Plant Circular RNA Database

Detail information of Zm00001d019947_circ_g.6

			
						 General Information
					
						CircRNA Name
						Zm00001d019947_circ_g.6
					
						ID in PlantcircBase
						zma_circ_009298
					
						Alias
						zma_circ_0002753
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 78827102-78832805  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d019947						
					
						Parent gene annotation
						
							hydrolases acting on ester bonds
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d019947_circ_g.2 Zm00001d019947_circ_g.3 Zm00001d019947_circ_g.4 Zm00001d019947_circ_g.5 Zm00001d019947_circ_g.7 Zm00001d019947_circ_g.8 Zm00001d019947_circ_g.9 						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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
						Zm00001d019947_T013:8
Zm00001d019947_T007:8
Zm00001d019947_T040:7
Zm00001d019947_T028:9
Zm00001d019947_T019:8
Zm00001d019947_T004:8
Zm00001d019947_T017:8
Zm00001d019947_T006:7
Zm00001d019947_T022:9
Zm00001d019947_T002:7
Zm00001d019947_T014:8
Zm00001d019947_T023:9
Zm00001d019947_T032:7
Zm00001d019947_T016:9
Zm00001d019947_T001:2
Zm00001d019947_T025:8
Zm00001d019947_T030:9
Zm00001d019947_T037:8
Zm00001d019947_T024:7
Zm00001d019947_T033:9
Zm00001d019947_T015:7
Zm00001d019947_T035:8
Zm00001d019947_T012:8
Zm00001d019947_T041:8
Zm00001d019947_T010:8

General Information
CircRNA Name	Zm00001d019947_circ_g.6
ID in PlantcircBase	zma_circ_009298
Alias	zma_circ_0002753
Organism	Zea mays
Position	chr7: 78827102-78832805 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d019947
Parent gene annotation	hydrolases acting on ester bonds
Parent gene strand	+
Alternative splicing	Zm00001d019947_circ_g.2 Zm00001d019947_circ_g.3 Zm00001d019947_circ_g.4 Zm00001d019947_circ_g.5 Zm00001d019947_circ_g.7 Zm00001d019947_circ_g.8 Zm00001d019947_circ_g.9
Support reads	NA
Tissues	leaf, root
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	Zm00001d019947_T013:8 Zm00001d019947_T007:8 Zm00001d019947_T040:7 Zm00001d019947_T028:9 Zm00001d019947_T019:8 Zm00001d019947_T004:8 Zm00001d019947_T017:8 Zm00001d019947_T006:7 Zm00001d019947_T022:9 Zm00001d019947_T002:7 Zm00001d019947_T014:8 Zm00001d019947_T023:9 Zm00001d019947_T032:7 Zm00001d019947_T016:9 Zm00001d019947_T001:2 Zm00001d019947_T025:8 Zm00001d019947_T030:9 Zm00001d019947_T037:8 Zm00001d019947_T024:7 Zm00001d019947_T033:9 Zm00001d019947_T015:7 Zm00001d019947_T035:8 Zm00001d019947_T012:8 Zm00001d019947_T041:8 Zm00001d019947_T010:8

			
						 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  
						
							CATCATTCCAAATATATACTCAGAGACTGTAGTGGTTGATTCATCACCTGCCTTTTGGGATTCA
CCTGAGGGGACTGACAAAACTACAGTACTGATTCTGattaggtcaaggttggcatcattggatg
gaattgtgccttctactcacggctttatggtaggaagctccagtatgaagaatgtttggttatc
catggaac

									
								

					

