Plant Circular RNA Database

Detail information of Zm00001d004669_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d004669_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007261
					
						Alias
						zma_circ_0000784, ZmciR94
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 128629157-128632338  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d004669						
					
						Parent gene annotation
						
							mRNA capping enzyme family 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  
						
							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
						Zm00001d004669_T010:5
Zm00001d004669_T008:5
Zm00001d004669_T021:4
Zm00001d004669_T012:5
Zm00001d004669_T011:4
Zm00001d004669_T007:5
Zm00001d004669_T003:5
Zm00001d004669_T001:5
Zm00001d004669_T018:5
Zm00001d004669_T016:5
Zm00001d004669_T023:3
Zm00001d004669_T009:5
Zm00001d004669_T015:5
Zm00001d004669_T006:4
Zm00001d004669_T014:4
Zm00001d004669_T005:5
Zm00001d004669_T013:5
Zm00001d004669_T004:4
Zm00001d004669_T022:3
Zm00001d004669_T020:5
Zm00001d004669_T002:5
Zm00001d004669_T017:5
Zm00001d004669_T019:5

General Information
CircRNA Name	Zm00001d004669_circ_g.1
ID in PlantcircBase	zma_circ_007261
Alias	zma_circ_0000784, ZmciR94
Organism	Zea mays
Position	chr2: 128629157-128632338 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d004669
Parent gene annotation	mRNA capping enzyme family 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	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	Zm00001d004669_T010:5 Zm00001d004669_T008:5 Zm00001d004669_T021:4 Zm00001d004669_T012:5 Zm00001d004669_T011:4 Zm00001d004669_T007:5 Zm00001d004669_T003:5 Zm00001d004669_T001:5 Zm00001d004669_T018:5 Zm00001d004669_T016:5 Zm00001d004669_T023:3 Zm00001d004669_T009:5 Zm00001d004669_T015:5 Zm00001d004669_T006:4 Zm00001d004669_T014:4 Zm00001d004669_T005:5 Zm00001d004669_T013:5 Zm00001d004669_T004:4 Zm00001d004669_T022:3 Zm00001d004669_T020:5 Zm00001d004669_T002:5 Zm00001d004669_T017:5 Zm00001d004669_T019:5

			
						 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  
						
							AAGGACCTTTATCTTAACTAACAAAGTTTTGGTTTAGATTGCATGCAAGGGGAGAGATGCTGTA
CCTGACAATGAATCTGTTAATAAGTTTGTCTATGAGgtcattgaatgaccttctatacgaatat
ggatttgaatgcatcaccggtgcctgacgatgatgagcaacagccttatgatgattcagttgag
gttgggta

									
								

					

						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: 578
Transcript exons: 128629157-128629302,128629937-128630069,128630202-128630
353,128632119-128632202,128632276-128632338
GTCATTGAATGACCTTCTATACGAATATGGATTTGAATGCATCACCGGTGCCTGACGATGATGA
GCAACAGCCTTATGATGATTCAGTTGAGGTTGGGTATGCTCAGACGGAACATGTTGAATCTGCT
GTTGCAACATTGCGCCGGGAGCGTGAAGAGAGACGCAAGAGACTAAAGAGAGAGCAGCAGGATG
ATGGGTCAAGGCTACATTCCCAGCAGATTAGGAATGATTATGCTCCTCAACCCAAAAGACATAG
TCGCATTAAAGAGGCACCTCAGGGCTGGCTGGACTGCCCTGCATTTGGGGAACCAATAGATAAA
ATCATACCATCTAAAGTTCCTCTTGACGAAACATTCAATGAGTCAGTGCCTCCTGGGAAGCGGT
ACTCCTCAAAGCAACTAGTTAACAAACAAAGAAAAGCTGGCCGCGAAATAGGTCTGGTGATTGA
TTTGACAAATACCACCCGATATTATTCACCAGCAGAATGGACGAAGCAAGGTACTAAGTATGCG
AAGATTGCATGCAAGGGGAGAGATGCTGTACCTGACAATGAATCTGTTAATAAGTTTGTCTATG
AG
						
					

