Plant Circular RNA Database

Detail information of Zm00001d006323_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d006323_circ_g.1
					

						ID in PlantcircBase
						zma_circ_007343
					

						Alias
						zma_circ_0000893
					

						Organism
						
							Zea mays						
					

						Position
						
							chr2: 204596930-204598168  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d006323						
					

						Parent gene annotation
						
							Histone-lysine N-methyltransferase ATX4
							
					

						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  
						
							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
						Zm00001d006323_T053:3
Zm00001d006323_T002:3
Zm00001d006323_T084:3
Zm00001d006323_T149:3
Zm00001d006323_T161:3
Zm00001d006323_T062:3
Zm00001d006323_T072:3
Zm00001d006323_T129:3
Zm00001d006323_T163:3
Zm00001d006323_T003:3
Zm00001d006323_T155:3
Zm00001d006323_T033:3
Zm00001d006323_T088:3
Zm00001d006323_T097:3
Zm00001d006323_T119:3
Zm00001d006323_T075:3
Zm00001d006323_T086:3
Zm00001d006323_T042:3
Zm00001d006323_T122:3
Zm00001d006323_T090:3
Zm00001d006323_T112:3
Zm00001d006323_T051:3
Zm00001d006323_T152:3
Zm00001d006323_T077:3
Zm00001d006323_T063:3
Zm00001d006323_T059:3
Zm00001d006323_T123:3
Zm00001d006323_T044:3
Zm00001d006323_T074:3
Zm00001d006323_T094:3
Zm00001d006323_T137:3
Zm00001d006323_T140:3
Zm00001d006323_T001:3
Zm00001d006323_T026:3
Zm00001d006323_T018:3
Zm00001d006323_T039:3
Zm00001d006323_T157:2
Zm00001d006323_T065:3
Zm00001d006323_T013:3
Zm00001d006323_T049:3
Zm00001d006323_T131:3
Zm00001d006323_T164:3
Zm00001d006323_T034:3
Zm00001d006323_T047:3
Zm00001d006323_T038:3
Zm00001d006323_T015:3
Zm00001d006323_T022:3
Zm00001d006323_T005:3
Zm00001d006323_T060:3
Zm00001d006323_T069:3
Zm00001d006323_T158:3
Zm00001d006323_T037:3
Zm00001d006323_T108:3
Zm00001d006323_T030:4
Zm00001d006323_T067:3
Zm00001d006323_T080:3
Zm00001d006323_T166:2
Zm00001d006323_T133:3
Zm00001d006323_T008:3
Zm00001d006323_T096:3
Zm00001d006323_T134:3
Zm00001d006323_T114:3
Zm00001d006323_T102:3
Zm00001d006323_T110:3
Zm00001d006323_T046:3
Zm00001d006323_T057:3
Zm00001d006323_T055:3
Zm00001d006323_T004:3
Zm00001d006323_T118:3
Zm00001d006323_T058:3
Zm00001d006323_T136:3
Zm00001d006323_T146:3
Zm00001d006323_T098:3
Zm00001d006323_T148:3
Zm00001d006323_T101:3
Zm00001d006323_T100:3
Zm00001d006323_T064:3
Zm00001d006323_T028:3
Zm00001d006323_T070:3
Zm00001d006323_T162:3
Zm00001d006323_T138:3
Zm00001d006323_T141:3
Zm00001d006323_T135:3
Zm00001d006323_T103:3
Zm00001d006323_T139:3
Zm00001d006323_T031:3
Zm00001d006323_T127:3
Zm00001d006323_T091:3
Zm00001d006323_T016:3
Zm00001d006323_T105:3
Zm00001d006323_T081:3
Zm00001d006323_T025:3
Zm00001d006323_T020:3
Zm00001d006323_T010:3
Zm00001d006323_T150:3

					

			
		

