Plant Circular RNA Database

Detail information of Zm00001d002715_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d002715_circ_g.7
					
						ID in PlantcircBase
						zma_circ_007095
					
						Alias
						Zm02circ00024
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 20214639-20223317  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d002715						
					
						Parent gene annotation
						
							BEACH domain-containing protein C2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.6 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10 Zm00001d002715_circ_g.11 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						Exon boundary  
						
							Yes-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-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
						Zm00001d002715_T019:10
Zm00001d002715_T012:10
Zm00001d002715_T003:10
Zm00001d002715_T031:10
Zm00001d002715_T023:10
Zm00001d002715_T021:10
Zm00001d002715_T001:9
Zm00001d002715_T007:10
Zm00001d002715_T035:10
Zm00001d002715_T016:10
Zm00001d002715_T005:10
Zm00001d002715_T026:10
Zm00001d002715_T037:9
Zm00001d002715_T014:10
Zm00001d002715_T029:10
Zm00001d002715_T039:10
Zm00001d002715_T027:10
Zm00001d002715_T011:10
Zm00001d002715_T025:10
Zm00001d002715_T028:10
Zm00001d002715_T022:10

General Information
CircRNA Name	Zm00001d002715_circ_g.7
ID in PlantcircBase	zma_circ_007095
Alias	Zm02circ00024
Organism	Zea mays
Position	chr2: 20214639-20223317 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d002715
Parent gene annotation	BEACH domain-containing protein C2
Parent gene strand	+
Alternative splicing	Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.6 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10 Zm00001d002715_circ_g.11
Support reads	NA
Tissues	leaf, endosperm
Exon boundary	Yes-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-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	Zm00001d002715_T019:10 Zm00001d002715_T012:10 Zm00001d002715_T003:10 Zm00001d002715_T031:10 Zm00001d002715_T023:10 Zm00001d002715_T021:10 Zm00001d002715_T001:9 Zm00001d002715_T007:10 Zm00001d002715_T035:10 Zm00001d002715_T016:10 Zm00001d002715_T005:10 Zm00001d002715_T026:10 Zm00001d002715_T037:9 Zm00001d002715_T014:10 Zm00001d002715_T029:10 Zm00001d002715_T039:10 Zm00001d002715_T027:10 Zm00001d002715_T011:10 Zm00001d002715_T025:10 Zm00001d002715_T028:10 Zm00001d002715_T022:10

			
						 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  
						
							GCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCCGCAGTTCAGCAG
TTGTTGCTGTGACATGTGACAAAGAGATAATTACTGagagctgagcagattcttaaaagaactc
agttgatggagcgctgggctaattgggaggtacacatacattgtcctgtgctatatgttggtag
ttttaata

									
								

					