						Genomic sequence
						
							GTCATTGAATGACCTTCTATACGAATATGGATTTGAATGCATCACCGGTGCCTGACGATGATGA
GCAACAGCCTTATGATGATTCAGTTGAGGTTGGGTATGCTCAGACGGAACATGTTGAATCTGCT
GTTGCAACATTGCGCCGGGTACACAACTATCTTCATTGGTGTTGGTGTTTATTCCATGTACTGT
GCGTCCGTGCCCTTGGCATATCTGCTCTTGCATCCACTGTTTTAAAGGCGTCGCCTAGGCGTTC
AGCGGTGGTCCAACGCTAGGCGCCTTGCTCGCCTAGGCGTCCAGGCGGCAGTCCAACGCCTTGT
CTCGCCATACCGCTTTAAAAACCATGCTTGTATCTTATTAATGATTGCTGATTAGGTACGATAA
ATGTTGTTTAGTACCCACGTTTACCTTTGCTGGGTTGACATTATTAGCCGAAGGAAATGCCTCA
CAAAGTGAGGGACCCTCTTAACTATAGTTTATATATGTATTAAATAGTGGAATATCTTAATGTG
CACCACAGGTGTAGTGAATTATACATTGGATTTGTAGTAGAACCATTATTTTGAAGTTCAATAT
GTTTCCTTGTTGAAGGGTGATTTACTTTGACTGCCTTAATACTGCATACATACTGGTACACATG
CATTGTTTATCTATGTGCCAGAAGGGCCTTGTGTCTTTTTAAACAGTTCATTTTAGTTTTCTTT
TCTTTTCATATCGAGCCTGCAAGCTGGTTTATCGATACTAACCATACCTTCTATGTGATCTTGC
TGTTTTTGCCAGGAGCGTGAAGAGAGACGCAAGAGACTAAAGAGAGAGCAGCAGGATGATGGGT
CAAGGCTACATTCCCAGCAGATTAGGAATGATTATGCTCCTCAACCCAAAAGACATAGTCGCAT
TAAAGAGGCACCTCAGGGTACGAAGTATTGGGCAGTTTGGGTTACTGATATATTCCACCTTGTG
TCCCCCCTGCCTATGCATTATTCTTTCCTTTCACTATCGTTTTTCCTATGTGGATTCTATACAT
AATATCTTGGTACAATTTCAGGCTGGCTGGACTGCCCTGCATTTGGGGAACCAATAGATAAAAT
CATACCATCTAAAGTTCCTCTTGACGAAACATTCAATGAGTCAGTGCCTCCTGGGAAGCGGTAC
TCCTCAAAGCAACTAGTTAACAAACAAAGAAAAGCTGGCCGCGAAGTAAGTATTGCTTGCTTGT
TCTTGTGGACCAAACTGTAGCCCCTCCTCCTAACTATCATGTGAAGGTAGTCTTCTTTTCTATT
TACCATTGTTGTATACAGAAATTTGGCTCATCGACATCATTCTGCCCCTAGAAATGAGTTTCTT
TTCTTGTCTACAACCCTAGTGTTTTAAAAAGAGGAGGTGTTAGGTGGTATTTATTTTCTAATCA
GCACTTGGTGGGCTAGATGATCATATATGTTTGATGGGTGGGTGGTTCTTAGTTGTCTGGTACC
ACATATGTGTGTTAGGAACCTACCTTTTTGGAGCAATGTGCAATTTCCTTTTTTTTGGTCTTGT
GGCTTCTCATGCCAGCAGGCAGCAAATCATCCTTCCATTTCCTTGTCTTCATCCTACAATGATA
