Plant Circular RNA Database

Detail information of Zm00001d018484_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d018484_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008848
					
						Alias
						zma_circ_0002027
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 221668523-221672581  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d018484						
					
						Parent gene annotation
						
							Actin-related protein 2/3 complex subunit 1A
							
						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
						Zm00001d018484_T008:13
Zm00001d018484_T007:15
Zm00001d018484_T003:13
Zm00001d018484_T010:12
Zm00001d018484_T009:14
Zm00001d018484_T006:15
Zm00001d018484_T001:11
Zm00001d018484_T011:15
Zm00001d018484_T002:14
Zm00001d018484_T004:12
Zm00001d018484_T005:9

General Information
CircRNA Name	Zm00001d018484_circ_g.1
ID in PlantcircBase	zma_circ_008848
Alias	zma_circ_0002027
Organism	Zea mays
Position	chr5: 221668523-221672581 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d018484
Parent gene annotation	Actin-related protein 2/3 complex subunit 1A
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	Zm00001d018484_T008:13 Zm00001d018484_T007:15 Zm00001d018484_T003:13 Zm00001d018484_T010:12 Zm00001d018484_T009:14 Zm00001d018484_T006:15 Zm00001d018484_T001:11 Zm00001d018484_T011:15 Zm00001d018484_T002:14 Zm00001d018484_T004:12 Zm00001d018484_T005:9

			
						 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  
						
							AAACGTTTATCTACCTTTGACAAAACATGAAGTTTCTCCCACTTGTCTGTGAAGAATTTATAGA
TATGTACTTCATGGTTGTTTGGGCAAAAGGCAATCActggctggccctggatcttgaaaacctg
caggaccccgctgccacgaatggtggtcccctgagcacgatgggtaatgacagaagccccctcg
atttgatt

									
								

					

