Plant Circular RNA Database

Detail information of Zm00001d046905_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d046905_circ_g.2
					
						ID in PlantcircBase
						zma_circ_010009
					
						Alias
						zma_circ_0003042
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 109896503-109900664  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d046905						
					
						Parent gene annotation
						
							Villin-4
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d046905_circ_g.1 Zm00001d046905_circ_g.3 						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						Exon boundary  
						
							No-No							"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
						Zm00001d046905_T001:7

General Information
CircRNA Name	Zm00001d046905_circ_g.2
ID in PlantcircBase	zma_circ_010009
Alias	zma_circ_0003042
Organism	Zea mays
Position	chr9: 109896503-109900664 JBrowse»
Reference genome	AGPv4.38
Type	ie-circRNA
Identification method	find_circ
Parent gene	Zm00001d046905
Parent gene annotation	Villin-4
Parent gene strand	+
Alternative splicing	Zm00001d046905_circ_g.1 Zm00001d046905_circ_g.3
Support reads	NA
Tissues	leaf, root
Exon boundary	No-No "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	Zm00001d046905_T001:7

			
						 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  
						
							GTTTTATAGTGGAGACTGCTATATCTTTCAATACACCTACCCTGGATATATTGGAGATGAATGT
CTTATTGGTACCTGGTTTGGGAAGAAGAGTGTCCAGcacaccttttcttctctcctgaagcaaa
aaccaccaaagactagtcctacaaaatctaggggttctatggctgtttcaatgagggaggtgga
tcctgttt

									
								

					

