Plant Circular RNA Database

Detail information of Zm00001d030891_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d030891_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006661
					
						Alias
						zma_circ_0000296
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 166010805-166011313  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d030891						
					
						Parent gene annotation
						
							Homeodomain-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							CT-AC							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
						Zm00001d030891_T001:2

General Information
CircRNA Name	Zm00001d030891_circ_g.1
ID in PlantcircBase	zma_circ_006661
Alias	zma_circ_0000296
Organism	Zea mays
Position	chr1: 166010805-166011313 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Zm00001d030891
Parent gene annotation	Homeodomain-like superfamily protein
Parent gene strand	-
Alternative splicing	NA
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	CT-AC 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	Zm00001d030891_T001:2

			
						 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  
						
							CGCTGGCGCTGGCTCCGGGCTTACCCGCCGCGTCGCCGGATGGCCTCGCCAGCGTCGGCGCCGG
CGGGCTGGCGGCCAGTGCCACGAACGCGCTGGACACctgcaggtggctcttgacctcgtcgttg
gtgagcccgtccaccttcatcagctctctgatctgcttcggcgtggcgactgcagcacgcacca
cggccacg

						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
						
							CTGCAGGTGGCTCTTGACCTCGTCGTTGGTGAGCCCGTCCACCTTCATCAGCTCTCTGATCTGC
TTCGGCGTGGCGACTGCAGCACGCACCACGGCCACGATTCAGCAAGAGGATGGAGAGACCACCT
CAAGAAACAGACACAGCGCACTACAACTACAACGACGGCGGAGCCAGAGGCCCCAGAGCAGGGC
GGACAACCGACGGATCCCTTACCTTGCGCGCCGCCGAGCCGCTGCAGGGCGGCGACGAAGCGGC
GGTGCAGCCCGGGCGACCAGCACCTCCTCGCCTTCCTCTGCTGCGCATGTTGCCGGCGGTGCGC
CCCGGCCGCGTCCGTGACGGCGCTGCTGGCGGCGCTCGGAGAGGCGGCGGCCGCCGGGGACGAG
AGGGACAGGTCCGCGACCGGCATGGCGCTGGCGCTGGCTCCGGGCTTACCCGCCGCGTCGCCGG
ATGGCCTCGCCAGCGTCGGCGCCGGCGGGCTGGCGGCCAGTGCCACGAACGCGCTGGACAC

Sequences
Splice junction sequence	CGCTGGCGCTGGCTCCGGGCTTACCCGCCGCGTCGCCGGATGGCCTCGCCAGCGTCGGCGCCGG CGGGCTGGCGGCCAGTGCCACGAACGCGCTGGACACctgcaggtggctcttgacctcgtcgttg gtgagcccgtccaccttcatcagctctctgatctgcttcggcgtggcgactgcagcacgcacca cggccacg
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	CTGCAGGTGGCTCTTGACCTCGTCGTTGGTGAGCCCGTCCACCTTCATCAGCTCTCTGATCTGC TTCGGCGTGGCGACTGCAGCACGCACCACGGCCACGATTCAGCAAGAGGATGGAGAGACCACCT CAAGAAACAGACACAGCGCACTACAACTACAACGACGGCGGAGCCAGAGGCCCCAGAGCAGGGC GGACAACCGACGGATCCCTTACCTTGCGCGCCGCCGAGCCGCTGCAGGGCGGCGACGAAGCGGC GGTGCAGCCCGGGCGACCAGCACCTCCTCGCCTTCCTCTGCTGCGCATGTTGCCGGCGGTGCGC CCCGGCCGCGTCCGTGACGGCGCTGCTGGCGGCGCTCGGAGAGGCGGCGGCCGCCGGGGACGAG AGGGACAGGTCCGCGACCGGCATGGCGCTGGCGCTGGCTCCGGGCTTACCCGCCGCGTCGCCGG ATGGCCTCGCCAGCGTCGGCGCCGGCGGGCTGGCGGCCAGTGCCACGAACGCGCTGGACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.092156639

Conservation Information
Conserved circRNAs	NA
PMCS	0.092156639

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							166011108-166011310(+)
166011211-166011310(+)
166011254-166010818(+)
166011213-166010807(-)
						
					

						Potential amino acid sequence
						
							MLPAVRPGRVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCH
ERAGHLQVALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPA
VRPGRVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAG
HLQVALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPAVRPG
RVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAGHLQV
ALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPAVRPGRVRD
GAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAGH(+)
MALALAPGLPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAP
PSRCRAATKRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALA
LAPGLPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAPPSRC
RAATKRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALALAPG
LPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAPPSRCRAAT
KRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALALAPGLPAA
SPDGLASVGAGGLAASATNALD(+)
MASPASAPAGWRPVPRTRWTPAGGS*(+)
MPVADLSLSSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQ
VATPKQIRELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVA
DLSLSSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATP
KQIRELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVADLSL
SSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATPKQIR
ELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVADLSLSSPA
AAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATPKQIRELMK
VDGLTNDEVKSHLQ(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	166011108-166011310(+) 166011211-166011310(+) 166011254-166010818(+) 166011213-166010807(-)
Potential amino acid sequence	MLPAVRPGRVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCH ERAGHLQVALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPA VRPGRVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAG HLQVALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPAVRPG RVRDGAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAGHLQV ALDLVVGEPVHLHQLSDLLRRGDLRAAEPLQGGDEAAVQPGRPAPPRLPLLRMLPAVRPGRVRD GAAGGARRGGGRRGREGQVRDRHGAGAGSGLTRRVAGWPRQRRRRRAGGQCHERAGH(+) MALALAPGLPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAP PSRCRAATKRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALA LAPGLPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAPPSRC RAATKRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALALAPG LPAASPDGLASVGAGGLAASATNALDTCRWLLTSSLVSPSTFISSLICFGVATCAPPSRCRAAT KRRCSPGDQHLLAFLCCACCRRCAPAASVTALLAALGEAAAAGDERDRSATGMALALAPGLPAA SPDGLASVGAGGLAASATNALD(+) MASPASAPAGWRPVPRTRWTPAGGS*(+) MPVADLSLSSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQ VATPKQIRELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVA DLSLSSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATP KQIRELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVADLSL SSPAAAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATPKQIR ELMKVDGLTNDEVKSHLQVSSAFVALAASPPAPTLARPSGDAAGKPGASASAMPVADLSLSSPA AAASPSAASSAVTDAAGAHRRQHAQQRKARRCWSPGLHRRFVAALQRLGGAQVATPKQIRELMK VDGLTNDEVKSHLQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d030891_circ_g.1

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