Plant Circular RNA Database

Detail information of Zm00001d018462_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d018462_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008844
					
						Alias
						zma_circ_0002023
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 221233165-221235900  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d018462						
					
						Parent gene annotation
						
							Phospholipid--sterol O-acyltransferase
							
						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
						Zm00001d018462_T006:6
Zm00001d018462_T003:6
Zm00001d018462_T002:5
Zm00001d018462_T004:6
Zm00001d018462_T009:6
Zm00001d018462_T005:4
Zm00001d018462_T011:1
Zm00001d018462_T007:6
Zm00001d018462_T008:4
Zm00001d018462_T001:6
Zm00001d018462_T010:4

General Information
CircRNA Name	Zm00001d018462_circ_g.2
ID in PlantcircBase	zma_circ_008844
Alias	zma_circ_0002023
Organism	Zea mays
Position	chr5: 221233165-221235900 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d018462
Parent gene annotation	Phospholipid--sterol O-acyltransferase
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	Zm00001d018462_T006:6 Zm00001d018462_T003:6 Zm00001d018462_T002:5 Zm00001d018462_T004:6 Zm00001d018462_T009:6 Zm00001d018462_T005:4 Zm00001d018462_T011:1 Zm00001d018462_T007:6 Zm00001d018462_T008:4 Zm00001d018462_T001:6 Zm00001d018462_T010:4

			
						 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  
						
							AAAGACCACTATCAGGCCTTGACTTGCATTCGGGATGGTCTGTCTGATTATAGGGTTCAAGCAG
CATGCATTTAAGCCAGCAATTTACCGCAGAGAAAAGttctcaagctgataaacaagtgccttgc
tctgagggtcataatcctctatcgttttgaacaaagtaccatctgaaacctctctggcagaaaa
tgacagga

									
								

					