						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
						
							CACACCTTTTCTTCTCTCCTGAAGCAAAAACCACCAAAGACTAGTCCTACAAAATCTAGGGGTT
CTATGGCTGTTTCAATGAGGGAGGTGGATCCTGTTTTTCAAGGTGCAGGTCAAAAAGAGTATCC
TTCAGTTTCTAGCTTGCTACTGGTCACAATATCTATACTTATCCCTGCATCTCGTTTCGTTCCA
AGAATGGCATGTGCCATCATTTTCCTCATTTCAGTTGTATTATTGTTTCAAATTAGTAGTCCCT
GCTGCCATGGTTTTTAAAGCGGTATGGCGAGACAAGACATTGGACCACTGCCTGGACGCCTAGG
CGTTGGACCACCGCTTGGACGCCTTTAAAACAGTGCCTGCTGCCATAGTATCCAGTGGAAACTC
CTTAAAACACTTGTAGGTCAACCACAAACTATATTTCATGAACTGCAAGTCCACAGTAAACCTT
TGTTATATTAAGTGGGGATATTAGGTTAGCATGGTGTTTCAGTACTAACATTCAATTCTGTTTG
TCTATATGATTCATCTTTGTATTATTATCCTTAACAACGATCAGTGGATTGGAAATATGGCGGA
TTGAAAAGTTACAGGCTGTTCCTGTTCCCAAGGAATCATATGGGAAATTTTTCACAGGAGATTC
CTACATAGTACTGAAGGTACTCAGCTTTGCTCACATAGTAAATATGTCAATTCCTATATTAAGT
GAGCTGCCTGATGTCAGGAGTGCAACTGTTTCCATTGCTTACATCTTTACTCCAAAGACCACTG
CATATTTACTTCCCCCACATGCTTATCAAATCACACATCCTTCATACAAGAAGGGATTAGTTGT
TTCTGATGCTACTGATCATTTCAGCATATTATTTATGCTACAATAAAATGTTTATATTGTGCAG
ATACTCATTTTGTAGTTAAATCCTCATTCATATCGAGCAGGAATGAAATCCCGATTGTTATTAA
TAGTTATTTTGTTCTTGAGCAGACAACTGCCCTTAAGAATGGTTCTTTTCGTCATGATATCCAT
TATTGGCTTGGCAAAGATACCAGTCAGGTTTGCTTTCACATGTTAAGTTCATTTCACTTGCTGG
CAGTGTACCTATTGAACAGGAATTTTTACAATTGCATTGTTATTAACGAGTAGGATGAAGCTGG
TACAGCTGCAATTAAGACTGTGGAACTCGATGCTGCCCTTGGTGGAAGAGCTGTCCAATACCGT
GAAATACAGGGAAATGAGACTGAGAAATTTCTTTCATACTTTAAGCCGTGTATTATACCAGAGG
AAGGTGGTGTTGCATCTGGTTTCAGGCATACTGAAGTAAATGAGCGGGAGCATAAAACACGATT
ATTTGTCTGCAGAGGAAAGCATACTGTTCATGTTAAAGAGGTGAATTTAGTTGTCAATTGGTCC
TTGTATGGTCATAGACTCATAGCTTCCTAGTACGGGTACCACATTCCAATTTTTTTCTCTCCAA
CAGGTTCCTTTTGCACGAGCATCACTCAACCATGATGACATATTTATTTTAGATACAAAATCTA
AGATATTCCAATTCAATGGATCAAATTCAAGTATTCAGGAGAGGGCTAAAGCACTTGAGGTTGT
GCAACATCTTAAAGATACAAACCATGAAGGAAAATGTGAAGTTGCGGCAGTTGGTAAGTTTATT
TTGGCCAAAAAGGTTTATACAAGCTTAAGTGGACAATGCCCAATATTCTTCCAGAATTACAATT
GTGTCTTTTAAACAGAGGATGGAAAGTTGATGGCAGATGCTGATGCTGGTGAATTCTGGGGTCT
CTTTGGCGGATTTGCTCCTTTACCAAGAAAGACATTTTCTGAACTCAACGGGAAAGATTCTACT
TCCACTTCAAAATTGCTTTGGTAATATATCACAAGGGACAAAGCATAGAATAGCAAATCTAGTT
CTTTTTGAATTAATTATATCTTTCATGGTTATGCTATAGCATGTCTATTTTCTCCTCTGCTTAA
ATGTATTTTTTTCTATTTTTTATTACCAGTGTAAACAAGGGCCAATTTGCCCCTATTGATTGCG