						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
						
							CTGGCTGGCCCTGGATCTTGAAAACCTGCAGGACCCCGCTGCCACGAATGGTGGTCCCCTGAGC
ACGATGGGTAATGACAGAAGCCCCCTCGATTTGATTGTTAACGAAAGCCTTCCCTCGAGCTATT
TTGCAATGCTGACGTGGTTTTCCAAATCCCATACCACGACCTTACCATCCAATCCTGTAAGCCG
CGTGGCAAGGAGTGTCAAAACATGTTCGAACAATAGAGCTGGAAGCAATTGGAACGCTCAGCTA
TAAACCTGACGTGCTGAATCGTTTGATAGTACCATCGCTTCCTTTTCTCAAGGGTACAATACAC
CTGACGATACGAAGAAATTATTAATTAGTCTTTAGGAGATGAAAGTACATCACTGGAAGTACGG
AAATAGAGATAAGGAGCTAAAGAGGTTACGTTATGCAATTCTCATGGGCCCCACCACGAGCTTT
CGATGGTTCAACAGTGTCGCTACTAGCCCCCTGCTTTGATTGTCCATATAGCTTTCCAAGGGCT
TCAGAGAGCTGAAATGTTGTTCCCCCCGGTATTATTAGTTCATGCCTGATGTTGACTTGGTGAG
TTCAACTCAATCACAAAGCTTCTCAGTGATCAGAACTTCAGCAGCATTAGATCAGTTTGGCATC
AAAATAAATTGGTCAAACACCGCGGAATAGATTACATGTAAATCTTTATGACCGAATTCCAACT
GGACCAGGATTGACTACATCCAAACAAAGCCTTACCGAGAACCACTAGCATAAAGGTCAGACTA
TTGGCTGAAAAGATAGCCATAATAAGACAGCCATTAGAAAACCAAATTTTGCAAGCAGGGTTTG
TAATATGTAGCAACTAGGGTGGGGGTGGGGTCATCTTGTATGAACAAACAATTTAAACCAAGCT
CAATCATTAAGAAAGGAATTGGTTCACCTAATACTTAACAATTTAGGATAAAGTAAACACTTGA
TAAACATAGAGTGAACAGCACTCTCACATAATAGCAAAACAAACTCAAGTTATAATATGGACAG
GCATTCACTACATAAATTGATGTTATGCAAGACAAGGTATAGACCTGTGAGGCTTTTGAAGCTG
ATGGAGCAGCTTTCATCTCGTCCAAGAATCTTACGAAACTCCTACATAACAAAAGGTGTAGCTA
TGGTGAAAAGAAAGCATAAATGTCATGAATGAAAATCAGGGCCGACTTGCATATCCTGTAGAAA
TGGATTACTGTAAAAAAGAGCAATGGAATATTTTGACAGGGTACTGAGGCTAAAAAGATTAATA
GACTTGAAATATCCATAGCAATTTACATGGTTTCTACAGAAAGCAACAACTCAATTCGGAACAC
TTCAGGGCTACAAGGGAAATGGCATACGAACAATATAAGAAAGATTTTACTATATTGATCTTTG
CTTACCAAAGCCCAGTATCATCAGCAGCAAAGATCATAGGATTGCAGTCAAATCCGACACCAAC
CAATGTGCGCTCAGAGACAAAAAGAACCTGAAAGTTTGAGCAGTTGTTCAAAATTATGAAACAC
AGAAATCACCACACGCAATTAAATATTATCAGAAGGGAAAATGCTGACCCACATCACGGAGAGG
CAGATCACGCAGCGTCAAGTTTTGGGCCACAGGAGAAGATTCAACTTCATCGATGACATAAACC
ATGGAGTTATGCCCTGGTAATCAATGTTCATGTCAGGGAAACAGCGGCTATTATGCTTTAGGGA
ACGGTGAAATAATGCAGATTTGACACTCTCAATAGTTCGGTACAGGAGCGAGAACCTGCATAGG
CCAATGTCTTCCCACTTGGTGACCACCTTACACCAAATACCCAGGTAGATGATAGATCAAGCTG
AGCAATTTGCTGCATCCAACCAGGAGAAAAAATGTTACAAGGGTGAATACTCACTTCCACAGGG
AAAGAAAACAAATTATGTTATTCATGATTTGAACTAAACCTATGAGAGATGGGATCTGAGCAAG
CATTCCACAACAACAACAACAACAACAACAACAACAACACAGCATAAGGTTAAGGCTTAGCTCA
GTGCATGAACAGATTAAGTGTTATTTTCAACGGTAGATGGTATTAGGTGTGTCAATAATCGATA
GAATTGAAAAATTGTTACTACTGCCAAAAGTAATAGCCTTATAAGATGTTCAGATGCATGTCAT
GCCTAGTAAATGGGGAAACATATCTTAACATCGCAAAAGTACAAACTGCAACAAATATTGAAAT
TACAACCAAACATATGGCACAATATCGAATGGATGGGCTAATAAATACCTCTCCGAATTTTGAA
TTGGTTGAAGTGCTCGATTGTGATCCCCTGGTCATAAGTGGAAAAGGGTATGAGAAGAATAAAA
CATTTTCAAGTTTTTAGAATCCTATTAGATGTCAGACCAATGTGTCCCACCTTGTGTCTACACC
CTTGATAAAAGTAGAGAACACTCTGCATTTACCATCTGTAGACGTTGTTGCAAGATATATCTGA
AGAAATACGAGAGGAAACAAACTATTCTTACATTCAATGGGAACGATCTTGCAGTTGCATTACA
TGACAATACCGATTCCTACATAGTGGCATACATATACAGAAATTTTACAGGTATAGATGGAGGT
TCAGGAATACAACACAAAAGAAACATACTGAGAACACATCAAAAATGTTTTTCTTGTTAGTTTC
CTACTGAAACCTCTCATTACTTTAAACTCACATTGTTTGGATGCCATGCAAGACTAGTGACAGA
AGATTCATGCCTTTTCCTGATAACCTTGCTAATCCACCTGCGGCACAGTGTATCATATAAGACA
GTTAAACATGTGTATCAACACTTCAAGAGTGTCACATAACCCTACGGATTATGAGAACATGATC
AAGGACTCGTACTCATAAATCACCAATTGGGAGACGCAACACAAAATAATGGATAACTAAGGTC
ATCCAAAAATGGTAGTCAACTGATGAAAGAGGGGTGGTAAAGTGGGGTTAAATACCAATTGTTT
TCTTGTTCATAATAACAAATACACACAGATTTGGCACCACTTCCCACGGCAAACTTGTTTTCTG
TAAACAATACATAAAGAGATTTAAGGAAACAGATAACGATTATTTATGAAAAATAAACAACAAA
AACCATACTGGAAAAGTTTTTTCTTCACATGTTTAGTGTACAAGTAATTACGTTCTTTCAACAT
GGCCAACACGGTGTTCCAGAAAATAAGGCACCTAACACCCTATTCAGCAGAGCTCCAGCTCCAA
GAAATCAGCTGGGTATTACTAGCTCCAGAAATATGTGGGTACAGCCAAGTTGTTAGGTTGATAT
GTTTTCTACCTATTCTAGACAAACAGAAAGAAGTCCCATGGTTCTTGATTTTAGCATACAAACT
CTAAAGCTGAGGTGCCAAACGGAGCCTAAGTATTTCATTCATAGTTTGCATCACAGGATAGAAA
TAGATTAGCATTACAGAATTCAGGTATTGTCTGAGCCTATCATCAAACTTAAGACTCATACTGT
GTACGGAATGAAAACTAGGAGAGCATGTGCACTTGGATAATAGTTTCATTTCACCGGTAGAATG
AAAAAGGTACATATGTGACAGAAATAGTAAGGGAATTAACTAACCTTTTGGGCTCCACTGAACA
CATAAAGCTGCACGATTTAACTTTAGAATAACCAGAGTAGGTATCCAATCAGATCCTTCTTGTG
TCCAAACATATCTGAGGTCAAATGAAAATATATATATGTACCCACCTATCCCCTGCCAGAGTAA
GAAACAAGATAGATCTTCTAGAAATTTGCACTTTGACATATACTTACGAATTTCTATCATGTGA
AACTGTTACGATTTTGTTGGATGAATTACTCCAGTCTATTCCCGAAACTATTTGATCATGCTGC
AGAATACCAAAAGAAATAAGACAATGAATTGCATTCTAATTACACCGCACAGAAAAAACGTTTA
TCTACCTTTGACAAAACATGAAGTTTCTCCCACTTGTCTGTGAAGAATTTATAGATATGTACTT
CATGGTTGTTTGGGCAAAAGGCAATCA
						
