Plant Circular RNA Database

Detail information of Zm00001d044600_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d044600_circ_g.1
					

						ID in PlantcircBase
						zma_circ_001603
					

						Alias
						circ721
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 233106511-233107131  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d044600						
					

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

						Parent gene strand
						+
					

						Alternative splicing
						
							NA						
					

						Support reads
						4
					

						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
						Zm00001d044600_T092:3
Zm00001d044600_T076:3
Zm00001d044600_T003:3
Zm00001d044600_T083:3
Zm00001d044600_T068:3
Zm00001d044600_T112:3
Zm00001d044600_T017:3
Zm00001d044600_T080:3
Zm00001d044600_T002:3
Zm00001d044600_T107:3
Zm00001d044600_T095:3
Zm00001d044600_T045:3
Zm00001d044600_T027:3
Zm00001d044600_T102:3
Zm00001d044600_T023:3
Zm00001d044600_T042:3
Zm00001d044600_T025:3
Zm00001d044600_T020:3
Zm00001d044600_T031:3
Zm00001d044600_T065:3
Zm00001d044600_T033:3
Zm00001d044600_T029:3
Zm00001d044600_T052:3
Zm00001d044600_T063:3
Zm00001d044600_T070:3
Zm00001d044600_T016:3
Zm00001d044600_T026:3
Zm00001d044600_T058:3
Zm00001d044600_T019:3
Zm00001d044600_T081:3
Zm00001d044600_T075:3
Zm00001d044600_T071:3
Zm00001d044600_T109:3
Zm00001d044600_T090:3
Zm00001d044600_T021:3
Zm00001d044600_T013:3
Zm00001d044600_T106:3
Zm00001d044600_T030:3
Zm00001d044600_T073:3
Zm00001d044600_T018:3
Zm00001d044600_T011:3
Zm00001d044600_T099:3
Zm00001d044600_T043:3
Zm00001d044600_T015:3
Zm00001d044600_T041:3
Zm00001d044600_T032:3
Zm00001d044600_T101:3
Zm00001d044600_T088:3
Zm00001d044600_T087:3
Zm00001d044600_T034:3
Zm00001d044600_T046:3
Zm00001d044600_T078:3
Zm00001d044600_T072:2
Zm00001d044600_T098:3
Zm00001d044600_T050:3
Zm00001d044600_T044:3
Zm00001d044600_T061:3

					

			
		

General Information
CircRNA Name	Zm00001d044600_circ_g.1
ID in PlantcircBase	zma_circ_001603
Alias	circ721
Organism	Zea mays
Position	chr3: 233106511-233107131 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d044600
Parent gene annotation	RNA binding (RRM/RBD/RNP motifs) family protein
Parent gene strand	+
Alternative splicing	NA
Support reads	4
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	Zm00001d044600_T092:3 Zm00001d044600_T076:3 Zm00001d044600_T003:3 Zm00001d044600_T083:3 Zm00001d044600_T068:3 Zm00001d044600_T112:3 Zm00001d044600_T017:3 Zm00001d044600_T080:3 Zm00001d044600_T002:3 Zm00001d044600_T107:3 Zm00001d044600_T095:3 Zm00001d044600_T045:3 Zm00001d044600_T027:3 Zm00001d044600_T102:3 Zm00001d044600_T023:3 Zm00001d044600_T042:3 Zm00001d044600_T025:3 Zm00001d044600_T020:3 Zm00001d044600_T031:3 Zm00001d044600_T065:3 Zm00001d044600_T033:3 Zm00001d044600_T029:3 Zm00001d044600_T052:3 Zm00001d044600_T063:3 Zm00001d044600_T070:3 Zm00001d044600_T016:3 Zm00001d044600_T026:3 Zm00001d044600_T058:3 Zm00001d044600_T019:3 Zm00001d044600_T081:3 Zm00001d044600_T075:3 Zm00001d044600_T071:3 Zm00001d044600_T109:3 Zm00001d044600_T090:3 Zm00001d044600_T021:3 Zm00001d044600_T013:3 Zm00001d044600_T106:3 Zm00001d044600_T030:3 Zm00001d044600_T073:3 Zm00001d044600_T018:3 Zm00001d044600_T011:3 Zm00001d044600_T099:3 Zm00001d044600_T043:3 Zm00001d044600_T015:3 Zm00001d044600_T041:3 Zm00001d044600_T032:3 Zm00001d044600_T101:3 Zm00001d044600_T088:3 Zm00001d044600_T087:3 Zm00001d044600_T034:3 Zm00001d044600_T046:3 Zm00001d044600_T078:3 Zm00001d044600_T072:2 Zm00001d044600_T098:3 Zm00001d044600_T050:3 Zm00001d044600_T044:3 Zm00001d044600_T061:3

