Plant Circular RNA Database

Detail information of Zm00001d016535_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d016535_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008704
					
						Alias
						Zm05circ00095, zma_circ_0002021
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 166644817-166647466  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d016535						
					
						Parent gene annotation
						
							Ethylene-responsive transcription factor-like protein 
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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
						Zm00001d016535_T001:4
Zm00001d016535_T002:4

General Information
CircRNA Name	Zm00001d016535_circ_g.1
ID in PlantcircBase	zma_circ_008704
Alias	Zm05circ00095, zma_circ_0002021
Organism	Zea mays
Position	chr5: 166644817-166647466 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d016535
Parent gene annotation	Ethylene-responsive transcription factor-like protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm, 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	Zm00001d016535_T001:4 Zm00001d016535_T002:4

			
						 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  
						
							TCAAAAATATGAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTACTGT
TGGGACACAGGACGAAGCAGCCCGGCTTTATGATAGgtggcatttgaagtatggttagcttgag
gcgacgccgactattgggtctttgttctggtaataggaactcatttcgtaccttgaaatatctt
gcaagatg

									
								

					

						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: 424
Transcript exons: 166644817-166644873,166645988-166646094,166646382-166646
460,166647286-166647466
GTGGCATTTGAAGTATGGTTAGCTTGAGGCGACGCCGACTATTGGGTCTTTGTTCTGGGAAAGA
CTCATTGCCAGTTGATCTTCCTAAGCCGATTGAAAATGAAAAAACTGTGGAAGTTGCACACTCC
AATGTGAAGCCATTCAGTGTGCATCCACTACCCTTGGCAAAGACTTCTGATGTGCTCATAAAAT
CCTCAAATGGTTCTGATGATTCAAAGGAAGAGAAAACCCAGTACTATCCAGGCAAGGAAATCAA
GTGCAGAAAACGGCATAGAAGAAAGCAGTATGTGGATCAAGAGCCATGCATTATGAGGGGGGTT
TATTTCAAAAATATGAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTA
CTGTTGGGACACAGGACGAAGCAGCCCGGCTTTATGATAG
						
					

