm00001d021741_T010:1
Zm00001d021741_T078:1
Zm00001d021741_T074:1
Zm00001d021741_T017:1
Zm00001d021741_T059:1
Zm00001d021741_T020:1
Zm00001d021741_T069:1
Zm00001d021741_T079:1
Zm00001d021741_T007:1
Zm00001d021741_T019:1
Zm00001d021741_T085:1
Zm00001d021741_T002:1
Zm00001d021741_T033:1
Zm00001d021741_T034:1
Zm00001d021741_T066:1
Zm00001d021741_T041:1
Zm00001d021741_T048:1
Zm00001d021741_T053:1
Zm00001d021741_T050:1
Zm00001d021741_T047:1
Zm00001d021741_T071:1
Zm00001d021741_T084:1
Zm00001d021741_T031:1
Zm00001d021741_T003:1
Zm00001d021741_T082:1
Zm00001d021741_T088:1
Zm00001d021741_T006:1
Zm00001d021741_T001:1
Zm00001d021741_T092:1
Zm00001d021741_T005:1
Zm00001d021741_T089:1
Zm00001d021741_T036:1
Zm00001d021741_T013:1
Zm00001d021741_T065:1
Zm00001d021741_T024:1
Zm00001d021741_T004:1
Zm00001d021741_T029:1
Zm00001d021741_T062:1
Zm00001d021741_T015:1
Zm00001d021741_T091:1
Zm00001d021741_T057:1
Zm00001d021741_T043:1
Zm00001d021741_T045:1
Zm00001d021741_T060:1
Zm00001d021741_T039:1
Zm00001d021741_T022:1

					

			
		

General Information
CircRNA Name	Zm00001d021741_circ_g.2
ID in PlantcircBase	zma_circ_009436
Alias	zma_circ_0002619
Organism	Zea mays
Position	chr7: 161996147-161996359 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d021741
Parent gene annotation	Eukaryotic translation initiation factor 4G
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	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	Zm00001d021741_T076:1 Zm00001d021741_T056:1 Zm00001d021741_T073:1 Zm00001d021741_T026:1 Zm00001d021741_T010:1 Zm00001d021741_T078:1 Zm00001d021741_T074:1 Zm00001d021741_T017:1 Zm00001d021741_T059:1 Zm00001d021741_T020:1 Zm00001d021741_T069:1 Zm00001d021741_T079:1 Zm00001d021741_T007:1 Zm00001d021741_T019:1 Zm00001d021741_T085:1 Zm00001d021741_T002:1 Zm00001d021741_T033:1 Zm00001d021741_T034:1 Zm00001d021741_T066:1 Zm00001d021741_T041:1 Zm00001d021741_T048:1 Zm00001d021741_T053:1 Zm00001d021741_T050:1 Zm00001d021741_T047:1 Zm00001d021741_T071:1 Zm00001d021741_T084:1 Zm00001d021741_T031:1 Zm00001d021741_T003:1 Zm00001d021741_T082:1 Zm00001d021741_T088:1 Zm00001d021741_T006:1 Zm00001d021741_T001:1 Zm00001d021741_T092:1 Zm00001d021741_T005:1 Zm00001d021741_T089:1 Zm00001d021741_T036:1 Zm00001d021741_T013:1 Zm00001d021741_T065:1 Zm00001d021741_T024:1 Zm00001d021741_T004:1 Zm00001d021741_T029:1 Zm00001d021741_T062:1 Zm00001d021741_T015:1 Zm00001d021741_T091:1 Zm00001d021741_T057:1 Zm00001d021741_T043:1 Zm00001d021741_T045:1 Zm00001d021741_T060:1 Zm00001d021741_T039:1 Zm00001d021741_T022:1

			
						 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  
						
							GAAAGGATTATGCATGAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGA
ACATTGAAGCACTATGCAAATTGATGAGTACAATTGgtgagatcaaacagaccaaagaagaaag
agaggaaaagagaatccgtgctcgaaggcgcatgctgggaaacattaggttaatcggagagttg
ttcaaaaa

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 213
Transcript exons: 161996147-161996359
GTGAGATCAAACAGACCAAAGAAGAAAGAGAGGAAAAGAGAATCCGTGCTCGAAGGCGCATGCT
GGGAAACATTAGGTTAATCGGAGAGTTGTTCAAAAAGAAAATGTTGACAGAAAGGATTATGCAT
GAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGAACATTGAAGCACTAT
GCAAATTGATGAGTACAATTG
						
						Genomic sequence
						
							GTGAGATCAAACAGACCAAAGAAGAAAGAGAGGAAAAGAGAATCCGTGCTCGAAGGCGCATGCT
GGGAAACATTAGGTTAATCGGAGAGTTGTTCAAAAAGAAAATGTTGACAGAAAGGATTATGCAT
GAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGAACATTGAAGCACTAT
GCAAATTGATGAGTACAATTG

Sequences
Splice junction sequence	GAAAGGATTATGCATGAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGA ACATTGAAGCACTATGCAAATTGATGAGTACAATTGgtgagatcaaacagaccaaagaagaaag agaggaaaagagaatccgtgctcgaaggcgcatgctgggaaacattaggttaatcggagagttg ttcaaaaa
Assembled circRNA sequence	Yes 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	Transcript length: 213 Transcript exons: 161996147-161996359 GTGAGATCAAACAGACCAAAGAAGAAAGAGAGGAAAAGAGAATCCGTGCTCGAAGGCGCATGCT GGGAAACATTAGGTTAATCGGAGAGTTGTTCAAAAAGAAAATGTTGACAGAAAGGATTATGCAT GAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGAACATTGAAGCACTAT GCAAATTGATGAGTACAATTG
Genomic sequence	GTGAGATCAAACAGACCAAAGAAGAAAGAGAGGAAAAGAGAATCCGTGCTCGAAGGCGCATGCT GGGAAACATTAGGTTAATCGGAGAGTTGTTCAAAAAGAAAATGTTGACAGAAAGGATTATGCAT GAGTGCATTAAAAAATTGTTTGGAAATTGTGATGATCCCGATGAGGAGAACATTGAAGCACTAT GCAAATTGATGAGTACAATTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.561024254

Conservation Information
Conserved circRNAs	NA
PMCS	0.561024254

			
						 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 Zm00001d021741_circ_g.2

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