						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: 1264
Transcript exons: 20214639-20214695,20214763-20214831,20214908-20214994,20
215064-20215180,20215352-20215501,20215611-20215695,2021
5772-20215892,20221412-20221508,20221595-20221708,202229
51-20223317
AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGATCAACA
ATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCAGTA
CCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAATCTGGATGACCCTTTG
TCGTATCGAGATCTTTCAAAGCCAATTGGAGCACTAAACCCTGAACGTCTAAAGAAGTTCCAAG
AACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCATTATGGTTCACATTACTCCAG
TGCTGGCACGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTG
CAAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTG
TTCTTGAAGACATGAGTGATGTAAAAGAGCTAGTACCCGAGATGTTTTACCTCCCTGAGGTATT
TACCAACATAAATGGCATTGACTTTGGGACAACTCAACTTGGAGGGAAGCTAGATTCCGTAGAA
TTGCCTCCCTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTG
AGCACGTCTCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGGATATAAACAGAGGGGCAA
AGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAGGGGACTGTTGACATTGAC
AAAATTACAAACCCAGTGGATCGGCGAGCTACACAAGATCAAATAGCTTACTTTGGACAAACAC
CATCTCAACTGCTGACTGTACCTCACATGAAGAGGAAGCCACTGGCGGAGGTCTTACAACTACA
GACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCACATTCAGATCGTTGCAAT
GTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTGTTGATGTAAATGCCCCAG
CAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGGTCAGGGAACACCTTTCCT
TTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTCATGCGCATTTTCAAAGGA
TCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCC
GCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTACTG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	GCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCCGCAGTTCAGCAG TTGTTGCTGTGACATGTGACAAAGAGATAATTACTGagagctgagcagattcttaaaagaactc agttgatggagcgctgggctaattgggaggtacacatacattgtcctgtgctatatgttggtag ttttaata
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: 1264 Transcript exons: 20214639-20214695,20214763-20214831,20214908-20214994,20 215064-20215180,20215352-20215501,20215611-20215695,2021 5772-20215892,20221412-20221508,20221595-20221708,202229 51-20223317 AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGATCAACA ATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCAGTA CCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAATCTGGATGACCCTTTG TCGTATCGAGATCTTTCAAAGCCAATTGGAGCACTAAACCCTGAACGTCTAAAGAAGTTCCAAG AACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCATTATGGTTCACATTACTCCAG TGCTGGCACGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTG CAAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTG TTCTTGAAGACATGAGTGATGTAAAAGAGCTAGTACCCGAGATGTTTTACCTCCCTGAGGTATT TACCAACATAAATGGCATTGACTTTGGGACAACTCAACTTGGAGGGAAGCTAGATTCCGTAGAA TTGCCTCCCTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTG AGCACGTCTCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGGATATAAACAGAGGGGCAA AGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAGGGGACTGTTGACATTGAC AAAATTACAAACCCAGTGGATCGGCGAGCTACACAAGATCAAATAGCTTACTTTGGACAAACAC CATCTCAACTGCTGACTGTACCTCACATGAAGAGGAAGCCACTGGCGGAGGTCTTACAACTACA GACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCACATTCAGATCGTTGCAAT GTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTGTTGATGTAAATGCCCCAG CAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGGTCAGGGAACACCTTTCCT TTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTCATGCGCATTTTCAAAGGA TCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCC GCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTACTG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103738645

Conservation Information
Conserved circRNAs	NA
PMCS	0.103738645

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20214673-20214643(+)
						
						Potential amino acid sequence
						
							MERWANWEINNFEYLMELNTLAGRSYNDITQYPVFPWVVADYKSRVLNLDDPLSYRDLSKPIGA
LNPERLKKFQERYSTFEDPIIPKFHYGSHYSSAGTVLYYLFRVEPFTTLSIQLQDGKFDHADRM
FSDLSGTWDSVLEDMSDVKELVPEMFYLPEVFTNINGIDFGTTQLGGKLDSVELPPWAENHVDF
VHKHRKALESEHVSAHLHEWIDLIFGYKQRGKEAIMANNVFFYITYEGTVDIDKITNPVDRRAT
QDQIAYFGQTPSQLLTVPHMKRKPLAEVLQLQTIFRNPSELKSYVLPHSDRCNVPASAMLVSND
SIVVVDVNAPAAHVALHQWQANTPDGQGTPFLFHHGRNSTNSTSGALMRIFKGSAGSAEDYGFP
RAIAFAASAIRSSAVVAVTCDKEIITES*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20214673-20214643(+)
Potential amino acid sequence	MERWANWEINNFEYLMELNTLAGRSYNDITQYPVFPWVVADYKSRVLNLDDPLSYRDLSKPIGA LNPERLKKFQERYSTFEDPIIPKFHYGSHYSSAGTVLYYLFRVEPFTTLSIQLQDGKFDHADRM FSDLSGTWDSVLEDMSDVKELVPEMFYLPEVFTNINGIDFGTTQLGGKLDSVELPPWAENHVDF VHKHRKALESEHVSAHLHEWIDLIFGYKQRGKEAIMANNVFFYITYEGTVDIDKITNPVDRRAT QDQIAYFGQTPSQLLTVPHMKRKPLAEVLQLQTIFRNPSELKSYVLPHSDRCNVPASAMLVSND SIVVVDVNAPAAHVALHQWQANTPDGQGTPFLFHHGRNSTNSTSGALMRIFKGSAGSAEDYGFP RAIAFAASAIRSSAVVAVTCDKEIITES*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d002715_circ_g.7

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