AAATTCTAAAAAGGGAGCTATTAGATTCAACAAAATGTTACCTACTAGACTGTGGTTCTGAAAT
TTATGTCTGGATGGGTAGAGAAACAACTCTTGAAGAAAGGAAACGAGGCGGCTCAGCTGCTGAG
GTAACATTGTCTTGCTTCTGCTATCTTGATTTAGTGGCTATGATAATGCTGCACTGTGTGAACC
AGCCACCACAAAGAGGTCTATGAGAGGTCAACCACAGATGTAATAGCGCTGAGGTCCATCACCA
ATGTGGCAACCACATATGTATATTTGCTAAGAAATTTTGCAGCCAATATTGTTAACCATGGGGA
GCTTAGACATAACTAGAAATTTCCTATAAAAGAGTTCGGTCTCACCCACATCAATAATAAAGAG
TTCCTATGGCGTGTATTGACTGTGTTATAGTAGTGCCATCTTTGACGTAAGTTAAACTTTATGT
GCAAGACAAGACCTTTCGATCAATGCAACTTTACTTGGCGGGTGGTTCCACATGATCCACACCA
CAATATGGGTTTTCATCATGTTTAAGATATCTCTGGTGCTGCGGACTACTAACCGCAATATTAG
TTAAAAAACATTATCTAAGAAGATGCCCTGACATTCTATTTTTTTTTCTCATTTTCGATTTACC
ACATATTTTAGACAATTGTTGGGCTATTTCTTTCTCTAGACGTACATAAACACATTCTTACCTC
TGCAGGAATTACTACGTGAAGGAAACCGGCAAAAATCTCATATTATTCGGCTCATGGAAGGATT
TGAGACTGTCACATTCAAATCAAAGTTTGATAAATGGCCCAAGAAAGCTGATGCAGTTGTGTCG
GATGAAAGCAGAGGAAAAGTGGCAGGTTATCATCTGAGCCACAATTCTTTTTTTTTTCATTTTA
GTTGCCACAACTGATTCTTTATAACTAAATTTGCTATTGTAGCTCTTCTTAAGCGACAAGGATT
TAATTTCAAGGATCCAGCAAAAGCTGCTCCTGTAAAGCAAGAGCCTCAACCTCAGATTGATTGC
ACTGGCAACTTACAGGTCAGTGAACTTCCTTTTTTTCCGAATACACAAGAGAGCTGCGTATCAT
TATATTAAGAAAAAAAAAGATGGGCAGAAGGCCATACAACCCATGCCACACACACTTAAAACAC
CAGGATTTAAAACTCCCATTTCAAGAAACCCCATGATCTGTCCTTAAACAGGAAGTAAACAGAT
ATTGAATTTCCTTTCTTAGGGCTAGTTTGGAAACTTAAATCCCTGGGATTTCCGGAGATTTAAG
TTTCCAAACTAGCCCTTAGAAAAGATATTGGAACCAGACACATTCAGTTGTAGCATTGAATTAT
CATTTATTGATCTCGTGACATAACACAACTGATACTCTGGAATAAGATTGTTAGTTGGAGCAGT
AGAGCACATACCTACTTGAAGGGTTTAGTTGCAATAACAAGATGAAATAATGTTGTTTTGAACA
TCGCTGCTAAAATAACCATGTTTGATACATTCGTGTTCTTTTGGTTTGTGTGTGTGTATGGGGG
GGAGGGGTGGGGGGTGGGGGGGGGGGGGGGGTTGGGGCAGTGTTCAGTGTTGCTTTACCATTCG
TGAACTTTATTACTTAAGACTCTGCTACCATAACACTAAAGTGTCATTTTGCTGGAGTTTTGCT
GCCCACCTTTGAGGAAATGTTCTACTGGACCTTAGCAGGGGCCCGATGCATTTCTTTCCTTTGC
CCTAGGCCGGTGGTAGGTATTCTAATTCTCATGCTGTACTCGTGTTTGTTGTAAGAAAAGGGCA
GGTATGTAATCTCAAAAAACAAGGGTGTGTGTTGTAAGGGTTCTTGGCTTCTTGCCCTTTTTTC
CCTTCTTAATATGAAGATATGCTGCTGTCCTACGTGTTTGAGAAAAAAGAAACTAGAGTGTCAT
TTACATTTACAGAATCTCAGGTAGCCGATATCTTACAGGTTTGGCGCGTAAATGGCAGTGATAA
GACTTTCCTTTCGTTTTCTGAGCAATGCAAGTTTTATAGTGGAGACTGCTATATCTTTCAATAC
ACCTACCCTGGATATATTGGAGATGAATGTCTTATTGGTACCTGGTTTGGGAAGAAGAGTGTCC
AG
						