					

			
		

Sequences
Splice junction sequence	AAACGTTTATCTACCTTTGACAAAACATGAAGTTTCTCCCACTTGTCTGTGAAGAATTTATAGA TATGTACTTCATGGTTGTTTGGGCAAAAGGCAATCActggctggccctggatcttgaaaacctg caggaccccgctgccacgaatggtggtcccctgagcacgatgggtaatgacagaagccccctcg atttgatt
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	CTGGCTGGCCCTGGATCTTGAAAACCTGCAGGACCCCGCTGCCACGAATGGTGGTCCCCTGAGC ACGATGGGTAATGACAGAAGCCCCCTCGATTTGATTGTTAACGAAAGCCTTCCCTCGAGCTATT TTGCAATGCTGACGTGGTTTTCCAAATCCCATACCACGACCTTACCATCCAATCCTGTAAGCCG CGTGGCAAGGAGTGTCAAAACATGTTCGAACAATAGAGCTGGAAGCAATTGGAACGCTCAGCTA TAAACCTGACGTGCTGAATCGTTTGATAGTACCATCGCTTCCTTTTCTCAAGGGTACAATACAC CTGACGATACGAAGAAATTATTAATTAGTCTTTAGGAGATGAAAGTACATCACTGGAAGTACGG AAATAGAGATAAGGAGCTAAAGAGGTTACGTTATGCAATTCTCATGGGCCCCACCACGAGCTTT CGATGGTTCAACAGTGTCGCTACTAGCCCCCTGCTTTGATTGTCCATATAGCTTTCCAAGGGCT TCAGAGAGCTGAAATGTTGTTCCCCCCGGTATTATTAGTTCATGCCTGATGTTGACTTGGTGAG TTCAACTCAATCACAAAGCTTCTCAGTGATCAGAACTTCAGCAGCATTAGATCAGTTTGGCATC AAAATAAATTGGTCAAACACCGCGGAATAGATTACATGTAAATCTTTATGACCGAATTCCAACT GGACCAGGATTGACTACATCCAAACAAAGCCTTACCGAGAACCACTAGCATAAAGGTCAGACTA TTGGCTGAAAAGATAGCCATAATAAGACAGCCATTAGAAAACCAAATTTTGCAAGCAGGGTTTG TAATATGTAGCAACTAGGGTGGGGGTGGGGTCATCTTGTATGAACAAACAATTTAAACCAAGCT CAATCATTAAGAAAGGAATTGGTTCACCTAATACTTAACAATTTAGGATAAAGTAAACACTTGA TAAACATAGAGTGAACAGCACTCTCACATAATAGCAAAACAAACTCAAGTTATAATATGGACAG GCATTCACTACATAAATTGATGTTATGCAAGACAAGGTATAGACCTGTGAGGCTTTTGAAGCTG ATGGAGCAGCTTTCATCTCGTCCAAGAATCTTACGAAACTCCTACATAACAAAAGGTGTAGCTA TGGTGAAAAGAAAGCATAAATGTCATGAATGAAAATCAGGGCCGACTTGCATATCCTGTAGAAA TGGATTACTGTAAAAAAGAGCAATGGAATATTTTGACAGGGTACTGAGGCTAAAAAGATTAATA GACTTGAAATATCCATAGCAATTTACATGGTTTCTACAGAAAGCAACAACTCAATTCGGAACAC TTCAGGGCTACAAGGGAAATGGCATACGAACAATATAAGAAAGATTTTACTATATTGATCTTTG CTTACCAAAGCCCAGTATCATCAGCAGCAAAGATCATAGGATTGCAGTCAAATCCGACACCAAC CAATGTGCGCTCAGAGACAAAAAGAACCTGAAAGTTTGAGCAGTTGTTCAAAATTATGAAACAC AGAAATCACCACACGCAATTAAATATTATCAGAAGGGAAAATGCTGACCCACATCACGGAGAGG CAGATCACGCAGCGTCAAGTTTTGGGCCACAGGAGAAGATTCAACTTCATCGATGACATAAACC ATGGAGTTATGCCCTGGTAATCAATGTTCATGTCAGGGAAACAGCGGCTATTATGCTTTAGGGA ACGGTGAAATAATGCAGATTTGACACTCTCAATAGTTCGGTACAGGAGCGAGAACCTGCATAGG CCAATGTCTTCCCACTTGGTGACCACCTTACACCAAATACCCAGGTAGATGATAGATCAAGCTG AGCAATTTGCTGCATCCAACCAGGAGAAAAAATGTTACAAGGGTGAATACTCACTTCCACAGGG