			
						 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  
						
							TCCATTAATTGGCTGTCATGCAGAATACCACCAGTCAGCCCAGACTTTCACCTCCAAACAGTAG
TTCTGGGAGGTCCACGCTTCCATCAGCTGCCTCATGgacatgtgggaatccagattgtctctat
ttgcatgatgtaggcagtcaggaggatagttttactaaagatgagatcatctcagcatatacaa
ggtagtac

						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
						
							GACATGTGGGAATCCAGATTGTCTCTATTTGCATGATGTAGGCAGTCAGGAGGATAGTTTTACT
AAAGATGAGATCATCTCAGCATATACAAGGTAGTACTGAGCTATTTTTAACATATGTTGTGGAA
CCTTAGTTTCTTGTGTGCTTCAATGTGGATGTTTTATTATATTAAATTAAGTAATGCTTTGATG
GACTTTGTGCTAAAGCCTAAAACGATTTTGATAGTTTCAATTGCTACTTTTCATTCACTCTTCT
ATATTTCTGTCAGGACTAGAGTCCCTCAGATGGCATCTGGTGTTTCGCAAAGACGCACAGGCAC
TGTGTTGCCTCCTCCAGGAGATGATTTCTCTTACAGTGCGGTGGTTTCAGCCAAGCATACATTT
AAGAATGGAACACTTGTATGTTCTTTATGCTGAAAATTCAAAATGCACTGGAAGACATGTCAAT
TTTTTATACTTCTACGCTGCTTTCTAGTCTAGGTTTATTCTCTTGCATTTCATCACGTTTTTGG
CTTACATACTCCATTAATTGGCTGTCATGCAGAATACCACCAGTCAGCCCAGACTTTCACCTCC
AAACAGTAGTTCTGGGAGGTCCACGCTTCCATCAGCTGCCTCATG

Sequences
Splice junction sequence	TCCATTAATTGGCTGTCATGCAGAATACCACCAGTCAGCCCAGACTTTCACCTCCAAACAGTAG TTCTGGGAGGTCCACGCTTCCATCAGCTGCCTCATGgacatgtgggaatccagattgtctctat ttgcatgatgtaggcagtcaggaggatagttttactaaagatgagatcatctcagcatatacaa ggtagtac
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	GACATGTGGGAATCCAGATTGTCTCTATTTGCATGATGTAGGCAGTCAGGAGGATAGTTTTACT AAAGATGAGATCATCTCAGCATATACAAGGTAGTACTGAGCTATTTTTAACATATGTTGTGGAA CCTTAGTTTCTTGTGTGCTTCAATGTGGATGTTTTATTATATTAAATTAAGTAATGCTTTGATG GACTTTGTGCTAAAGCCTAAAACGATTTTGATAGTTTCAATTGCTACTTTTCATTCACTCTTCT ATATTTCTGTCAGGACTAGAGTCCCTCAGATGGCATCTGGTGTTTCGCAAAGACGCACAGGCAC TGTGTTGCCTCCTCCAGGAGATGATTTCTCTTACAGTGCGGTGGTTTCAGCCAAGCATACATTT AAGAATGGAACACTTGTATGTTCTTTATGCTGAAAATTCAAAATGCACTGGAAGACATGTCAAT TTTTTATACTTCTACGCTGCTTTCTAGTCTAGGTTTATTCTCTTGCATTTCATCACGTTTTTGG CTTACATACTCCATTAATTGGCTGTCATGCAGAATACCACCAGTCAGCCCAGACTTTCACCTCC AAACAGTAGTTCTGGGAGGTCCACGCTTCCATCAGCTGCCTCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.029791197

Conservation Information
Conserved circRNAs	NA
PMCS	0.029791197

			
						 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 Zm00001d044600_circ_g.1

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