						Genomic sequence
						
							GTGGCATTTGAAGTATGGTTAGCTTGAGGCGACGCCGACTATTGGGTCTTTGTTCTGGTAATAG
GAACTCATTTCGTACCTTGAAATATCTTGCAAGATGTAAAAATTGTTCATAGGATTTATGTTAT
GAAAAGAACATCTTTTTCTGTATATGAAGTAGCATAGCACATTTTTTCCTCGAAGACGCATGAG
AGCAGCACATCATCAATTAAGATGATAAAGGGGTGGGGGTAGGGGTGAGAACTGAGAACCCCAC
CCAACACAAGAATACATACCAACTCACACACACAGCACTGTCCTTGCACTACAGACGGCCAGAA
GACCAAAGGAGCTGAGAGCCTAGCCTTCTGAGTTCTGAGATGGGGGGCAGTCAAGAGGGATGGG
ATATACCCCGAGCCCCAGCCAAGGACCATAACTTTCTTCCCTCTCCAGCAATGGTCAGTGCACC
TGTGATACTTGGAGCTGCTCCATAAAAATTCATAGGTTGCAGTGTGCCAATATAATCTAAGGCC
TCGTTTGTTTCCCTTCATTTTGAAGAATTGGAATCTAACTAATGGAGTACACTATTTTTTTAGA
ATGTGACATTCCCCAACTTTCCAAAGTTTATATATAAGTTTATCTCAAATTCATGGAGTGAGAG
ATAGAAATTGATTCTATAGATTTACATGCTACTTTTCTAATGTACAACTTATAGCACACTCTTC
TACTTGCTTCTCTATAGCTATCTCTCTAATATGATTTAGGATAATATACAAATATATTACGTAT
ACAAATATATTAACTTAACTAGTTTGTGTCTAAATTATGATTATTAGAATGTAATTCAATTCCA
ACGAAACAAACAGTAGCACCAGTCACTTTTCCCCACCTAGGATTTTTTTGTTTGTTTGGTGTTT
GACCTAGTGTTAGTTCTGGCTGTGTCAGAGTGTTCTGCTGTACTGGGGATCTTCCCCTTTTCTT
TTTCTCTCTTCTTAATATAATGATGCACAACTCTCCCGCGTATTCGAGAATAAAGAAGTATTCT
TTTTCTCTACTACTAGAACCTAATGAAGATACCATATTTGACGTTAACAGAAGTATAAAGCCTT
ATCTGGGATCATCTATATCTATATCAACAAAGATGTTGGATATATGTTTTGAGTAATCTCATGA
GTTTAGCTTTTTATTTCAGGGAAAGACTCATTGCCAGTTGATCTTCCTAAGCCGATTGAAAATG
AAAAAACTGTGGAAGTTGCACACTCCAATGTGAAGCCATTCAGTGTGCATCCACTACCCTTGGT
ATGCATAATTACTTTTTGTATGTTGAGGAAGTATTTTGCACAGGAGTATATTGGTGCACATGCT
CACACTCACACTGAAATGATTTTCTAGATAACGGAATAAAAAATATCACGGTTTGTGTAGATAT
TGCCTGCTTATTGTATCCTTTTCTACTTAAGATATCCCGATGAGTTTTGTAGTGACATTTGTGT
AGTACTTGCATTCTGCTTCAAGCTTTACTGAATATTTGATGGCTACAATGGCAAGTATGATTTT
GCTTAACAAAAATTGCCTTTTCCTCACAGGCAAAGACTTCTGATGTGCTCATAAAATCCTCAAA
TGGTTCTGATGATTCAAAGGAAGAGAAAACCCAGTACTATCCAGGTCTATACTTCATCCTTATT
CTGTATTATTGGCATTTCTTCACTTTATGTCCAGGTTACTTGTGGTTATGGTACTTAAATAGAA
GTTTATATTTTAGAATTCTGTATTCGAAATCTCAGAGAACTTGTGCTTTCTTCATTGTCACAAT
CTGAAATGTCCTTAAAGATATACTACCTCCGTTCTCGAATATTTGTCGCCCCCTAGTTTATTTT
TGAACTAAAACGCGACAAATAAAAAAGAACGGAGGGAGTAGTTTGCAATAGGATTTTTTTGCAT
GACAATTTTTTTCTTGTATAACTGTGCTGGTAATGTATCATTAGAGCAACTCTAATAGTTATGT
AAATTTTAGCTCTCTAAATCACAGATTTAAGAAGTTACTAAATAACTTTGGGAGTAAAAAAATG
AGAGTTCTCCAAAAGTTCTCTAAATAGGTTGTAGTTTTGTTTTGTATTTATTCAAGTCCAAAAA
ACAAGTCACAAATGTCATCAATTACTTTCATTATCTATATAATGCAGCCAACATTTTTGTTTAA
GGAGTTGCTAAATGGTTGTCAAATGTAGAGAGGAAATGAGGTTAGATGAGAAGTTGCTAAATTT
AGGAAGTTCATTTAGAGAACTGTTGGAGATAAGTTTTTATGTCAACTAACTAAATTATTGATTT
AGAAAGCCTTTTAGAGAACTACTGGAGTTGCTCTTAGGGCCTGTAGCTATTCCCTAAAGGGCTC
CTTGTACCTTTTCTTTCGTGTGTCTTAATCCTCTTCAGTTGTACATTACAGTTTACTCCACAGC
TGATAAGATAAATGCATTTTTTCCCTTATTACTTCAGGCAAGGAAATCAAGTGCAGAAAACGGC
ATAGAAGAAAGCAGTATGTGGATCAAGAGCCATGCATTATGAGGGGGGTTTATTTCAAAAATAT
GAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTACTGTTGGGACACAG
GACGAAGCAGCCCGGCTTTATGATAG
						
					

			
		