AAAGAAAACAAATTATGTTATTCATGATTTGAACTAAACCTATGAGAGATGGGATCTGAGCAAG CATTCCACAACAACAACAACAACAACAACAACAACAACACAGCATAAGGTTAAGGCTTAGCTCA GTGCATGAACAGATTAAGTGTTATTTTCAACGGTAGATGGTATTAGGTGTGTCAATAATCGATA GAATTGAAAAATTGTTACTACTGCCAAAAGTAATAGCCTTATAAGATGTTCAGATGCATGTCAT GCCTAGTAAATGGGGAAACATATCTTAACATCGCAAAAGTACAAACTGCAACAAATATTGAAAT TACAACCAAACATATGGCACAATATCGAATGGATGGGCTAATAAATACCTCTCCGAATTTTGAA TTGGTTGAAGTGCTCGATTGTGATCCCCTGGTCATAAGTGGAAAAGGGTATGAGAAGAATAAAA CATTTTCAAGTTTTTAGAATCCTATTAGATGTCAGACCAATGTGTCCCACCTTGTGTCTACACC CTTGATAAAAGTAGAGAACACTCTGCATTTACCATCTGTAGACGTTGTTGCAAGATATATCTGA AGAAATACGAGAGGAAACAAACTATTCTTACATTCAATGGGAACGATCTTGCAGTTGCATTACA TGACAATACCGATTCCTACATAGTGGCATACATATACAGAAATTTTACAGGTATAGATGGAGGT TCAGGAATACAACACAAAAGAAACATACTGAGAACACATCAAAAATGTTTTTCTTGTTAGTTTC CTACTGAAACCTCTCATTACTTTAAACTCACATTGTTTGGATGCCATGCAAGACTAGTGACAGA AGATTCATGCCTTTTCCTGATAACCTTGCTAATCCACCTGCGGCACAGTGTATCATATAAGACA GTTAAACATGTGTATCAACACTTCAAGAGTGTCACATAACCCTACGGATTATGAGAACATGATC AAGGACTCGTACTCATAAATCACCAATTGGGAGACGCAACACAAAATAATGGATAACTAAGGTC ATCCAAAAATGGTAGTCAACTGATGAAAGAGGGGTGGTAAAGTGGGGTTAAATACCAATTGTTT TCTTGTTCATAATAACAAATACACACAGATTTGGCACCACTTCCCACGGCAAACTTGTTTTCTG TAAACAATACATAAAGAGATTTAAGGAAACAGATAACGATTATTTATGAAAAATAAACAACAAA AACCATACTGGAAAAGTTTTTTCTTCACATGTTTAGTGTACAAGTAATTACGTTCTTTCAACAT GGCCAACACGGTGTTCCAGAAAATAAGGCACCTAACACCCTATTCAGCAGAGCTCCAGCTCCAA GAAATCAGCTGGGTATTACTAGCTCCAGAAATATGTGGGTACAGCCAAGTTGTTAGGTTGATAT GTTTTCTACCTATTCTAGACAAACAGAAAGAAGTCCCATGGTTCTTGATTTTAGCATACAAACT CTAAAGCTGAGGTGCCAAACGGAGCCTAAGTATTTCATTCATAGTTTGCATCACAGGATAGAAA TAGATTAGCATTACAGAATTCAGGTATTGTCTGAGCCTATCATCAAACTTAAGACTCATACTGT GTACGGAATGAAAACTAGGAGAGCATGTGCACTTGGATAATAGTTTCATTTCACCGGTAGAATG AAAAAGGTACATATGTGACAGAAATAGTAAGGGAATTAACTAACCTTTTGGGCTCCACTGAACA CATAAAGCTGCACGATTTAACTTTAGAATAACCAGAGTAGGTATCCAATCAGATCCTTCTTGTG TCCAAACATATCTGAGGTCAAATGAAAATATATATATGTACCCACCTATCCCCTGCCAGAGTAA GAAACAAGATAGATCTTCTAGAAATTTGCACTTTGACATATACTTACGAATTTCTATCATGTGA AACTGTTACGATTTTGTTGGATGAATTACTCCAGTCTATTCCCGAAACTATTTGATCATGCTGC AGAATACCAAAAGAAATAAGACAATGAATTGCATTCTAATTACACCGCACAGAAAAAACGTTTA TCTACCTTTGACAAAACATGAAGTTTCTCCCACTTGTCTGTGAAGAATTTATAGATATGTACTT CATGGTTGTTTGGGCAAAAGGCAATCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.050110193