General Information
CircRNA Name	Zm00001d006323_circ_g.1
ID in PlantcircBase	zma_circ_007343
Alias	zma_circ_0000893
Organism	Zea mays
Position	chr2: 204596930-204598168 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d006323
Parent gene annotation	Histone-lysine N-methyltransferase ATX4
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	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	Zm00001d006323_T053:3 Zm00001d006323_T002:3 Zm00001d006323_T084:3 Zm00001d006323_T149:3 Zm00001d006323_T161:3 Zm00001d006323_T062:3 Zm00001d006323_T072:3 Zm00001d006323_T129:3 Zm00001d006323_T163:3 Zm00001d006323_T003:3 Zm00001d006323_T155:3 Zm00001d006323_T033:3 Zm00001d006323_T088:3 Zm00001d006323_T097:3 Zm00001d006323_T119:3 Zm00001d006323_T075:3 Zm00001d006323_T086:3 Zm00001d006323_T042:3 Zm00001d006323_T122:3 Zm00001d006323_T090:3 Zm00001d006323_T112:3 Zm00001d006323_T051:3 Zm00001d006323_T152:3 Zm00001d006323_T077:3 Zm00001d006323_T063:3 Zm00001d006323_T059:3 Zm00001d006323_T123:3 Zm00001d006323_T044:3 Zm00001d006323_T074:3 Zm00001d006323_T094:3 Zm00001d006323_T137:3 Zm00001d006323_T140:3 Zm00001d006323_T001:3 Zm00001d006323_T026:3 Zm00001d006323_T018:3 Zm00001d006323_T039:3 Zm00001d006323_T157:2 Zm00001d006323_T065:3 Zm00001d006323_T013:3 Zm00001d006323_T049:3 Zm00001d006323_T131:3 Zm00001d006323_T164:3 Zm00001d006323_T034:3 Zm00001d006323_T047:3 Zm00001d006323_T038:3 Zm00001d006323_T015:3 Zm00001d006323_T022:3 Zm00001d006323_T005:3 Zm00001d006323_T060:3 Zm00001d006323_T069:3 Zm00001d006323_T158:3 Zm00001d006323_T037:3 Zm00001d006323_T108:3 Zm00001d006323_T030:4 Zm00001d006323_T067:3 Zm00001d006323_T080:3 Zm00001d006323_T166:2 Zm00001d006323_T133:3 Zm00001d006323_T008:3 Zm00001d006323_T096:3 Zm00001d006323_T134:3 Zm00001d006323_T114:3 Zm00001d006323_T102:3 Zm00001d006323_T110:3 Zm00001d006323_T046:3 Zm00001d006323_T057:3 Zm00001d006323_T055:3 Zm00001d006323_T004:3 Zm00001d006323_T118:3 Zm00001d006323_T058:3 Zm00001d006323_T136:3 Zm00001d006323_T146:3 Zm00001d006323_T098:3 Zm00001d006323_T148:3 Zm00001d006323_T101:3 Zm00001d006323_T100:3 Zm00001d006323_T064:3 Zm00001d006323_T028:3 Zm00001d006323_T070:3 Zm00001d006323_T162:3 Zm00001d006323_T138:3 Zm00001d006323_T141:3 Zm00001d006323_T135:3 Zm00001d006323_T103:3 Zm00001d006323_T139:3 Zm00001d006323_T031:3 Zm00001d006323_T127:3 Zm00001d006323_T091:3 Zm00001d006323_T016:3 Zm00001d006323_T105:3 Zm00001d006323_T081:3 Zm00001d006323_T025:3 Zm00001d006323_T020:3 Zm00001d006323_T010:3 Zm00001d006323_T150:3

			
						 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  
						
							GTTGCTCCACTTTTACACAACGATCATCATTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTG
TGACTCATGTCCCATTAATGGACTGCACTGCAGAAGatccttctccaaagcaagcaacaaagat
cagcaaaagtctatccgaacataatgaaccatccattagtaccggaaataagaagcaaccactt
gaagttgt

									
								

					

