Plant Circular RNA Database

Detail information of Zm00001d005100_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d005100_circ_g.2
					

						ID in PlantcircBase
						zma_circ_001127
					

						Alias
						circ477
					

						Organism
						
							Zea mays						
					

						Position
						
							chr2: 158151845-158152794  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d005100						
					

						Parent gene annotation
						
							RNA binding (RRM/RBD/RNP motifs) family protein
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d005100_circ_g.1 Zm00001d005100_circ_g.3 						
					

						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  
						
							CT-TA							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
						Zm00001d005100_T043:3
Zm00001d005100_T009:3
Zm00001d005100_T002:3
Zm00001d005100_T112:3
Zm00001d005100_T037:3
Zm00001d005100_T081:3
Zm00001d005100_T077:3
Zm00001d005100_T058:3
Zm00001d005100_T084:3
Zm00001d005100_T050:3
Zm00001d005100_T060:3
Zm00001d005100_T069:3
Zm00001d005100_T087:3
Zm00001d005100_T114:3
Zm00001d005100_T020:3
Zm00001d005100_T026:3
Zm00001d005100_T046:3
Zm00001d005100_T039:2
Zm00001d005100_T113:3
Zm00001d005100_T030:3
Zm00001d005100_T004:3
Zm00001d005100_T041:3
Zm00001d005100_T032:3
Zm00001d005100_T018:3
Zm00001d005100_T096:3
Zm00001d005100_T038:3
Zm00001d005100_T054:3
Zm00001d005100_T109:3
Zm00001d005100_T010:3
Zm00001d005100_T063:3
Zm00001d005100_T108:3
Zm00001d005100_T091:3
Zm00001d005100_T110:3
Zm00001d005100_T015:3
Zm00001d005100_T106:3
Zm00001d005100_T075:3
Zm00001d005100_T092:3
Zm00001d005100_T001:3
Zm00001d005100_T016:3
Zm00001d005100_T068:3
Zm00001d005100_T107:3
Zm00001d005100_T072:3
Zm00001d005100_T044:3
Zm00001d005100_T090:3
Zm00001d005100_T076:3
Zm00001d005100_T066:3
Zm00001d005100_T111:3
Zm00001d005100_T065:3
Zm00001d005100_T034:3
Zm00001d005100_T024:3
Zm00001d005100_T007:3
Zm00001d005100_T086:3
Zm00001d005100_T078:3
Zm00001d005100_T082:3
Zm00001d005100_T027:3
Zm00001d005100_T052:3
Zm00001d005100_T003:3
Zm00001d005100_T094:3
Zm00001d005100_T040:3
Zm00001d005100_T048:2
Zm00001d005100_T101:3
Zm00001d005100_T056:3

					

			
		

General Information
CircRNA Name	Zm00001d005100_circ_g.2
ID in PlantcircBase	zma_circ_001127
Alias	circ477
Organism	Zea mays
Position	chr2: 158151845-158152794 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d005100
Parent gene annotation	RNA binding (RRM/RBD/RNP motifs) family protein
Parent gene strand	-
Alternative splicing	Zm00001d005100_circ_g.1 Zm00001d005100_circ_g.3
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	CT-TA 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	Zm00001d005100_T043:3 Zm00001d005100_T009:3 Zm00001d005100_T002:3 Zm00001d005100_T112:3 Zm00001d005100_T037:3 Zm00001d005100_T081:3 Zm00001d005100_T077:3 Zm00001d005100_T058:3 Zm00001d005100_T084:3 Zm00001d005100_T050:3 Zm00001d005100_T060:3 Zm00001d005100_T069:3 Zm00001d005100_T087:3 Zm00001d005100_T114:3 Zm00001d005100_T020:3 Zm00001d005100_T026:3 Zm00001d005100_T046:3 Zm00001d005100_T039:2 Zm00001d005100_T113:3 Zm00001d005100_T030:3 Zm00001d005100_T004:3 Zm00001d005100_T041:3 Zm00001d005100_T032:3 Zm00001d005100_T018:3 Zm00001d005100_T096:3 Zm00001d005100_T038:3 Zm00001d005100_T054:3 Zm00001d005100_T109:3 Zm00001d005100_T010:3 Zm00001d005100_T063:3 Zm00001d005100_T108:3 Zm00001d005100_T091:3 Zm00001d005100_T110:3 Zm00001d005100_T015:3 Zm00001d005100_T106:3 Zm00001d005100_T075:3 Zm00001d005100_T092:3 Zm00001d005100_T001:3 Zm00001d005100_T016:3 Zm00001d005100_T068:3 Zm00001d005100_T107:3 Zm00001d005100_T072:3 Zm00001d005100_T044:3 Zm00001d005100_T090:3 Zm00001d005100_T076:3 Zm00001d005100_T066:3 Zm00001d005100_T111:3 Zm00001d005100_T065:3 Zm00001d005100_T034:3 Zm00001d005100_T024:3 Zm00001d005100_T007:3 Zm00001d005100_T086:3 Zm00001d005100_T078:3 Zm00001d005100_T082:3 Zm00001d005100_T027:3 Zm00001d005100_T052:3 Zm00001d005100_T003:3 Zm00001d005100_T094:3 Zm00001d005100_T040:3 Zm00001d005100_T048:2 Zm00001d005100_T101:3 Zm00001d005100_T056:3