						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
						
							TTCTCAAGCTGATAAACAAGTGCCTTGCTCTGAGGGTCATAATCCTCTATCGTTTTGAACAAAG
TACCATCTGAAACCTCTCTGGCAGAAAATGACAGGAGAGTTGGCTTTCCACACTCCATAATGGA
TGTTATGTTCTCGGTTATATCTGTGATGGATGGGTATGCCCCCATATCTGTGATGAAAAACAGT
TAATGGAAAAACATTTGAATCTGCTTAGTGGAACATAAGATTCTCAAACGTCACATCAAGGAAG
AAAGTTACAAAGAACCTCGAGCTGAAGGAACCTCGATATTAACAAGGTCTGTGGGCCATCCGCC
GTAGTCTGAAATATATTCATCTTCATCACATTGTTGTTTGTGAGGACAACCTCCTTTTCCCTCA
AAAAAATGCTTCCAGTAGATATTATCAGCTTTGCAGTGTTTTGAGAATGGCATAAGCCATAGAG
AAGAACCAAATGCATTAAACATCAACCGTGCTGTGCCCTGAAAACGAAAATATTAGATATGTAA
TGTTAGAGACCAATAAGATGCATAAATGCAACAAGACTTACAACAAGCTATTTGGAGAGTTGTG
AAAGTTGAAAGTTCGGACATAATTGGGATCTTTAATGGTAGTAATAGTAATGAAACATAAAATG
GCATACTATATTCAGTGAAACATCAAGTGGAAGGATGAAACAAAACAAATGCTACCATAATTCA
CATGAACATCTAGGAGCATACTATAAGACTATGAGCAGCAGGCCCACAGATGCAGTGCAGAAGA
ATAAGAAAAAAAAATATTACCATGATATTAGTGCATGGGCCAGTAAAAAGAACTATTTAAAGTT
GAAGGTTTCATAATTACACAGTCGTGTATACAAAAAGTCAAGAATAAACCTATGGGGGCATTAG
GCATCAGAATTATCAACTGCAAACTATAAAGTCAATACTAACTATGTTGCAGAAAAACAGAAAT
GTTAAACCTGTGATAGCAGAACAGAGCATTCAAATATTCAATGATGAGAAATTAATAAATTGTT
ACAATAAGACAAAACTAGAATTTATAGAGGATGACAGACCTCACTGACTGGAAGACCAAAAGTT
GTTCCAGAAAGAGCGCCTCTAACTGCTTCAGTAGATCCAAGAAGAGGAGCGCCTAAAGCAAAGA
AAACTTGAAAATTTGAGGATAAGTGGACAAAATAAGTATGGTAATGATAAAGTAATATTCATTC
TGGTTTATATACCAACTGCAAAATATGCATGTATATGCTCATCAAGCCACTGGATATAGTGCTT
GGGAGCAATTTCCAGTTTCAACCATTCCAAAAAATAGCGAAACACGTTATTTCCCATCGAATGC
GCAAATACCAAAGATGGCCCTCCTCGGAGTTTCAAAGCAATTTCAAATGTTAGCCTGCATCAAC
AAGGACGTATGAGCATCACGTACTACATTCTCTCCTCGTGCAACAATAAATTGCCCTTACACCA
TACATATATACTCGCCATCTCAGCATGATTTGTTTACCAATGTTTTGGAAAATCATATTTGCTT
GAATAAAACTTACCACAAGATATTTACCAATATTTAGCAATTGGTCGCATGCAGGTTGCAAATG
CATGAAATGCAACACACCATGTTTTATTTGTACCACCAACAATTATCTCAGAGGTTGGATTGGC
AACTTATAAATTGACAAGGCCAACAACGAAAGTATCATATCATGTATTTAGTTCAGAAGTGGCC
ATGTCAATGCTGATATAATAAATGCATGGTAACTAAAACAATATAAATGACTGTAATCTAGGTA
TGTACTTTAGAAACACCAAAAGAACTAGACCCTAACAGATGTATAGCATTTGGTTGCTTCATAA
CAAGTTGAGGCAAGTGTTACAAACTTTAATTTGTGAAAGTACAGATCTCTCTCCTCAAGCATTG
ATGGGGGCAGTCTCCAATCATACGGAACAGCGATAATTGCATTAGCTTCAATGCCAAACTCTAC
ACACCATTTGACCCATTCTTTCCATACTGAAGAGAGAGGACCTGAAACCTTGCCCAATAAAATA
ATATCAGTGCAAGGTGTTTTCCTTTTCTCTCTTCATGAATAAATGAAATGGGTAGCTCAGAATG
CACTAACAAACATGAGTACTGAATGCACCCTGTCTAACAGGAATATTCTGAAGTGTAGAACACA
ATGCTAATATCAAAGCAAATATGGGGAGTTGCCATTTGGAAACAGATGAACGTAGATTATTTTG
AAAGAAGCAGTAGCGTGAGTGAGATACAGATAACTGTACTTGCACAAATTATTCCACATTGTTC
AGCTTAGACATGAATAAAGAACATGATTCTCTCCTAATCAATACTTTGCTGTAGCACCTATGGT
CATTAGTTTGATGATCTCGTGTAAAAAACATTTTCCGTTTCTGCCACTTCAGCTCAGAACTTGC
AAAAATGTTTTCCAAAATGAACTTTTCACTCAACATGGAGTAACCTGACTTATGATATAATCTA
AAAATTATCATGTAATAGATATTAGAGTCTCTAGATATTACAACTCATGGCTACAACTTTGCGA
AGTCAATGCTAAGAAAAAAAAAGTAAGCCATACGTTTTACCTGTTATATAACCAGGGTCCAGCT
CTGTAATTGCAGAAAGACCACTATCAGGCCTTGACTTGCATTCGGGATGGTCTGTCTGATTATA
GGGTTCAAGCAGCATGCATTTAAGCCAGCAATTTACCGCAGAGAAAAG
						
					

			
		

