Plant Circular RNA Database

Detail information of Zm00001d013444_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d013444_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008395
					
						Alias
						zma_circ_0001855
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 11740062-11743626  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d013444						
					
						Parent gene annotation
						
							Protein CASP
							
						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
						Zm00001d013444_T001:4
Zm00001d013444_T004:4
Zm00001d013444_T003:4
Zm00001d013444_T005:4
Zm00001d013444_T007:4
Zm00001d013444_T008:4
Zm00001d013444_T006:5
Zm00001d013444_T002:5

General Information
CircRNA Name	Zm00001d013444_circ_g.1
ID in PlantcircBase	zma_circ_008395
Alias	zma_circ_0001855
Organism	Zea mays
Position	chr5: 11740062-11743626 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d013444
Parent gene annotation	Protein CASP
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	Zm00001d013444_T001:4 Zm00001d013444_T004:4 Zm00001d013444_T003:4 Zm00001d013444_T005:4 Zm00001d013444_T007:4 Zm00001d013444_T008:4 Zm00001d013444_T006:5 Zm00001d013444_T002:5

			
						 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  
						
							GTAATACCTGCAAAATCTGAACCTTTTTCTTGAGATCATCTACCAGTTTTTGTGTAGGTCTTTC
CTGGAGTTCTTTCTTCAACTCCATAAGAGCACTTTCctcctcagtttcacgcagacgtgcacgg
aaacgatccctctggttgcaaatgaccttgagcatcgaactttgatcttgatctgccgatgcat
gccttgga

									
								

					