Sequences
Splice junction sequence	TCAAAAATATGAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTACTGT TGGGACACAGGACGAAGCAGCCCGGCTTTATGATAGgtggcatttgaagtatggttagcttgag gcgacgccgactattgggtctttgttctggtaataggaactcatttcgtaccttgaaatatctt gcaagatg
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: 424 Transcript exons: 166644817-166644873,166645988-166646094,166646382-166646 460,166647286-166647466 GTGGCATTTGAAGTATGGTTAGCTTGAGGCGACGCCGACTATTGGGTCTTTGTTCTGGGAAAGA CTCATTGCCAGTTGATCTTCCTAAGCCGATTGAAAATGAAAAAACTGTGGAAGTTGCACACTCC AATGTGAAGCCATTCAGTGTGCATCCACTACCCTTGGCAAAGACTTCTGATGTGCTCATAAAAT CCTCAAATGGTTCTGATGATTCAAAGGAAGAGAAAACCCAGTACTATCCAGGCAAGGAAATCAA GTGCAGAAAACGGCATAGAAGAAAGCAGTATGTGGATCAAGAGCCATGCATTATGAGGGGGGTT TATTTCAAAAATATGAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTA CTGTTGGGACACAGGACGAAGCAGCCCGGCTTTATGATAG
Genomic sequence	GTGGCATTTGAAGTATGGTTAGCTTGAGGCGACGCCGACTATTGGGTCTTTGTTCTGGTAATAG GAACTCATTTCGTACCTTGAAATATCTTGCAAGATGTAAAAATTGTTCATAGGATTTATGTTAT GAAAAGAACATCTTTTTCTGTATATGAAGTAGCATAGCACATTTTTTCCTCGAAGACGCATGAG AGCAGCACATCATCAATTAAGATGATAAAGGGGTGGGGGTAGGGGTGAGAACTGAGAACCCCAC CCAACACAAGAATACATACCAACTCACACACACAGCACTGTCCTTGCACTACAGACGGCCAGAA GACCAAAGGAGCTGAGAGCCTAGCCTTCTGAGTTCTGAGATGGGGGGCAGTCAAGAGGGATGGG ATATACCCCGAGCCCCAGCCAAGGACCATAACTTTCTTCCCTCTCCAGCAATGGTCAGTGCACC TGTGATACTTGGAGCTGCTCCATAAAAATTCATAGGTTGCAGTGTGCCAATATAATCTAAGGCC TCGTTTGTTTCCCTTCATTTTGAAGAATTGGAATCTAACTAATGGAGTACACTATTTTTTTAGA ATGTGACATTCCCCAACTTTCCAAAGTTTATATATAAGTTTATCTCAAATTCATGGAGTGAGAG ATAGAAATTGATTCTATAGATTTACATGCTACTTTTCTAATGTACAACTTATAGCACACTCTTC TACTTGCTTCTCTATAGCTATCTCTCTAATATGATTTAGGATAATATACAAATATATTACGTAT ACAAATATATTAACTTAACTAGTTTGTGTCTAAATTATGATTATTAGAATGTAATTCAATTCCA ACGAAACAAACAGTAGCACCAGTCACTTTTCCCCACCTAGGATTTTTTTGTTTGTTTGGTGTTT GACCTAGTGTTAGTTCTGGCTGTGTCAGAGTGTTCTGCTGTACTGGGGATCTTCCCCTTTTCTT TTTCTCTCTTCTTAATATAATGATGCACAACTCTCCCGCGTATTCGAGAATAAAGAAGTATTCT TTTTCTCTACTACTAGAACCTAATGAAGATACCATATTTGACGTTAACAGAAGTATAAAGCCTT ATCTGGGATCATCTATATCTATATCAACAAAGATGTTGGATATATGTTTTGAGTAATCTCATGA GTTTAGCTTTTTATTTCAGGGAAAGACTCATTGCCAGTTGATCTTCCTAAGCCGATTGAAAATG AAAAAACTGTGGAAGTTGCACACTCCAATGTGAAGCCATTCAGTGTGCATCCACTACCCTTGGT ATGCATAATTACTTTTTGTATGTTGAGGAAGTATTTTGCACAGGAGTATATTGGTGCACATGCT CACACTCACACTGAAATGATTTTCTAGATAACGGAATAAAAAATATCACGGTTTGTGTAGATAT TGCCTGCTTATTGTATCCTTTTCTACTTAAGATATCCCGATGAGTTTTGTAGTGACATTTGTGT AGTACTTGCATTCTGCTTCAAGCTTTACTGAATATTTGATGGCTACAATGGCAAGTATGATTTT GCTTAACAAAAATTGCCTTTTCCTCACAGGCAAAGACTTCTGATGTGCTCATAAAATCCTCAAA TGGTTCTGATGATTCAAAGGAAGAGAAAACCCAGTACTATCCAGGTCTATACTTCATCCTTATT CTGTATTATTGGCATTTCTTCACTTTATGTCCAGGTTACTTGTGGTTATGGTACTTAAATAGAA GTTTATATTTTAGAATTCTGTATTCGAAATCTCAGAGAACTTGTGCTTTCTTCATTGTCACAAT CTGAAATGTCCTTAAAGATATACTACCTCCGTTCTCGAATATTTGTCGCCCCCTAGTTTATTTT TGAACTAAAACGCGACAAATAAAAAAGAACGGAGGGAGTAGTTTGCAATAGGATTTTTTTGCAT GACAATTTTTTTCTTGTATAACTGTGCTGGTAATGTATCATTAGAGCAACTCTAATAGTTATGT AAATTTTAGCTCTCTAAATCACAGATTTAAGAAGTTACTAAATAACTTTGGGAGTAAAAAAATG AGAGTTCTCCAAAAGTTCTCTAAATAGGTTGTAGTTTTGTTTTGTATTTATTCAAGTCCAAAAA ACAAGTCACAAATGTCATCAATTACTTTCATTATCTATATAATGCAGCCAACATTTTTGTTTAA GGAGTTGCTAAATGGTTGTCAAATGTAGAGAGGAAATGAGGTTAGATGAGAAGTTGCTAAATTT AGGAAGTTCATTTAGAGAACTGTTGGAGATAAGTTTTTATGTCAACTAACTAAATTATTGATTT AGAAAGCCTTTTAGAGAACTACTGGAGTTGCTCTTAGGGCCTGTAGCTATTCCCTAAAGGGCTC CTTGTACCTTTTCTTTCGTGTGTCTTAATCCTCTTCAGTTGTACATTACAGTTTACTCCACAGC TGATAAGATAAATGCATTTTTTCCCTTATTACTTCAGGCAAGGAAATCAAGTGCAGAAAACGGC ATAGAAGAAAGCAGTATGTGGATCAAGAGCCATGCATTATGAGGGGGGTTTATTTCAAAAATAT GAAATGGCAGGCTGCCATAAAAGTTGACAAGAAACAGATTCACTTGGGTACTGTTGGGACACAG GACGAAGCAGCCCGGCTTTATGATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.146873673