					

			
		

Sequences
Splice junction sequence	GTTTTATAGTGGAGACTGCTATATCTTTCAATACACCTACCCTGGATATATTGGAGATGAATGT CTTATTGGTACCTGGTTTGGGAAGAAGAGTGTCCAGcacaccttttcttctctcctgaagcaaa aaccaccaaagactagtcctacaaaatctaggggttctatggctgtttcaatgagggaggtgga tcctgttt
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	CACACCTTTTCTTCTCTCCTGAAGCAAAAACCACCAAAGACTAGTCCTACAAAATCTAGGGGTT CTATGGCTGTTTCAATGAGGGAGGTGGATCCTGTTTTTCAAGGTGCAGGTCAAAAAGAGTATCC TTCAGTTTCTAGCTTGCTACTGGTCACAATATCTATACTTATCCCTGCATCTCGTTTCGTTCCA AGAATGGCATGTGCCATCATTTTCCTCATTTCAGTTGTATTATTGTTTCAAATTAGTAGTCCCT GCTGCCATGGTTTTTAAAGCGGTATGGCGAGACAAGACATTGGACCACTGCCTGGACGCCTAGG CGTTGGACCACCGCTTGGACGCCTTTAAAACAGTGCCTGCTGCCATAGTATCCAGTGGAAACTC CTTAAAACACTTGTAGGTCAACCACAAACTATATTTCATGAACTGCAAGTCCACAGTAAACCTT TGTTATATTAAGTGGGGATATTAGGTTAGCATGGTGTTTCAGTACTAACATTCAATTCTGTTTG TCTATATGATTCATCTTTGTATTATTATCCTTAACAACGATCAGTGGATTGGAAATATGGCGGA TTGAAAAGTTACAGGCTGTTCCTGTTCCCAAGGAATCATATGGGAAATTTTTCACAGGAGATTC CTACATAGTACTGAAGGTACTCAGCTTTGCTCACATAGTAAATATGTCAATTCCTATATTAAGT GAGCTGCCTGATGTCAGGAGTGCAACTGTTTCCATTGCTTACATCTTTACTCCAAAGACCACTG CATATTTACTTCCCCCACATGCTTATCAAATCACACATCCTTCATACAAGAAGGGATTAGTTGT TTCTGATGCTACTGATCATTTCAGCATATTATTTATGCTACAATAAAATGTTTATATTGTGCAG ATACTCATTTTGTAGTTAAATCCTCATTCATATCGAGCAGGAATGAAATCCCGATTGTTATTAA TAGTTATTTTGTTCTTGAGCAGACAACTGCCCTTAAGAATGGTTCTTTTCGTCATGATATCCAT TATTGGCTTGGCAAAGATACCAGTCAGGTTTGCTTTCACATGTTAAGTTCATTTCACTTGCTGG CAGTGTACCTATTGAACAGGAATTTTTACAATTGCATTGTTATTAACGAGTAGGATGAAGCTGG TACAGCTGCAATTAAGACTGTGGAACTCGATGCTGCCCTTGGTGGAAGAGCTGTCCAATACCGT GAAATACAGGGAAATGAGACTGAGAAATTTCTTTCATACTTTAAGCCGTGTATTATACCAGAGG AAGGTGGTGTTGCATCTGGTTTCAGGCATACTGAAGTAAATGAGCGGGAGCATAAAACACGATT ATTTGTCTGCAGAGGAAAGCATACTGTTCATGTTAAAGAGGTGAATTTAGTTGTCAATTGGTCC TTGTATGGTCATAGACTCATAGCTTCCTAGTACGGGTACCACATTCCAATTTTTTTCTCTCCAA CAGGTTCCTTTTGCACGAGCATCACTCAACCATGATGACATATTTATTTTAGATACAAAATCTA AGATATTCCAATTCAATGGATCAAATTCAAGTATTCAGGAGAGGGCTAAAGCACTTGAGGTTGT GCAACATCTTAAAGATACAAACCATGAAGGAAAATGTGAAGTTGCGGCAGTTGGTAAGTTTATT TTGGCCAAAAAGGTTTATACAAGCTTAAGTGGACAATGCCCAATATTCTTCCAGAATTACAATT GTGTCTTTTAAACAGAGGATGGAAAGTTGATGGCAGATGCTGATGCTGGTGAATTCTGGGGTCT CTTTGGCGGATTTGCTCCTTTACCAAGAAAGACATTTTCTGAACTCAACGGGAAAGATTCTACT TCCACTTCAAAATTGCTTTGGTAATATATCACAAGGGACAAAGCATAGAATAGCAAATCTAGTT CTTTTTGAATTAATTATATCTTTCATGGTTATGCTATAGCATGTCTATTTTCTCCTCTGCTTAA ATGTATTTTTTTCTATTTTTTATTACCAGTGTAAACAAGGGCCAATTTGCCCCTATTGATTGCG