Sequences
Splice junction sequence	AAAGACCACTATCAGGCCTTGACTTGCATTCGGGATGGTCTGTCTGATTATAGGGTTCAAGCAG CATGCATTTAAGCCAGCAATTTACCGCAGAGAAAAGttctcaagctgataaacaagtgccttgc tctgagggtcataatcctctatcgttttgaacaaagtaccatctgaaacctctctggcagaaaa tgacagga
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	TTCTCAAGCTGATAAACAAGTGCCTTGCTCTGAGGGTCATAATCCTCTATCGTTTTGAACAAAG TACCATCTGAAACCTCTCTGGCAGAAAATGACAGGAGAGTTGGCTTTCCACACTCCATAATGGA TGTTATGTTCTCGGTTATATCTGTGATGGATGGGTATGCCCCCATATCTGTGATGAAAAACAGT TAATGGAAAAACATTTGAATCTGCTTAGTGGAACATAAGATTCTCAAACGTCACATCAAGGAAG AAAGTTACAAAGAACCTCGAGCTGAAGGAACCTCGATATTAACAAGGTCTGTGGGCCATCCGCC GTAGTCTGAAATATATTCATCTTCATCACATTGTTGTTTGTGAGGACAACCTCCTTTTCCCTCA AAAAAATGCTTCCAGTAGATATTATCAGCTTTGCAGTGTTTTGAGAATGGCATAAGCCATAGAG AAGAACCAAATGCATTAAACATCAACCGTGCTGTGCCCTGAAAACGAAAATATTAGATATGTAA TGTTAGAGACCAATAAGATGCATAAATGCAACAAGACTTACAACAAGCTATTTGGAGAGTTGTG AAAGTTGAAAGTTCGGACATAATTGGGATCTTTAATGGTAGTAATAGTAATGAAACATAAAATG GCATACTATATTCAGTGAAACATCAAGTGGAAGGATGAAACAAAACAAATGCTACCATAATTCA CATGAACATCTAGGAGCATACTATAAGACTATGAGCAGCAGGCCCACAGATGCAGTGCAGAAGA ATAAGAAAAAAAAATATTACCATGATATTAGTGCATGGGCCAGTAAAAAGAACTATTTAAAGTT GAAGGTTTCATAATTACACAGTCGTGTATACAAAAAGTCAAGAATAAACCTATGGGGGCATTAG GCATCAGAATTATCAACTGCAAACTATAAAGTCAATACTAACTATGTTGCAGAAAAACAGAAAT GTTAAACCTGTGATAGCAGAACAGAGCATTCAAATATTCAATGATGAGAAATTAATAAATTGTT ACAATAAGACAAAACTAGAATTTATAGAGGATGACAGACCTCACTGACTGGAAGACCAAAAGTT GTTCCAGAAAGAGCGCCTCTAACTGCTTCAGTAGATCCAAGAAGAGGAGCGCCTAAAGCAAAGA AAACTTGAAAATTTGAGGATAAGTGGACAAAATAAGTATGGTAATGATAAAGTAATATTCATTC TGGTTTATATACCAACTGCAAAATATGCATGTATATGCTCATCAAGCCACTGGATATAGTGCTT GGGAGCAATTTCCAGTTTCAACCATTCCAAAAAATAGCGAAACACGTTATTTCCCATCGAATGC GCAAATACCAAAGATGGCCCTCCTCGGAGTTTCAAAGCAATTTCAAATGTTAGCCTGCATCAAC AAGGACGTATGAGCATCACGTACTACATTCTCTCCTCGTGCAACAATAAATTGCCCTTACACCA TACATATATACTCGCCATCTCAGCATGATTTGTTTACCAATGTTTTGGAAAATCATATTTGCTT GAATAAAACTTACCACAAGATATTTACCAATATTTAGCAATTGGTCGCATGCAGGTTGCAAATG CATGAAATGCAACACACCATGTTTTATTTGTACCACCAACAATTATCTCAGAGGTTGGATTGGC AACTTATAAATTGACAAGGCCAACAACGAAAGTATCATATCATGTATTTAGTTCAGAAGTGGCC ATGTCAATGCTGATATAATAAATGCATGGTAACTAAAACAATATAAATGACTGTAATCTAGGTA TGTACTTTAGAAACACCAAAAGAACTAGACCCTAACAGATGTATAGCATTTGGTTGCTTCATAA CAAGTTGAGGCAAGTGTTACAAACTTTAATTTGTGAAAGTACAGATCTCTCTCCTCAAGCATTG ATGGGGGCAGTCTCCAATCATACGGAACAGCGATAATTGCATTAGCTTCAATGCCAAACTCTAC ACACCATTTGACCCATTCTTTCCATACTGAAGAGAGAGGACCTGAAACCTTGCCCAATAAAATA ATATCAGTGCAAGGTGTTTTCCTTTTCTCTCTTCATGAATAAATGAAATGGGTAGCTCAGAATG CACTAACAAACATGAGTACTGAATGCACCCTGTCTAACAGGAATATTCTGAAGTGTAGAACACA ATGCTAATATCAAAGCAAATATGGGGAGTTGCCATTTGGAAACAGATGAACGTAGATTATTTTG AAAGAAGCAGTAGCGTGAGTGAGATACAGATAACTGTACTTGCACAAATTATTCCACATTGTTC AGCTTAGACATGAATAAAGAACATGATTCTCTCCTAATCAATACTTTGCTGTAGCACCTATGGT CATTAGTTTGATGATCTCGTGTAAAAAACATTTTCCGTTTCTGCCACTTCAGCTCAGAACTTGC AAAAATGTTTTCCAAAATGAACTTTTCACTCAACATGGAGTAACCTGACTTATGATATAATCTA AAAATTATCATGTAATAGATATTAGAGTCTCTAGATATTACAACTCATGGCTACAACTTTGCGA AGTCAATGCTAAGAAAAAAAAAGTAAGCCATACGTTTTACCTGTTATATAACCAGGGTCCAGCT CTGTAATTGCAGAAAGACCACTATCAGGCCTTGACTTGCATTCGGGATGGTCTGTCTGATTATA GGGTTCAAGCAGCATGCATTTAAGCCAGCAATTTACCGCAGAGAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.077350189