Conservation Information
Conserved circRNAs	NA
PMCS	0.050110193

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							221672509-221669043(+)
221668684-221672344(-)
						
						Potential amino acid sequence
						
							MKFLPLVCEEFIDMYFMVVWAKGNHWLALDLENLQDPAATNGGPLSTMGNDRSPLDLIVNESLP
SSYFAMLTWFSKSHTTTLPSNPDVLNRLIVPSLPFLKGTIHVMQFSWAPPRAFDGSTVSLLAPC
FDCPYSFPRASES*(+)
MGFGKPRQHCKIARGKAFVNNQIEGASVITHRAQGTTIRGSGVLQVFKIQGQPVIAFCPNNHEV
HIYKFFTDKWEKLHVLSKHDQIVSGIDWSNSSNKIVTVSHDRNS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	221672509-221669043(+) 221668684-221672344(-)
Potential amino acid sequence	MKFLPLVCEEFIDMYFMVVWAKGNHWLALDLENLQDPAATNGGPLSTMGNDRSPLDLIVNESLP SSYFAMLTWFSKSHTTTLPSNPDVLNRLIVPSLPFLKGTIHVMQFSWAPPRAFDGSTVSLLAPC FDCPYSFPRASES(+) MGFGKPRQHCKIARGKAFVNNQIEGASVITHRAQGTTIRGSGVLQVFKIQGQPVIAFCPNNHEV HIYKFFTDKWEKLHVLSKHDQIVSGIDWSNSSNKIVTVSHDRNS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d018484_circ_g.1

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