						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
						
							CTCCTCAGTTTCACGCAGACGTGCACGGAAACGATCCCTCTGGTTGCAAATGACCTTGAGCATC
GAACTTTGATCTTGATCTGCCGATGCATGCCTTGGATCAGAGCCCTGCAAATAAAAGACACAAG
TGAATCTGAGAAAAGTGGGCATCCCACTACACACAGAGGGTAAATAGAGTCAGATTATAATAAC
CTTAGTAACTACGTTCCAGGATCGATGGGATTGAGAAACGGGAACGTGGTACATTACTAAATCT
AGGTTTTAACACAAACGAGAACGAATGTTCTTGGAACGAGGAACGTGGCCAAGTTCCATGTTCC
TAGTTTCTAAGAATGAAACCATAAACTAGTAATTAGAAATAAAATAAATAAAAAGGGAGGTGGG
ATGAGTTTTACACAAAGATAGATTATTACTAAAGTCAGGTGGTCCGAGTAGCACTCCTCAAGTC
CTGAGTTCGAATCCCAGTGGGAGCGAATTTCAGGTGAGGTTAAAAAATGTCATTCACCAGTTCC
CCTGGTTGTGTGCACACGAGATGGACTAGCCTATGGGGGCGGATCCTCGTGTAGGATTGGGAGG
GCTCAAAGCACGAGTAAATATTTGGCCTGTAGGGGGCGGACCCTCATGCTGCACGGGAGGCCAG
CTTTTCTGACCTTTATCAGTCGGGGCTCCAATTGAACTTCTTCTTAATATAATACCGTGAAGGC
GGTATTTCCCCTACCACCGAGTTTTTTTTAAGAATGAAACCATAATGGTAGATAGATGAAAACT
CGAAGCAAGTACATACATTTATAGCCAACTATACTGCCAAAAGTACATGTACAGCAAGCACAAT
ATAAGCAAAATTCTTGGCAAATTAGCATATTTGCATAAATTAATGTCTAGAATGGTGAATTCTG
GACACAGATATCTGCATATATTACCAAATATTTCACTAGCATGCATGGTTTTTAAAGCGGTAAG
GCGGTCCAAGGCGTTGGAGCACCGCCTGGATGCCTAGACGATGCCTAGGCGAGGTAGGCAGGCA
AGGCGCCTAGGCGTTAGACCACTGCCCGGACGCCTAGGCGTCGCCTATGCGACGCCTTAAGAAC
AGAGCTAGCATGTCTACAAAATCAGAACATTGGAGCTGTTATTTATGCTGGCAATGGAGCTGTT
AGTAAAGAACCAAAGGTAAGTACAACCATTAATACAGAAAACGATTGTAAATACAAGTATTCTA
GAACAAACTTCACAGCATATCTTAAAATAAACAAAAGTTATTGCAAACAACAGCAAGATAGGGT
GTGATTGTTAGACTTAATCTTGAGTTCTTGACTAGTTAGTTTTTGTTGATTAAGTGTGTGTGTG
TTAGTGAAGTGCTACTCTGAGTTGTGCTGCAAATGTTGTCGAGTGGCTGGCCGAGCTGCCAAGT
TGTGTGGCAAGCCAGTACACCAAGTGGACGTGTTATTTGTGTGCAAGTGCAGATCATGCACGGT
GCAGAGGAGACTCCGTGGTGTGCGTGGAGGAGTTGTGGAGCTGCAGGCAGAGCGCTAGACGTGG
CTGGGTTGTCAGGTGTTCGTTGGTGGTGCTAGTCTTTAGGGCCAAGCAGGTGTTTGCCTATCTA
GTCTGAGATGCGGTGGTCATCCGGTGGAATCCCATCAAGCCTGGAGATTATGTGCTTGCATGCA
GGAGTACGTGCGTCTTAGCGTGTGTATGGGCAATAATGGCCGCATACTTAGCGCTTAAGCATGT
CATTACTTCTTTATCCAAAGTGTGCAGTGTTTGTTCGCAGAGTAATAGTGTGTACTGCACAAGT
GCTGTGCGTGAGCAGCGTGTCCTGTGTGGGTACTGGCGTGCAGTGCCGCCGTGAACAAGTGTGT
GCTGTTGTGAGAATTCTTTTGTCCACCAAGAAGCTAGCAAGGGCTGCTTGCTTGTGCTGTTTCA
TCCTCTTCTCTTCTTATCTTCTCCTTGAGCCAATTGCAAGAGTGTTGTGTGAGAGAGTGAACTG
GGTCAACAATGGGTATCAGAGCTCAGGTCGGCCCAGTGCATTCGCAGACAAAACTTGGCTCACA
ATGTTTGAAGGGGAGATTGACCAATTGTTGGAACCGGACCGCCGATACACGGCGCACCCGCACA
CACACCCAGGCCATTGGGCCATGACACCCGCACCTGAACGCACATCAACGAGCTATAGGTCTAT
TGGACCAACACTCCCCCTCCCTAAAAAGCTAGCCCTTTAAGTCGCCTTCATCCATATAAACCAT
GATTGCCCACCCACAACTCATAATGTGGGGCTATTCCAACAGTGATTAGCAAAACTAAACTAGA
AATTACCTCAGATGCTTCACTTGAGCCGATTTCTTGAATATCCCAGTCATTCAAGAGTGAGCCC
CTCCTATCAGTTGAACTGTAGCCCTGCATAGATGATGAACATCAGATCTATGCCCTTCTGAAAA
GTATAGCAATAATATAGAAGACTTGGTTTCTAACATCTGAATTCCGAAACACGGAATTATGTAG
TTATAACAACACTGACAATATTCAGTTTCAGGTTGCAGTTCTGAAGTCTCATGCATGCTAAATG
CACAAGATTCTATGAATAATTGTAGGAAGCTACTATTAACAGGTATCAGGTGAATAATCAAATG
AGCATGCAAACCAACCTTTAGTATGTCATCCTCAAGTTTCAAAATCAGCTTTTGCTGCTCTTCA
ACCTTTGAAGTTAGTTCAACAATCCTTTTTTCAGCTTCCTCAAGAACACTTGTTTTCTCTGATA
TTTTAACCTTTAAAATTAAGCAAATCAGCCAGTCCAATAGGTAAACGTAACAGATACGTTGTAA
CCTTGCATGCATGTTAAAAACTAATGTCCTTAGAGAAAATTGATTAAACCACCACGGCTTCCAG
CATCCAAACTAGAGGTACCTTCAGTTGTGTTAGCTCATGCTCCATTTTACGGTTCTTGTCTAGA
AGCAATGCTTCCAACTTGCTCATTTCTTCACCATTAGTAGCAAGCTCCCAGTCTTCAGCTTCAA
TGGAGTTGTAACCAACAGCCTGTCGGAAGAAATACTGGTGTCAGGAGGACGACAGACTAAAGAA
TCAAAAGAAAGATGAAATCACATGCAGTAATGGCAAAAGGTACAACACTAACCATATGGCAAAT
AAATCATTTTTAGGATCATCAACAAGGCATCACAATGAACCCTAAATATATCATTTTAGGGAGA
ATGGAACACAGTAAGCTGACCTAATGTATTATTTAGATTTGATTGAAAGAATGTGTGTGCGTTG
AGAACAACCTTTTATAGGATATAGTTGCAGACTCGCAGTTAAGAATCTAGAAATTAGCAGTCAG
TGTTCAACTAGCCTACCACAACTTGCTTGGGACTACAAGGCTTTGTTGTTGTTGTAGTGCTTAA
CACCATGGTGGACTGGTAGTCCCAAAAAAGGTTAGTACTGTTCCAGTTGCAGTGAACAAGAATT
TTTTTTGTTGTAATACCTGCAAAATCTGAACCTTTTTCTTGAGATCATCTACCAGTTTTTGTGT
AGGTCTTTCCTGGAGTTCTTTCTTCAACTCCATAAGAGCACTTTC
						