						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: 1031
Transcript exons: 204596930-204597555,204597670-204597950,204598045-204598
168
ATCCTTCTCCAAAGCAAGCAACAAAGATCAGCAAAAGTCTATCCGAACATAATGAACCATCCAT
TAGTACCGGAAATAAGAAGCAACCACTTGAAGTTGTTAATGGCATGAAGCGTTCTGAAGGTGAT
GAGCTTACAGATGATACATCCAAGAATTCATTTATCTCATTATTTCTTTCACACCTTGAGAGGA
ATAATACACCCGAACCCATCGATGACATTCTCAACAGTAATGAGCACTATCTTCCTAAGGCCCT
GGATGTTGCATGTGGTTCTGATCATCCAGAAAGTGCCACTAGACAGATTGAAACAAGGGTGCCT
AATGATAAGCACTCAAAGTTGGCCTCAGCCATTGTTCATACGAAAAGGAGATCAGAGGGCATTT
CTCTTTCAGTGGCTTCTTCTGGATATAATCCTCAAGATGCATCCCATGCTAATAGTCAGGAACA
CTTGATTCATGGTGATTCCTTGTCACATTTGCTGCCTAGTCAACCTAACACCGGAATCTCGAAA
ATTTCTGCAAGGGTTTCATGTCATGCAAATTGCATGAGCTGCATTCACGTGGGTAATAAATCCC
ATCAGGTTGCACATGGTGAGATTGGGGTTCCCTGTTTCTATGATAAAATGGGGCCATGGTACTT
TTGAGCGAGTTGATGACTGCACACATAGAAGTTTGAGAGCTTTCACAAAAATCAGTTGCGATAA
TGGGAAATCTTGTTGTTCTTCTCGTGAGCTTCTACCTAGCTTTTGCCAAAATGATCAGCCAACA
TTGGGAAAATCGATTTGTGGATGCTGTTGCAAAATTCAGGAAGATGCTTCCAAGCTTGGTTTTA
TACCTGGTCACATGTGCAGAACTCATTTTTCTAGTGATGTTGGTCCAGTTCTAGCCAATAAGCC
TACTATTGAAGGGCTAGATGAATTTTGTGCTTGCAGTTGCTCCACTTTTACACAACGATCATCA
TTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTGTGACTCATGTCCCATTAATGGACTGCACT
GCAGAAG
						
					

						Genomic sequence
						
							ATCCTTCTCCAAAGCAAGCAACAAAGATCAGCAAAAGTCTATCCGAACATAATGAACCATCCAT
TAGTACCGGAAATAAGAAGCAACCACTTGAAGTTGTTAATGGCATGAAGCGTTCTGAAGGTGAT
GAGCTTACAGATGATACATCCAAGAATTCATTTATCTCATTATTTCTTTCACACCTTGAGAGGA
ATAATACACCCGAACCCATCGATGACATTCTCAACAGTAATGAGCACTATCTTCCTAAGGCCCT
GGATGTTGCATGTGGTTCTGATCATCCAGAAAGTGCCACTAGACAGATTGAAACAAGGGTGCCT
AATGATAAGCACTCAAAGTTGGCCTCAGCCATTGTTCATACGAAAAGGAGATCAGAGGGCATTT
CTCTTTCAGTGGCTTCTTCTGGATATAATCCTCAAGATGCATCCCATGCTAATAGTCAGGAACA
CTTGATTCATGGTGATTCCTTGTCACATTTGCTGCCTAGTCAACCTAACACCGGAATCTCGAAA
ATTTCTGCAAGGGTTTCATGTCATGCAAATTGCATGAGCTGCATTCACGTGGGTAATAAATCCC
ATCAGGTTGCACATGGTGAGATTGGGGTTCCCTGTTTCTATGATAAAATGGTAAGTTGACCTTG
TTGCACATAGCAGAAGCAACAACAAGCACATCCATCAAAACGGTTGTTTTTTACTTCTTTATTA
CTTTTCTATAATCCATGCATTTTTTTTGCAGGCCAGGGGCCATGGTACTTTTGAGCGAGTTGAT
GACTGCACACATAGAAGTTTGAGAGCTTTCACAAAAATCAGTTGCGATAATGGGAAATCTTGTT
GTTCTTCTCGTGAGCTTCTACCTAGCTTTTGCCAAAATGATCAGCCAACATTGGGAAAATCGAT
TTGTGGATGCTGTTGCAAAATTCAGGAAGATGCTTCCAAGCTTGGTTTTATACCTGGTCACATG
TGCAGAACTCATTTTTCTAGTGATGTTGGTCCAGTTCTAGCCAATAAGCCTACTATTGAAGGTT
GCTTTCTTCATCTGCAATGGTTGTTTCTATGATGAACAACTATTTAAATGTTTCTAAGCTTTAA
TTCATTGTAAACCCTTTTTTGTTTTAGGGCTAGATGAATTTTGTGCTTGCAGTTGCTCCACTTT
TACACAACGATCATCATTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTGTGACTCATGTCCC
ATTAATGGACTGCACTGCAGAAG
						