TTTCTCCTGCACAGATATACCATCATTGCTTGCTCTGAGATCCTTCCAAACTTTTTCCAGTGCC
ATTGTCACCTTTGATGCCCCCTGAATGGCAAAAGGCAAAAGGGTGAATTCATCTGTATTAACAT
AAACCAGAGCAATTAGTTCTTTGTGCTGCACACACCAGTGTTATGTTCTCCAGTTGATTTTGAA
CCAGTGTTTTAAGGTGTTGGTCTAGTTGTTGCCTAGGTGAGAAAGTGCTAAGCCTAAGAAGGGA
GGGACTGCAGAAGAATTAAATACGATGAGGAGAACCAGCAGGCAGGCAACTCTCCCTTCGCATT
TCCCATCCTCGCTGGCTCCAGTCCAGTCCAGTACCGACCAATCTCTACGTTCGCTCTGGGAGGG
ACCAGTGGTGGAGCTCTATCTGGATAGTAGGTATAGAGGGAGGGGTGATTCAGGGGCTTCCGGG
TTACAGAACTGCATAGGTGCTTGTGGGCAGTGGATGGCATAGCTGAATAGGTGGTTGTGAGCTG
CTACATGCTCATCACAGTTCCTCTTGCTGTGCTTTGTTATGCTTGGTTCTAGGTTGTCGGTGGT
GTCGAGGATTGGGAGGCAGCATCCAGTGGATGACATAGATAGCTAGGGTGTAGACATGTCTTTA
GTTGATTATTAGTCGCTGACTGCGCTCGTGGTTGTGGTTCATTGGCACTCCTATTTAGTTCTGA
TATCCTATGGCCATCCTCTTTGCCTAGAGAGTAGACACCCTGCATAAATAGTGGCATGTATTCA
CTATTCCATATGCACATAAATGACAAATCACTTATGCTCCGTTTGGATGTCGATATTGGAGAGG
ATGGAATTGAATTGTGCTGAATAGCAAATCTGGCATGGTATTGAAATGAGATGTAATTCCAATT
CTATTGTTTGGATGCCACTGAATTGGAGTTTGGAATTGTGTTGTCTAATTCCACGCAATACCGA
GGGGCGATGCTTTGTATTGGGTGAGGAGGTTTCTAGTTATAGTCCAATTCCAGGGAATTGAGCC
TCTGATTTTAAATCTTAATTCCACGAGCAACCAAACAACAGAATTTAGTAAAGCTGATTCCAAT
TCCCAATTCTGTGCTCCAATATCTACATCCAAACGAGGTATTAGGCTTATGGCATCATTAGGTG
GGGTTTGTGGAATTCCATATAGAGTTAAAATATTGTTTCATCATCATTTTTCTTTGTTATGCCA
TTTCTTATGTGTATTTGTATGCACCAGTGCTCCTAAATGCTAAAAAATCGGTCACACATTGTTT
ATGCAAATATTGTGCAAAGCAGCCGTTTACTTAGGCTGACAGAACATACATTCTGTATTAACTT
CTAGTTTTCACATTTCAGATAGGTCTGGTGATTGATTTGACAAATACCACCCGATATTATTCAC
CAGCAGAATGGACGAAGCAAGGTACTAAGTATGCGAAGGTGAGATCGCTTAGCTTAAATGCTTT
ATTGTTTCTCAAGGACCTTTATCTTAACTAACAAAGTTTTGGTTTAGATTGCATGCAAGGGGAG
AGATGCTGTACCTGACAATGAATCTGTTAATAAGTTTGTCTATGAG
						