					

			
		

Sequences
Splice junction sequence	GTAATACCTGCAAAATCTGAACCTTTTTCTTGAGATCATCTACCAGTTTTTGTGTAGGTCTTTC CTGGAGTTCTTTCTTCAACTCCATAAGAGCACTTTCctcctcagtttcacgcagacgtgcacgg aaacgatccctctggttgcaaatgaccttgagcatcgaactttgatcttgatctgccgatgcat gccttgga
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	CTCCTCAGTTTCACGCAGACGTGCACGGAAACGATCCCTCTGGTTGCAAATGACCTTGAGCATC GAACTTTGATCTTGATCTGCCGATGCATGCCTTGGATCAGAGCCCTGCAAATAAAAGACACAAG TGAATCTGAGAAAAGTGGGCATCCCACTACACACAGAGGGTAAATAGAGTCAGATTATAATAAC CTTAGTAACTACGTTCCAGGATCGATGGGATTGAGAAACGGGAACGTGGTACATTACTAAATCT AGGTTTTAACACAAACGAGAACGAATGTTCTTGGAACGAGGAACGTGGCCAAGTTCCATGTTCC TAGTTTCTAAGAATGAAACCATAAACTAGTAATTAGAAATAAAATAAATAAAAAGGGAGGTGGG ATGAGTTTTACACAAAGATAGATTATTACTAAAGTCAGGTGGTCCGAGTAGCACTCCTCAAGTC CTGAGTTCGAATCCCAGTGGGAGCGAATTTCAGGTGAGGTTAAAAAATGTCATTCACCAGTTCC CCTGGTTGTGTGCACACGAGATGGACTAGCCTATGGGGGCGGATCCTCGTGTAGGATTGGGAGG GCTCAAAGCACGAGTAAATATTTGGCCTGTAGGGGGCGGACCCTCATGCTGCACGGGAGGCCAG CTTTTCTGACCTTTATCAGTCGGGGCTCCAATTGAACTTCTTCTTAATATAATACCGTGAAGGC GGTATTTCCCCTACCACCGAGTTTTTTTTAAGAATGAAACCATAATGGTAGATAGATGAAAACT CGAAGCAAGTACATACATTTATAGCCAACTATACTGCCAAAAGTACATGTACAGCAAGCACAAT ATAAGCAAAATTCTTGGCAAATTAGCATATTTGCATAAATTAATGTCTAGAATGGTGAATTCTG GACACAGATATCTGCATATATTACCAAATATTTCACTAGCATGCATGGTTTTTAAAGCGGTAAG GCGGTCCAAGGCGTTGGAGCACCGCCTGGATGCCTAGACGATGCCTAGGCGAGGTAGGCAGGCA AGGCGCCTAGGCGTTAGACCACTGCCCGGACGCCTAGGCGTCGCCTATGCGACGCCTTAAGAAC AGAGCTAGCATGTCTACAAAATCAGAACATTGGAGCTGTTATTTATGCTGGCAATGGAGCTGTT AGTAAAGAACCAAAGGTAAGTACAACCATTAATACAGAAAACGATTGTAAATACAAGTATTCTA GAACAAACTTCACAGCATATCTTAAAATAAACAAAAGTTATTGCAAACAACAGCAAGATAGGGT GTGATTGTTAGACTTAATCTTGAGTTCTTGACTAGTTAGTTTTTGTTGATTAAGTGTGTGTGTG TTAGTGAAGTGCTACTCTGAGTTGTGCTGCAAATGTTGTCGAGTGGCTGGCCGAGCTGCCAAGT TGTGTGGCAAGCCAGTACACCAAGTGGACGTGTTATTTGTGTGCAAGTGCAGATCATGCACGGT GCAGAGGAGACTCCGTGGTGTGCGTGGAGGAGTTGTGGAGCTGCAGGCAGAGCGCTAGACGTGG CTGGGTTGTCAGGTGTTCGTTGGTGGTGCTAGTCTTTAGGGCCAAGCAGGTGTTTGCCTATCTA GTCTGAGATGCGGTGGTCATCCGGTGGAATCCCATCAAGCCTGGAGATTATGTGCTTGCATGCA