			
						 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  
						
							AGCGCTACCTTGTATATGCTGAGATGATCTCATCTTTAGTAAAACTATCCTCCTGACTGCCTAC
ATCATGCAAATAGAGACAATCTGGATTCCCACATGCccatgatgcagctggtggaagcgtggac
ctcccagaactactgtttggaggtgaaagtctgggctgactggtggtattctgcacagatggca
gccagtta

						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
						
							CCATGATGCAGCTGGTGGAAGCGTGGACCTCCCAGAACTACTGTTTGGAGGTGAAAGTCTGGGC
TGACTGGTGGTATTCTGCACAGATGGCAGCCAGTTAATGGAGTATGTAAGCCAAAGACATGATG
AAATGCCAGAGATTAAACCTACACTAGAAAGCAGCATTGAAGACTGAAATTTAAAAAGAATGAA
ATGTCAATTTGAATTTCCAGCATAAAGAACATACAAGTGTTCCATTCTTGAATGTATGCTTGGC
TGAAACCACCGCACTGTGAGAGAAATCATCTCCTGGAGGAGGTAACACAGTGCCTGTACGTCTT
TGCGAAACACTAGATGCCATCTGGGGGACTCTAGTCCTGACAGAAATATAGAAGAGTGGATGAA
AAGTAGTAATTGAAACTATCAAAATTGTTTTAGCACAAAGTTCATCAAAGCATTACTTAATATA
ATAAACCATCCACATCGAAGCACACATACTGTTTTCTAAATCAAGTAATAAAAAACACCAATAG
CTTACACACAACAAGATTTTGCACAGGGATGAGTTCATCAAAGCAACACTTAATATAATAAACA
TCTACATTGAAGCAGACATGTTGTGTTTGTAAATCAACCCACGGAGAACACCAGCAGCTTATAC
ATAGTAAGACTTTACTTCTATGGCTTCAAGGAACTAACTATTATATCCCAAAGTGGAAAAGTAA
ATGGTGTTTTAAAAAAGGCAATGTGAGTACAAGTAGTTTAGACAGAAGGAACGTGAAAGCCAGG
ACTAGCACATGACTTAGGGCTGAAATGAATAAGGAAGCAGAACAAGAAACTAAGGTTCCACAAC
ATATGTTAAAAATAGTTCAGCGCTACCTTGTATATGCTGAGATGATCTCATCTTTAGTAAAACT
ATCCTCCTGACTGCCTACATCATGCAAATAGAGACAATCTGGATTCCCACATGC

Sequences
Splice junction sequence	AGCGCTACCTTGTATATGCTGAGATGATCTCATCTTTAGTAAAACTATCCTCCTGACTGCCTAC ATCATGCAAATAGAGACAATCTGGATTCCCACATGCccatgatgcagctggtggaagcgtggac ctcccagaactactgtttggaggtgaaagtctgggctgactggtggtattctgcacagatggca gccagtta
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	CCATGATGCAGCTGGTGGAAGCGTGGACCTCCCAGAACTACTGTTTGGAGGTGAAAGTCTGGGC TGACTGGTGGTATTCTGCACAGATGGCAGCCAGTTAATGGAGTATGTAAGCCAAAGACATGATG AAATGCCAGAGATTAAACCTACACTAGAAAGCAGCATTGAAGACTGAAATTTAAAAAGAATGAA ATGTCAATTTGAATTTCCAGCATAAAGAACATACAAGTGTTCCATTCTTGAATGTATGCTTGGC TGAAACCACCGCACTGTGAGAGAAATCATCTCCTGGAGGAGGTAACACAGTGCCTGTACGTCTT TGCGAAACACTAGATGCCATCTGGGGGACTCTAGTCCTGACAGAAATATAGAAGAGTGGATGAA AAGTAGTAATTGAAACTATCAAAATTGTTTTAGCACAAAGTTCATCAAAGCATTACTTAATATA ATAAACCATCCACATCGAAGCACACATACTGTTTTCTAAATCAAGTAATAAAAAACACCAATAG CTTACACACAACAAGATTTTGCACAGGGATGAGTTCATCAAAGCAACACTTAATATAATAAACA TCTACATTGAAGCAGACATGTTGTGTTTGTAAATCAACCCACGGAGAACACCAGCAGCTTATAC ATAGTAAGACTTTACTTCTATGGCTTCAAGGAACTAACTATTATATCCCAAAGTGGAAAAGTAA ATGGTGTTTTAAAAAAGGCAATGTGAGTACAAGTAGTTTAGACAGAAGGAACGTGAAAGCCAGG ACTAGCACATGACTTAGGGCTGAAATGAATAAGGAAGCAGAACAAGAAACTAAGGTTCCACAAC ATATGTTAAAAATAGTTCAGCGCTACCTTGTATATGCTGAGATGATCTCATCTTTAGTAAAACT ATCCTCCTGACTGCCTACATCATGCAAATAGAGACAATCTGGATTCCCACATGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.020877193

Conservation Information
Conserved circRNAs	NA
PMCS	0.020877193

			
						 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 Zm00001d005100_circ_g.2

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