Conservation Information
Conserved circRNAs	NA
PMCS	0.146873673

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							166644832-166644835(+)
166646406-166646432(-)
						
						Potential amino acid sequence
						
							MVSLRRRRLLGLCSGKDSLPVDLPKPIENEKTVEVAHSNVKPFSVHPLPLAKTSDVLIKSSNGS
DDSKEEKTQYYPGKEIKCRKRHRRKQYVDQEPCIMRGVYFKNMKWQAAIKVDKKQIHLGTVGTQ
DEAARLYDRWHLKYG*(+)
MSTSEVFAKGSGCTLNGFTLECATSTVFSFSIGLGRSTGNESFPEQRPNSRRRLKLTILQMPPI
IKPGCFVLCPNSTQVNLFLVNFYGSLPFHIFEINPPHNAWLLIHILLSSMPFSALDFLAWIVLG
FLFL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	166644832-166644835(+) 166646406-166646432(-)
Potential amino acid sequence	MVSLRRRRLLGLCSGKDSLPVDLPKPIENEKTVEVAHSNVKPFSVHPLPLAKTSDVLIKSSNGS DDSKEEKTQYYPGKEIKCRKRHRRKQYVDQEPCIMRGVYFKNMKWQAAIKVDKKQIHLGTVGTQ DEAARLYDRWHLKYG(+) MSTSEVFAKGSGCTLNGFTLECATSTVFSFSIGLGRSTGNESFPEQRPNSRRRLKLTILQMPPI IKPGCFVLCPNSTQVNLFLVNFYGSLPFHIFEINPPHNAWLLIHILLSSMPFSALDFLAWIVLG FLFL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b

circRNA

Detail information of Zm00001d016535_circ_g.1

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