AAATTCTAAAAAGGGAGCTATTAGATTCAACAAAATGTTACCTACTAGACTGTGGTTCTGAAAT TTATGTCTGGATGGGTAGAGAAACAACTCTTGAAGAAAGGAAACGAGGCGGCTCAGCTGCTGAG GTAACATTGTCTTGCTTCTGCTATCTTGATTTAGTGGCTATGATAATGCTGCACTGTGTGAACC AGCCACCACAAAGAGGTCTATGAGAGGTCAACCACAGATGTAATAGCGCTGAGGTCCATCACCA ATGTGGCAACCACATATGTATATTTGCTAAGAAATTTTGCAGCCAATATTGTTAACCATGGGGA GCTTAGACATAACTAGAAATTTCCTATAAAAGAGTTCGGTCTCACCCACATCAATAATAAAGAG TTCCTATGGCGTGTATTGACTGTGTTATAGTAGTGCCATCTTTGACGTAAGTTAAACTTTATGT GCAAGACAAGACCTTTCGATCAATGCAACTTTACTTGGCGGGTGGTTCCACATGATCCACACCA CAATATGGGTTTTCATCATGTTTAAGATATCTCTGGTGCTGCGGACTACTAACCGCAATATTAG TTAAAAAACATTATCTAAGAAGATGCCCTGACATTCTATTTTTTTTTCTCATTTTCGATTTACC ACATATTTTAGACAATTGTTGGGCTATTTCTTTCTCTAGACGTACATAAACACATTCTTACCTC TGCAGGAATTACTACGTGAAGGAAACCGGCAAAAATCTCATATTATTCGGCTCATGGAAGGATT TGAGACTGTCACATTCAAATCAAAGTTTGATAAATGGCCCAAGAAAGCTGATGCAGTTGTGTCG GATGAAAGCAGAGGAAAAGTGGCAGGTTATCATCTGAGCCACAATTCTTTTTTTTTTCATTTTA GTTGCCACAACTGATTCTTTATAACTAAATTTGCTATTGTAGCTCTTCTTAAGCGACAAGGATT TAATTTCAAGGATCCAGCAAAAGCTGCTCCTGTAAAGCAAGAGCCTCAACCTCAGATTGATTGC ACTGGCAACTTACAGGTCAGTGAACTTCCTTTTTTTCCGAATACACAAGAGAGCTGCGTATCAT TATATTAAGAAAAAAAAAGATGGGCAGAAGGCCATACAACCCATGCCACACACACTTAAAACAC CAGGATTTAAAACTCCCATTTCAAGAAACCCCATGATCTGTCCTTAAACAGGAAGTAAACAGAT ATTGAATTTCCTTTCTTAGGGCTAGTTTGGAAACTTAAATCCCTGGGATTTCCGGAGATTTAAG TTTCCAAACTAGCCCTTAGAAAAGATATTGGAACCAGACACATTCAGTTGTAGCATTGAATTAT CATTTATTGATCTCGTGACATAACACAACTGATACTCTGGAATAAGATTGTTAGTTGGAGCAGT AGAGCACATACCTACTTGAAGGGTTTAGTTGCAATAACAAGATGAAATAATGTTGTTTTGAACA TCGCTGCTAAAATAACCATGTTTGATACATTCGTGTTCTTTTGGTTTGTGTGTGTGTATGGGGG GGAGGGGTGGGGGGTGGGGGGGGGGGGGGGGTTGGGGCAGTGTTCAGTGTTGCTTTACCATTCG TGAACTTTATTACTTAAGACTCTGCTACCATAACACTAAAGTGTCATTTTGCTGGAGTTTTGCT GCCCACCTTTGAGGAAATGTTCTACTGGACCTTAGCAGGGGCCCGATGCATTTCTTTCCTTTGC CCTAGGCCGGTGGTAGGTATTCTAATTCTCATGCTGTACTCGTGTTTGTTGTAAGAAAAGGGCA GGTATGTAATCTCAAAAAACAAGGGTGTGTGTTGTAAGGGTTCTTGGCTTCTTGCCCTTTTTTC CCTTCTTAATATGAAGATATGCTGCTGTCCTACGTGTTTGAGAAAAAAGAAACTAGAGTGTCAT TTACATTTACAGAATCTCAGGTAGCCGATATCTTACAGGTTTGGCGCGTAAATGGCAGTGATAA GACTTTCCTTTCGTTTTCTGAGCAATGCAAGTTTTATAGTGGAGACTGCTATATCTTTCAATAC ACCTACCCTGGATATATTGGAGATGAATGTCTTATTGGTACCTGGTTTGGGAAGAAGAGTGTCC AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.139112768

Conservation Information
Conserved circRNAs	NA
PMCS	0.139112768

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d046905_circ_g.2

Address

Any questions?

Supported by