GGAGTACGTGCGTCTTAGCGTGTGTATGGGCAATAATGGCCGCATACTTAGCGCTTAAGCATGT CATTACTTCTTTATCCAAAGTGTGCAGTGTTTGTTCGCAGAGTAATAGTGTGTACTGCACAAGT GCTGTGCGTGAGCAGCGTGTCCTGTGTGGGTACTGGCGTGCAGTGCCGCCGTGAACAAGTGTGT GCTGTTGTGAGAATTCTTTTGTCCACCAAGAAGCTAGCAAGGGCTGCTTGCTTGTGCTGTTTCA TCCTCTTCTCTTCTTATCTTCTCCTTGAGCCAATTGCAAGAGTGTTGTGTGAGAGAGTGAACTG GGTCAACAATGGGTATCAGAGCTCAGGTCGGCCCAGTGCATTCGCAGACAAAACTTGGCTCACA ATGTTTGAAGGGGAGATTGACCAATTGTTGGAACCGGACCGCCGATACACGGCGCACCCGCACA CACACCCAGGCCATTGGGCCATGACACCCGCACCTGAACGCACATCAACGAGCTATAGGTCTAT TGGACCAACACTCCCCCTCCCTAAAAAGCTAGCCCTTTAAGTCGCCTTCATCCATATAAACCAT GATTGCCCACCCACAACTCATAATGTGGGGCTATTCCAACAGTGATTAGCAAAACTAAACTAGA AATTACCTCAGATGCTTCACTTGAGCCGATTTCTTGAATATCCCAGTCATTCAAGAGTGAGCCC CTCCTATCAGTTGAACTGTAGCCCTGCATAGATGATGAACATCAGATCTATGCCCTTCTGAAAA GTATAGCAATAATATAGAAGACTTGGTTTCTAACATCTGAATTCCGAAACACGGAATTATGTAG TTATAACAACACTGACAATATTCAGTTTCAGGTTGCAGTTCTGAAGTCTCATGCATGCTAAATG CACAAGATTCTATGAATAATTGTAGGAAGCTACTATTAACAGGTATCAGGTGAATAATCAAATG AGCATGCAAACCAACCTTTAGTATGTCATCCTCAAGTTTCAAAATCAGCTTTTGCTGCTCTTCA ACCTTTGAAGTTAGTTCAACAATCCTTTTTTCAGCTTCCTCAAGAACACTTGTTTTCTCTGATA TTTTAACCTTTAAAATTAAGCAAATCAGCCAGTCCAATAGGTAAACGTAACAGATACGTTGTAA CCTTGCATGCATGTTAAAAACTAATGTCCTTAGAGAAAATTGATTAAACCACCACGGCTTCCAG CATCCAAACTAGAGGTACCTTCAGTTGTGTTAGCTCATGCTCCATTTTACGGTTCTTGTCTAGA AGCAATGCTTCCAACTTGCTCATTTCTTCACCATTAGTAGCAAGCTCCCAGTCTTCAGCTTCAA TGGAGTTGTAACCAACAGCCTGTCGGAAGAAATACTGGTGTCAGGAGGACGACAGACTAAAGAA TCAAAAGAAAGATGAAATCACATGCAGTAATGGCAAAAGGTACAACACTAACCATATGGCAAAT AAATCATTTTTAGGATCATCAACAAGGCATCACAATGAACCCTAAATATATCATTTTAGGGAGA ATGGAACACAGTAAGCTGACCTAATGTATTATTTAGATTTGATTGAAAGAATGTGTGTGCGTTG AGAACAACCTTTTATAGGATATAGTTGCAGACTCGCAGTTAAGAATCTAGAAATTAGCAGTCAG TGTTCAACTAGCCTACCACAACTTGCTTGGGACTACAAGGCTTTGTTGTTGTTGTAGTGCTTAA CACCATGGTGGACTGGTAGTCCCAAAAAAGGTTAGTACTGTTCCAGTTGCAGTGAACAAGAATT TTTTTTGTTGTAATACCTGCAAAATCTGAACCTTTTTCTTGAGATCATCTACCAGTTTTTGTGT AGGTCTTTCCTGGAGTTCTTTCTTCAACTCCATAAGAGCACTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024250769