Conservation Information
Conserved circRNAs	NA
PMCS	0.077350189

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							221235867-221233219(+)
221235836-221233173(+)
221235869-221235887(-)
221233206-221235874(-)
						
						Potential amino acid sequence
						
							MHLSQQFTAEKSSQADKQVPCSEGHNPLSF*(+)
MVCLIIGFKQHAFKPAIYRREKFSS*(+)
MLLEPYNQTDHPECKSRPDSGLSAITELDPGYITGPLSSVWKEWVKWCVEFGIEANAIIAVPYD
WRLPPSMLEERDLYFHKLKLTFEIALKLRGGPSLVFAHSMGNNVFRYFLEWLKLEIAPKHYIQW
LDEHIHAYFAVGAPLLGSTEAVRGALSGTTFGLPVSEGTARLMFNAFGSSLWLMPFSKHCKADN
IYWKHFFEGKGGCPHKQQCDEDEYISDYGGWPTDLVNIEVPSARDMGAYPSITDITENITSIME
CGKPTLLSFSAREVSDGTLFKTIEDYDPQSKALVYQLENFSLR*(-)
MTLRARHLFISLRTFLCGKLLA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	221235867-221233219(+) 221235836-221233173(+) 221235869-221235887(-) 221233206-221235874(-)
Potential amino acid sequence	MHLSQQFTAEKSSQADKQVPCSEGHNPLSF(+) MVCLIIGFKQHAFKPAIYRREKFSS(+) MLLEPYNQTDHPECKSRPDSGLSAITELDPGYITGPLSSVWKEWVKWCVEFGIEANAIIAVPYD WRLPPSMLEERDLYFHKLKLTFEIALKLRGGPSLVFAHSMGNNVFRYFLEWLKLEIAPKHYIQW LDEHIHAYFAVGAPLLGSTEAVRGALSGTTFGLPVSEGTARLMFNAFGSSLWLMPFSKHCKADN IYWKHFFEGKGGCPHKQQCDEDEYISDYGGWPTDLVNIEVPSARDMGAYPSITDITENITSIME CGKPTLLSFSAREVSDGTLFKTIEDYDPQSKALVYQLENFSLR(-) MTLRARHLFISLRTFLCGKLLA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d018462_circ_g.2

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