					

			
		

Sequences
Splice junction sequence	AAGGACCTTTATCTTAACTAACAAAGTTTTGGTTTAGATTGCATGCAAGGGGAGAGATGCTGTA CCTGACAATGAATCTGTTAATAAGTTTGTCTATGAGgtcattgaatgaccttctatacgaatat ggatttgaatgcatcaccggtgcctgacgatgatgagcaacagccttatgatgattcagttgag gttgggta
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: 578 Transcript exons: 128629157-128629302,128629937-128630069,128630202-128630 353,128632119-128632202,128632276-128632338 GTCATTGAATGACCTTCTATACGAATATGGATTTGAATGCATCACCGGTGCCTGACGATGATGA GCAACAGCCTTATGATGATTCAGTTGAGGTTGGGTATGCTCAGACGGAACATGTTGAATCTGCT GTTGCAACATTGCGCCGGGAGCGTGAAGAGAGACGCAAGAGACTAAAGAGAGAGCAGCAGGATG ATGGGTCAAGGCTACATTCCCAGCAGATTAGGAATGATTATGCTCCTCAACCCAAAAGACATAG TCGCATTAAAGAGGCACCTCAGGGCTGGCTGGACTGCCCTGCATTTGGGGAACCAATAGATAAA ATCATACCATCTAAAGTTCCTCTTGACGAAACATTCAATGAGTCAGTGCCTCCTGGGAAGCGGT ACTCCTCAAAGCAACTAGTTAACAAACAAAGAAAAGCTGGCCGCGAAATAGGTCTGGTGATTGA TTTGACAAATACCACCCGATATTATTCACCAGCAGAATGGACGAAGCAAGGTACTAAGTATGCG AAGATTGCATGCAAGGGGAGAGATGCTGTACCTGACAATGAATCTGTTAATAAGTTTGTCTATG AG
Genomic sequence	GTCATTGAATGACCTTCTATACGAATATGGATTTGAATGCATCACCGGTGCCTGACGATGATGA GCAACAGCCTTATGATGATTCAGTTGAGGTTGGGTATGCTCAGACGGAACATGTTGAATCTGCT GTTGCAACATTGCGCCGGGTACACAACTATCTTCATTGGTGTTGGTGTTTATTCCATGTACTGT GCGTCCGTGCCCTTGGCATATCTGCTCTTGCATCCACTGTTTTAAAGGCGTCGCCTAGGCGTTC AGCGGTGGTCCAACGCTAGGCGCCTTGCTCGCCTAGGCGTCCAGGCGGCAGTCCAACGCCTTGT CTCGCCATACCGCTTTAAAAACCATGCTTGTATCTTATTAATGATTGCTGATTAGGTACGATAA ATGTTGTTTAGTACCCACGTTTACCTTTGCTGGGTTGACATTATTAGCCGAAGGAAATGCCTCA CAAAGTGAGGGACCCTCTTAACTATAGTTTATATATGTATTAAATAGTGGAATATCTTAATGTG CACCACAGGTGTAGTGAATTATACATTGGATTTGTAGTAGAACCATTATTTTGAAGTTCAATAT GTTTCCTTGTTGAAGGGTGATTTACTTTGACTGCCTTAATACTGCATACATACTGGTACACATG CATTGTTTATCTATGTGCCAGAAGGGCCTTGTGTCTTTTTAAACAGTTCATTTTAGTTTTCTTT TCTTTTCATATCGAGCCTGCAAGCTGGTTTATCGATACTAACCATACCTTCTATGTGATCTTGC TGTTTTTGCCAGGAGCGTGAAGAGAGACGCAAGAGACTAAAGAGAGAGCAGCAGGATGATGGGT CAAGGCTACATTCCCAGCAGATTAGGAATGATTATGCTCCTCAACCCAAAAGACATAGTCGCAT TAAAGAGGCACCTCAGGGTACGAAGTATTGGGCAGTTTGGGTTACTGATATATTCCACCTTGTG TCCCCCCTGCCTATGCATTATTCTTTCCTTTCACTATCGTTTTTCCTATGTGGATTCTATACAT AATATCTTGGTACAATTTCAGGCTGGCTGGACTGCCCTGCATTTGGGGAACCAATAGATAAAAT CATACCATCTAAAGTTCCTCTTGACGAAACATTCAATGAGTCAGTGCCTCCTGGGAAGCGGTAC TCCTCAAAGCAACTAGTTAACAAACAAAGAAAAGCTGGCCGCGAAGTAAGTATTGCTTGCTTGT TCTTGTGGACCAAACTGTAGCCCCTCCTCCTAACTATCATGTGAAGGTAGTCTTCTTTTCTATT TACCATTGTTGTATACAGAAATTTGGCTCATCGACATCATTCTGCCCCTAGAAATGAGTTTCTT TTCTTGTCTACAACCCTAGTGTTTTAAAAAGAGGAGGTGTTAGGTGGTATTTATTTTCTAATCA GCACTTGGTGGGCTAGATGATCATATATGTTTGATGGGTGGGTGGTTCTTAGTTGTCTGGTACC ACATATGTGTGTTAGGAACCTACCTTTTTGGAGCAATGTGCAATTTCCTTTTTTTTGGTCTTGT