Conservation Information
Conserved circRNAs	NA
PMCS	0.024250769

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11743616-11740064(-)
11740155-11743607(-)
						
						Potential amino acid sequence
						
							MELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKMEH
ELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSMLK
VICNQRDRFRARLRETEEESALMELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELA
TNGEEMSKLEALLLDKNRKMEHELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLED
DILKGSDPRHASADQDQSSMLKVICNQRDRFRARLRETEEESALMELKKELQERPTQKLVDDLK
KKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKMEHELTQLKVKISEKTSVLEEAE
KRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSMLKVICNQRDRFRARLRETEEES
ALMELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKM
EHELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSM
LKVICNQRDRFRARLRETEE(-)
MHRQIKIKVRCSRSFATRGIVSVHVCVKLRRKVLLWS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11743616-11740064(-) 11740155-11743607(-)
Potential amino acid sequence	MELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKMEH ELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSMLK VICNQRDRFRARLRETEEESALMELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELA TNGEEMSKLEALLLDKNRKMEHELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLED DILKGSDPRHASADQDQSSMLKVICNQRDRFRARLRETEEESALMELKKELQERPTQKLVDDLK KKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKMEHELTQLKVKISEKTSVLEEAE KRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSMLKVICNQRDRFRARLRETEEES ALMELKKELQERPTQKLVDDLKKKVQILQAVGYNSIEAEDWELATNGEEMSKLEALLLDKNRKM EHELTQLKVKISEKTSVLEEAEKRIVELTSKVEEQQKLILKLEDDILKGSDPRHASADQDQSSM LKVICNQRDRFRARLRETEE(-) MHRQIKIKVRCSRSFATRGIVSVHVCVKLRRKVLLWS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d013444_circ_g.1

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