						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: 1232
Transcript exons: 78827102-78827239,78827328-78827514,78828267-78828412,78
828531-78828713,78831013-78831123,78832056-78832179,7883
2218-78832396,78832642-78832805
ATTAGGTCAAGGTTGGCATCATTGGATGGAATTGTGCCTTCTACTCACGGCTTTATGGTAGGAA
GCTCCAGTATGAAGAATGTTTGGTTATCCATGGAACATCAATCTATCCTATGGTGTAATCAATT
AGCTGTACAGGTTGCACACACTCTTCTTAGCATAATAGATCCTGTTGACAGGCAGCCATTTTCA
AGCACACAAAAAAGAGTTTTTGTGTTCACAAAAATGCTCCAAAGTGCAGTTCCTCAGTCTCTGA
GTTCAATGACTCATGTTCCTGCTTCTCTGTCACGAAATTTACCTGCCAATGAGAATCAGGATGC
TGGCGAACTACACAAAAAAGATTCACTTTCTTGCCCATCATCCACTGAATGGACTAGTGATGGC
CTTGAAAAGGACCTGTATATTCAATCAAATTCTGTTACTGTTTTAGCCATGGATGGCAGGAGAA
GATGGTTAGATATTAAAAAGCTGGGATCAAATGGCAGAGGACACTTTGTTTTTGTAACAAATCT
TGCCCCTTGTTCTGGAGTAAGGATTCACTTGTGGCCAGAAAAACATCATTCGCCTGTGCAAAAT
GAATTACCTGCCAGTAAAAAGATAGTGGAAGTTACATCAAAGATGGTCCAAATTCCTGCAGGAC
CTGCTCCAAAACAGGTTGAGCCTGGCAGTCAAACTGAGCAACCACCTCCTTCTGCATTTCTTCT
ACTGAGTCCAGGAGAAATGAGTGGTTTCAGATTCATGACTATATCAGTAGCACCTCGACCGACA
ATTTCAGGTAGGCCTCCCCCAGCAGCCTCTATGGCAGTGGGGCAGTTCTTCAGTCCTGAGGAAG
GGGCAAGTTCATTTTCTATTGGTACAATAATCCGCTCCAGCTTTGCTCCCAAAGTTAAATATTG
GTTGAATCTTATAGTTTGTGATCTTAGGAAATATTTCTGTTGGAGGATCACCCATTGGCTCTAA
ACTTGTCATTTTCTGCAAGCCTTGGCCTTCTACCAGTAACTTTATCACTGAAAACTGCCGGATG
TGGAATAAAAAATCCTGGTGATCAAATGGAAGCTGAGAGAAATAACCTTTGTAAATTGCGGTGC
TTTCCGCCTGTTGCCTTGGCATGGGATTCTGTATCTGGCCTGCACATCATTCCAAATATATACT
CAGAGACTGTAGTGGTTGATTCATCACCTGCCTTTTGGGATTCACCTGAGGGGACTGACAAAAC
TACAGTACTGATTCTG
						
					