					

			
		

Sequences
Splice junction sequence	GTTGCTCCACTTTTACACAACGATCATCATTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTG TGACTCATGTCCCATTAATGGACTGCACTGCAGAAGatccttctccaaagcaagcaacaaagat cagcaaaagtctatccgaacataatgaaccatccattagtaccggaaataagaagcaaccactt gaagttgt
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: 1031 Transcript exons: 204596930-204597555,204597670-204597950,204598045-204598 168 ATCCTTCTCCAAAGCAAGCAACAAAGATCAGCAAAAGTCTATCCGAACATAATGAACCATCCAT TAGTACCGGAAATAAGAAGCAACCACTTGAAGTTGTTAATGGCATGAAGCGTTCTGAAGGTGAT GAGCTTACAGATGATACATCCAAGAATTCATTTATCTCATTATTTCTTTCACACCTTGAGAGGA ATAATACACCCGAACCCATCGATGACATTCTCAACAGTAATGAGCACTATCTTCCTAAGGCCCT GGATGTTGCATGTGGTTCTGATCATCCAGAAAGTGCCACTAGACAGATTGAAACAAGGGTGCCT AATGATAAGCACTCAAAGTTGGCCTCAGCCATTGTTCATACGAAAAGGAGATCAGAGGGCATTT CTCTTTCAGTGGCTTCTTCTGGATATAATCCTCAAGATGCATCCCATGCTAATAGTCAGGAACA CTTGATTCATGGTGATTCCTTGTCACATTTGCTGCCTAGTCAACCTAACACCGGAATCTCGAAA ATTTCTGCAAGGGTTTCATGTCATGCAAATTGCATGAGCTGCATTCACGTGGGTAATAAATCCC ATCAGGTTGCACATGGTGAGATTGGGGTTCCCTGTTTCTATGATAAAATGGGGCCATGGTACTT TTGAGCGAGTTGATGACTGCACACATAGAAGTTTGAGAGCTTTCACAAAAATCAGTTGCGATAA TGGGAAATCTTGTTGTTCTTCTCGTGAGCTTCTACCTAGCTTTTGCCAAAATGATCAGCCAACA TTGGGAAAATCGATTTGTGGATGCTGTTGCAAAATTCAGGAAGATGCTTCCAAGCTTGGTTTTA TACCTGGTCACATGTGCAGAACTCATTTTTCTAGTGATGTTGGTCCAGTTCTAGCCAATAAGCC TACTATTGAAGGGCTAGATGAATTTTGTGCTTGCAGTTGCTCCACTTTTACACAACGATCATCA TTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTGTGACTCATGTCCCATTAATGGACTGCACT GCAGAAG
Genomic sequence	ATCCTTCTCCAAAGCAAGCAACAAAGATCAGCAAAAGTCTATCCGAACATAATGAACCATCCAT TAGTACCGGAAATAAGAAGCAACCACTTGAAGTTGTTAATGGCATGAAGCGTTCTGAAGGTGAT GAGCTTACAGATGATACATCCAAGAATTCATTTATCTCATTATTTCTTTCACACCTTGAGAGGA ATAATACACCCGAACCCATCGATGACATTCTCAACAGTAATGAGCACTATCTTCCTAAGGCCCT GGATGTTGCATGTGGTTCTGATCATCCAGAAAGTGCCACTAGACAGATTGAAACAAGGGTGCCT AATGATAAGCACTCAAAGTTGGCCTCAGCCATTGTTCATACGAAAAGGAGATCAGAGGGCATTT CTCTTTCAGTGGCTTCTTCTGGATATAATCCTCAAGATGCATCCCATGCTAATAGTCAGGAACA CTTGATTCATGGTGATTCCTTGTCACATTTGCTGCCTAGTCAACCTAACACCGGAATCTCGAAA ATTTCTGCAAGGGTTTCATGTCATGCAAATTGCATGAGCTGCATTCACGTGGGTAATAAATCCC ATCAGGTTGCACATGGTGAGATTGGGGTTCCCTGTTTCTATGATAAAATGGTAAGTTGACCTTG TTGCACATAGCAGAAGCAACAACAAGCACATCCATCAAAACGGTTGTTTTTTACTTCTTTATTA CTTTTCTATAATCCATGCATTTTTTTTGCAGGCCAGGGGCCATGGTACTTTTGAGCGAGTTGAT GACTGCACACATAGAAGTTTGAGAGCTTTCACAAAAATCAGTTGCGATAATGGGAAATCTTGTT GTTCTTCTCGTGAGCTTCTACCTAGCTTTTGCCAAAATGATCAGCCAACATTGGGAAAATCGAT TTGTGGATGCTGTTGCAAAATTCAGGAAGATGCTTCCAAGCTTGGTTTTATACCTGGTCACATG TGCAGAACTCATTTTTCTAGTGATGTTGGTCCAGTTCTAGCCAATAAGCCTACTATTGAAGGTT GCTTTCTTCATCTGCAATGGTTGTTTCTATGATGAACAACTATTTAAATGTTTCTAAGCTTTAA TTCATTGTAAACCCTTTTTTGTTTTAGGGCTAGATGAATTTTGTGCTTGCAGTTGCTCCACTTT TACACAACGATCATCATTATGTTCTCGGGAATACGTCTTGCAGTCTTCCTGTGACTCATGTCCC ATTAATGGACTGCACTGCAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.087028356