GGCTTCTCATGCCAGCAGGCAGCAAATCATCCTTCCATTTCCTTGTCTTCATCCTACAATGATA TTTCTCCTGCACAGATATACCATCATTGCTTGCTCTGAGATCCTTCCAAACTTTTTCCAGTGCC ATTGTCACCTTTGATGCCCCCTGAATGGCAAAAGGCAAAAGGGTGAATTCATCTGTATTAACAT AAACCAGAGCAATTAGTTCTTTGTGCTGCACACACCAGTGTTATGTTCTCCAGTTGATTTTGAA CCAGTGTTTTAAGGTGTTGGTCTAGTTGTTGCCTAGGTGAGAAAGTGCTAAGCCTAAGAAGGGA GGGACTGCAGAAGAATTAAATACGATGAGGAGAACCAGCAGGCAGGCAACTCTCCCTTCGCATT TCCCATCCTCGCTGGCTCCAGTCCAGTCCAGTACCGACCAATCTCTACGTTCGCTCTGGGAGGG ACCAGTGGTGGAGCTCTATCTGGATAGTAGGTATAGAGGGAGGGGTGATTCAGGGGCTTCCGGG TTACAGAACTGCATAGGTGCTTGTGGGCAGTGGATGGCATAGCTGAATAGGTGGTTGTGAGCTG CTACATGCTCATCACAGTTCCTCTTGCTGTGCTTTGTTATGCTTGGTTCTAGGTTGTCGGTGGT GTCGAGGATTGGGAGGCAGCATCCAGTGGATGACATAGATAGCTAGGGTGTAGACATGTCTTTA GTTGATTATTAGTCGCTGACTGCGCTCGTGGTTGTGGTTCATTGGCACTCCTATTTAGTTCTGA TATCCTATGGCCATCCTCTTTGCCTAGAGAGTAGACACCCTGCATAAATAGTGGCATGTATTCA CTATTCCATATGCACATAAATGACAAATCACTTATGCTCCGTTTGGATGTCGATATTGGAGAGG ATGGAATTGAATTGTGCTGAATAGCAAATCTGGCATGGTATTGAAATGAGATGTAATTCCAATT CTATTGTTTGGATGCCACTGAATTGGAGTTTGGAATTGTGTTGTCTAATTCCACGCAATACCGA GGGGCGATGCTTTGTATTGGGTGAGGAGGTTTCTAGTTATAGTCCAATTCCAGGGAATTGAGCC TCTGATTTTAAATCTTAATTCCACGAGCAACCAAACAACAGAATTTAGTAAAGCTGATTCCAAT TCCCAATTCTGTGCTCCAATATCTACATCCAAACGAGGTATTAGGCTTATGGCATCATTAGGTG GGGTTTGTGGAATTCCATATAGAGTTAAAATATTGTTTCATCATCATTTTTCTTTGTTATGCCA TTTCTTATGTGTATTTGTATGCACCAGTGCTCCTAAATGCTAAAAAATCGGTCACACATTGTTT ATGCAAATATTGTGCAAAGCAGCCGTTTACTTAGGCTGACAGAACATACATTCTGTATTAACTT CTAGTTTTCACATTTCAGATAGGTCTGGTGATTGATTTGACAAATACCACCCGATATTATTCAC CAGCAGAATGGACGAAGCAAGGTACTAAGTATGCGAAGGTGAGATCGCTTAGCTTAAATGCTTT ATTGTTTCTCAAGGACCTTTATCTTAACTAACAAAGTTTTGGTTTAGATTGCATGCAAGGGGAG AGATGCTGTACCTGACAATGAATCTGTTAATAAGTTTGTCTATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.097581731

Conservation Information
Conserved circRNAs	NA
PMCS	0.097581731

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							128632196-128629208(+)
128629296-128632163(-)
						
						Potential amino acid sequence
						
							MRRLHARGEMLYLTMNLLISLSMRSLNDLLYEYGFECITGA*(+)
MLQQQIQHVPSEHTQPQLNHHKAVAHHRQAPVMHSNPYSYRRSFNDLIDKLINRFIVRYSISPL
ACNLRILSTLLRPFCW*(-)
						
						Sponge-miRNAs
						
							zma-miR482-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	128632196-128629208(+) 128629296-128632163(-)
Potential amino acid sequence	MRRLHARGEMLYLTMNLLISLSMRSLNDLLYEYGFECITGA(+) MLQQQIQHVPSEHTQPQLNHHKAVAHHRQAPVMHSNPYSYRRSFNDLIDKLINRFIVRYSISPL ACNLRILSTLLRPFCW(-)
Sponge-miRNAs	zma-miR482-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d004669_circ_g.1

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