						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	CATCATTCCAAATATATACTCAGAGACTGTAGTGGTTGATTCATCACCTGCCTTTTGGGATTCA CCTGAGGGGACTGACAAAACTACAGTACTGATTCTGattaggtcaaggttggcatcattggatg gaattgtgccttctactcacggctttatggtaggaagctccagtatgaagaatgtttggttatc catggaac
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: 1232 Transcript exons: 78827102-78827239,78827328-78827514,78828267-78828412,78 828531-78828713,78831013-78831123,78832056-78832179,7883 2218-78832396,78832642-78832805 ATTAGGTCAAGGTTGGCATCATTGGATGGAATTGTGCCTTCTACTCACGGCTTTATGGTAGGAA GCTCCAGTATGAAGAATGTTTGGTTATCCATGGAACATCAATCTATCCTATGGTGTAATCAATT AGCTGTACAGGTTGCACACACTCTTCTTAGCATAATAGATCCTGTTGACAGGCAGCCATTTTCA AGCACACAAAAAAGAGTTTTTGTGTTCACAAAAATGCTCCAAAGTGCAGTTCCTCAGTCTCTGA GTTCAATGACTCATGTTCCTGCTTCTCTGTCACGAAATTTACCTGCCAATGAGAATCAGGATGC TGGCGAACTACACAAAAAAGATTCACTTTCTTGCCCATCATCCACTGAATGGACTAGTGATGGC CTTGAAAAGGACCTGTATATTCAATCAAATTCTGTTACTGTTTTAGCCATGGATGGCAGGAGAA GATGGTTAGATATTAAAAAGCTGGGATCAAATGGCAGAGGACACTTTGTTTTTGTAACAAATCT TGCCCCTTGTTCTGGAGTAAGGATTCACTTGTGGCCAGAAAAACATCATTCGCCTGTGCAAAAT GAATTACCTGCCAGTAAAAAGATAGTGGAAGTTACATCAAAGATGGTCCAAATTCCTGCAGGAC CTGCTCCAAAACAGGTTGAGCCTGGCAGTCAAACTGAGCAACCACCTCCTTCTGCATTTCTTCT ACTGAGTCCAGGAGAAATGAGTGGTTTCAGATTCATGACTATATCAGTAGCACCTCGACCGACA ATTTCAGGTAGGCCTCCCCCAGCAGCCTCTATGGCAGTGGGGCAGTTCTTCAGTCCTGAGGAAG GGGCAAGTTCATTTTCTATTGGTACAATAATCCGCTCCAGCTTTGCTCCCAAAGTTAAATATTG GTTGAATCTTATAGTTTGTGATCTTAGGAAATATTTCTGTTGGAGGATCACCCATTGGCTCTAA ACTTGTCATTTTCTGCAAGCCTTGGCCTTCTACCAGTAACTTTATCACTGAAAACTGCCGGATG TGGAATAAAAAATCCTGGTGATCAAATGGAAGCTGAGAGAAATAACCTTTGTAAATTGCGGTGC TTTCCGCCTGTTGCCTTGGCATGGGATTCTGTATCTGGCCTGCACATCATTCCAAATATATACT CAGAGACTGTAGTGGTTGATTCATCACCTGCCTTTTGGGATTCACCTGAGGGGACTGACAAAAC TACAGTACTGATTCTG
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
						0.131491634

Conservation Information
Conserved circRNAs	NA
PMCS	0.131491634

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							78832090-78831226(+)
						
						Potential amino acid sequence
						
							MAVGQFFSPEEGASSFSIGTIIRSSFAPKEIFLLEDHPLALNLSFSASLGLLPVTLSLKTAGCG
IKNPGDQMEAERNNLCKLRCFPPVALAWDSVSGLHIIPNIYSETVVVDSSPAFWDSPEGTDKTT
VLILIRSRLASLDGIVPSTHGFMVGSSSMKNVWLSMEHQSILWCNQLAVQVAHTLLSIIDPVDR
QPFSSTQKRVFVFTKMLQSAVPQSLSSMTHVPASLSRNLPANENQDAGELHKKDSLSCPSSTEW
TSDGLEKDLYIQSNSVTVLAMDGRRRWLDIKKLGSNGRGHFVFVTNLAPCSGVRIHLWPEKHHS
PVQNELPASKKIVEVTSKMVQIPAGPAPKQVEPGSQTEQPPPSAFLLLSPGEMSGFRFMTISVA
PRPDNGMSI*(+)
						
						Sponge-miRNAs
						
							zma-miR171f-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	78832090-78831226(+)
Potential amino acid sequence	MAVGQFFSPEEGASSFSIGTIIRSSFAPKEIFLLEDHPLALNLSFSASLGLLPVTLSLKTAGCG IKNPGDQMEAERNNLCKLRCFPPVALAWDSVSGLHIIPNIYSETVVVDSSPAFWDSPEGTDKTT VLILIRSRLASLDGIVPSTHGFMVGSSSMKNVWLSMEHQSILWCNQLAVQVAHTLLSIIDPVDR QPFSSTQKRVFVFTKMLQSAVPQSLSSMTHVPASLSRNLPANENQDAGELHKKDSLSCPSSTEW TSDGLEKDLYIQSNSVTVLAMDGRRRWLDIKKLGSNGRGHFVFVTNLAPCSGVRIHLWPEKHHS PVQNELPASKKIVEVTSKMVQIPAGPAPKQVEPGSQTEQPPPSAFLLLSPGEMSGFRFMTISVA PRPDNGMSI*(+)
Sponge-miRNAs	zma-miR171f-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d019947_circ_g.6

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