Conservation Information
Conserved circRNAs	NA
PMCS	0.087028356

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							204597519-204596978(+)
204598052-204597684(+)
204597151-204598139(-)
						
						Potential amino acid sequence
						
							MVRLGFPVSMIKWGHGTFERVDDCTHRSLRAFTKISCDNGKSCCSSRELLPSFCQNDQPTLGKS
ICGCCCKIQEDASKLGFIPGHMCRTHFSSDVGPVLANKPTIEGLDEFCACSCSTFTQRSSLCSR
EYVLQSSCDSCPINGLHCRRSFSKASNKDQQKSIRT*(+)
MNFVLAVAPLLHNDHHYVLGNTSCSLPVTHVPLMDCTAEDPSPKQATKISKSLSEHNEPSISTG
NKKQPLEVVNGMKRSEGDELTDDTSKNSFISLFLSHLERNNTPEPIDDILNSNEHYLPKALDVA
CGSDHPESATRQIETRVPNDKHSKLASAIVHTKRRSEGISLSVASSGYNPQDASHANSQEHLIH
GDSLSHLLPSQPNTGISKISARVSCHANCMSCIHVGNKSHQVAHGEIGVPCFYDKMGPWYF*(+
)
MSSMGSGVLFLSRCERNNEINEFLDVSSVSSSPSERFMPLTTSSGCFLFPVLMDGSLCSDRLLL
IFVACFGEGSSAVQSINGT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	204597519-204596978(+) 204598052-204597684(+) 204597151-204598139(-)
Potential amino acid sequence	MVRLGFPVSMIKWGHGTFERVDDCTHRSLRAFTKISCDNGKSCCSSRELLPSFCQNDQPTLGKS ICGCCCKIQEDASKLGFIPGHMCRTHFSSDVGPVLANKPTIEGLDEFCACSCSTFTQRSSLCSR EYVLQSSCDSCPINGLHCRRSFSKASNKDQQKSIRT(+) MNFVLAVAPLLHNDHHYVLGNTSCSLPVTHVPLMDCTAEDPSPKQATKISKSLSEHNEPSISTG NKKQPLEVVNGMKRSEGDELTDDTSKNSFISLFLSHLERNNTPEPIDDILNSNEHYLPKALDVA CGSDHPESATRQIETRVPNDKHSKLASAIVHTKRRSEGISLSVASSGYNPQDASHANSQEHLIH GDSLSHLLPSQPNTGISKISARVSCHANCMSCIHVGNKSHQVAHGEIGVPCFYDKMGPWYF(+ ) MSSMGSGVLFLSRCERNNEINEFLDVSSVSSSPSERFMPLTTSSGCFLFPVLMDGSLCSDRLLL IFVACFGEGSSAVQSINGT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d006323_circ_g.1

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