Plant Circular RNA Database

Detail information of Zm00001d030266_circ_g.5

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d030266_circ_g.5
					

						ID in PlantcircBase
						zma_circ_000700
					

						Alias
						circ2581, seedlingd_test_circ_001553
					

						Organism
						
							Zea mays						
					

						Position
						
							chr1: 117688473-117688790  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRCexplor2, find_circ
					

						Parent gene
						
							Zm00001d030266						
					

						Parent gene annotation
						
							Callose synthase 10
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d030266_circ_igg.1 Zm00001d030266_circ_igg.2 Zm00001d030266_circ_igg.3 Zm00001d030266_circ_igg.4 Zm00001d030266_circ_igg.6 Zm00001d030266_circ_g.7 						
					

						Support reads
						39
					

						Tissues
						seedling leaves, seedling
					

						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-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
						Zm00001d030266_T081:2
Zm00001d030266_T064:2
Zm00001d030266_T004:2
Zm00001d030266_T033:2
Zm00001d030266_T074:2
Zm00001d030266_T059:2
Zm00001d030266_T008:2
Zm00001d030266_T088:2
Zm00001d030266_T077:2
Zm00001d030266_T097:1
Zm00001d030266_T019:2
Zm00001d030266_T007:2
Zm00001d030266_T079:2
Zm00001d030266_T069:2
Zm00001d030266_T093:2
Zm00001d030266_T045:2
Zm00001d030266_T050:2
Zm00001d030266_T031:2
Zm00001d030266_T063:2
Zm00001d030266_T035:2
Zm00001d030266_T085:2
Zm00001d030266_T052:2
Zm00001d030266_T080:2
Zm00001d030266_T013:2
Zm00001d030266_T018:2
Zm00001d030266_T027:1
Zm00001d030266_T096:2
Zm00001d030266_T068:2
Zm00001d030266_T072:2
Zm00001d030266_T092:2
Zm00001d030266_T001:2
Zm00001d030266_T056:2
Zm00001d030266_T090:2
Zm00001d030266_T073:2
Zm00001d030266_T054:2
Zm00001d030266_T083:2
Zm00001d030266_T016:2
Zm00001d030266_T087:2
Zm00001d030266_T021:2
Zm00001d030266_T025:2
Zm00001d030266_T036:2
Zm00001d030266_T061:2
Zm00001d030266_T047:2
Zm00001d030266_T039:2
Zm00001d030266_T014:2
Zm00001d030266_T011:3
Zm00001d030266_T048:2
Zm00001d030266_T005:2
Zm00001d030266_T041:2
Zm00001d030266_T023:2
Zm00001d030266_T089:2
Zm00001d030266_T066:2

					

			
		

General Information
CircRNA Name	Zm00001d030266_circ_g.5
ID in PlantcircBase	zma_circ_000700
Alias	circ2581, seedlingd_test_circ_001553
Organism	Zea mays
Position	chr1: 117688473-117688790 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2, find_circ
Parent gene	Zm00001d030266
Parent gene annotation	Callose synthase 10
Parent gene strand	+
Alternative splicing	Zm00001d030266_circ_igg.1 Zm00001d030266_circ_igg.2 Zm00001d030266_circ_igg.3 Zm00001d030266_circ_igg.4 Zm00001d030266_circ_igg.6 Zm00001d030266_circ_g.7
Support reads	39
Tissues	seedling leaves, seedling
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-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	Zm00001d030266_T081:2 Zm00001d030266_T064:2 Zm00001d030266_T004:2 Zm00001d030266_T033:2 Zm00001d030266_T074:2 Zm00001d030266_T059:2 Zm00001d030266_T008:2 Zm00001d030266_T088:2 Zm00001d030266_T077:2 Zm00001d030266_T097:1 Zm00001d030266_T019:2 Zm00001d030266_T007:2 Zm00001d030266_T079:2 Zm00001d030266_T069:2 Zm00001d030266_T093:2 Zm00001d030266_T045:2 Zm00001d030266_T050:2 Zm00001d030266_T031:2 Zm00001d030266_T063:2 Zm00001d030266_T035:2 Zm00001d030266_T085:2 Zm00001d030266_T052:2 Zm00001d030266_T080:2 Zm00001d030266_T013:2 Zm00001d030266_T018:2 Zm00001d030266_T027:1 Zm00001d030266_T096:2 Zm00001d030266_T068:2 Zm00001d030266_T072:2 Zm00001d030266_T092:2 Zm00001d030266_T001:2 Zm00001d030266_T056:2 Zm00001d030266_T090:2 Zm00001d030266_T073:2 Zm00001d030266_T054:2 Zm00001d030266_T083:2 Zm00001d030266_T016:2 Zm00001d030266_T087:2 Zm00001d030266_T021:2 Zm00001d030266_T025:2 Zm00001d030266_T036:2 Zm00001d030266_T061:2 Zm00001d030266_T047:2 Zm00001d030266_T039:2 Zm00001d030266_T014:2 Zm00001d030266_T011:3 Zm00001d030266_T048:2 Zm00001d030266_T005:2 Zm00001d030266_T041:2 Zm00001d030266_T023:2 Zm00001d030266_T089:2 Zm00001d030266_T066:2

			
						 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  
						
							AGGACGTATTCTTGAGACAATCCTCAGCCTTAGATTTCTCATGTTTCAGTATGGCATTGTGTAC
AAGCTTAAAATTACAGATCATAATACTTCTCTTGCAggactgttgaggactttgatgactggac
aaactggttactttataaaggtggagttggtgtaaagggcgacaacagttgggaatcttggtgg
gatgagga

						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
						
							GGACTGTTGAGGACTTTGATGACTGGACAAACTGGTTACTTTATAAAGGTGGAGTTGGTGTAAA
GGGCGACAACAGTTGGGAATCTTGGTGGGATGAGGAGCAGGTCAGTAGCAATTTACTTGTGTTT
CAACTATATGTTTGAGCCCTCAGTGGTTTGTTCCTTTCACTTACAACAATACGTATAATTGTAT
ATACAGGCGCATATCCAGACATTCAGAGGACGTATTCTTGAGACAATCCTCAGCCTTAGATTTC
TCATGTTTCAGTATGGCATTGTGTACAAGCTTAAAATTACAGATCATAATACTTCTCTTGCA

Sequences
Splice junction sequence	AGGACGTATTCTTGAGACAATCCTCAGCCTTAGATTTCTCATGTTTCAGTATGGCATTGTGTAC AAGCTTAAAATTACAGATCATAATACTTCTCTTGCAggactgttgaggactttgatgactggac aaactggttactttataaaggtggagttggtgtaaagggcgacaacagttgggaatcttggtgg gatgagga
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	GGACTGTTGAGGACTTTGATGACTGGACAAACTGGTTACTTTATAAAGGTGGAGTTGGTGTAAA GGGCGACAACAGTTGGGAATCTTGGTGGGATGAGGAGCAGGTCAGTAGCAATTTACTTGTGTTT CAACTATATGTTTGAGCCCTCAGTGGTTTGTTCCTTTCACTTACAACAATACGTATAATTGTAT ATACAGGCGCATATCCAGACATTCAGAGGACGTATTCTTGAGACAATCCTCAGCCTTAGATTTC TCATGTTTCAGTATGGCATTGTGTACAAGCTTAAAATTACAGATCATAATACTTCTCTTGCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.166140723

Conservation Information
Conserved circRNAs	NA
PMCS	0.166140723

			
						 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; Tang et al., 2018

circRNA

Detail information of Zm00001d030266_circ_g.5

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