Plant Circular RNA Database

Detail information of Zm00001d040864_circ_g.3

			
						 General Information
					
						CircRNA Name
						Zm00001d040864_circ_g.3
					
						ID in PlantcircBase
						zma_circ_007582
					
						Alias
						zma_circ_0001483, ZmciR168
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 73261480-73264263  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d040864						
					
						Parent gene annotation
						
							Piezo-type mechanosensitive ion channel homolog
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d040864_circ_g.2 						
					
						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
						Zm00001d040864_T003:4
Zm00001d040864_T013:4
Zm00001d040864_T010:4
Zm00001d040864_T007:4
Zm00001d040864_T014:2
Zm00001d040864_T012:4

General Information
CircRNA Name	Zm00001d040864_circ_g.3
ID in PlantcircBase	zma_circ_007582
Alias	zma_circ_0001483, ZmciR168
Organism	Zea mays
Position	chr3: 73261480-73264263 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d040864
Parent gene annotation	Piezo-type mechanosensitive ion channel homolog
Parent gene strand	-
Alternative splicing	Zm00001d040864_circ_g.2
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	Zm00001d040864_T003:4 Zm00001d040864_T013:4 Zm00001d040864_T010:4 Zm00001d040864_T007:4 Zm00001d040864_T014:2 Zm00001d040864_T012:4

			
						 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  
						
							AAGGAAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACCAAAAGCACAAATACTAGTGAA
GTTGAAACTCCAGAAGGAAAGGGCAAGCAGCAAGACctaactgtgagagtacctccattgttaa
tgaaccactgcgctccagagcactggacactagatcaagctggagaatgtacagtatcgaaaaa
tgaacctc

									
								

					

						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: 697
Transcript exons: 73261480-73261653,73262269-73262397,73263788-73263965,73
264048-73264263
CTAACTGTGAGAGTACCTCCATTGTTAATGAACCACTGCGCTCCAGAGCACTGGACACTAGATC
AAGCTGGAGAATGTACAGTATCGAAAAATGAACCTCACAAAACAATACTAAGATCTGGCGCAGT
CTCTTGTCGATTGAATGATTCACCAGAAACACCAAGAAAAAGCACATGTAAACAGCATGAATAA
ATCCTCGTTTCATCACAAGTAGAAAGAGTAATGTTAAAGTAATTGCACGTGAAAGTTTGCGTAG
ACCCCATGCTATTGTTGCTACAATCAGAACCATTGTATCTTCCTTCTCATCAATGAGGTGATCA
TCACTTGTTGAAGGACCCCCTTCAGAAGTCAAGTAAAGAAAAACAGAATTGTTAACAAGATTAC
ACAGTGCCACAAAAACTCCAAGGCAGAATTGGGCAAGTAAAAATAATCCAGGAATAGAATAGTG
CCAAAGCCCAACAGTCTCCCAAATCATCATATCCTTTTGAAATCTTTTGTTGAAGAATGTGAAT
GCCACATTGAAGACATATGTGCTGGCTGCCCAAAGCAGAATGAACACTAGAAGTGACCAATTCA
GCCGATGCATTTGGAACAAAGAAGGAAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACC
AAAAGCACAAATACTAGTGAAGTTGAAACTCCAGAAGGAAAGGGCAAGCAGCAAGAC
						
					

						Genomic sequence
						
							CTAACTGTGAGAGTACCTCCATTGTTAATGAACCACTGCGCTCCAGAGCACTGGACACTAGATC
AAGCTGGAGAATGTACAGTATCGAAAAATGAACCTCACAAAACAATACTAAGATCTGGCGCAGT
CTCTTGTCGATTGAATGATTCACCAGAAACACCAAGAAAAAGCACACTGAGACAGAAATAAGGT
AGTTAAAAATGGTACAGGTCTAGTATATTATGACGGTAAAAGAATAAATTTTAGAGGTCACGAA
GTGATTTAATAATATAAAGGAACCAACTACCAACATAAATAAACGAAACAAGGCAGAACATTGC
TCCATTTGCTTGACTGACTAGGTAAACTCAAATGAGTTACAGGTTATACTAATAAAATAAAGGG
ACATCGAAGTCCTAACAAATATTAGAAGAACAGGAATATTTCCATGCCCAGAGCCAAAAGTTGC
AGTTAAGGGCTCAGATAAATATAAATCTTAGGCCTAGTTTGGAAGTAAGTGGGAGGCAAACCCA
GGGATAGAAAGCCTTCCATGTTAAATTAAATGGTAAGTCCGTGGATTGCTGGCCCTGGGAAAAG
TCCAGGATCCCGAGGGGGTTGGAGTTTTCATATTTGAAATATATATGCAGCCAGTAGCCACTCA
ATAAAACATGTAAAATAAATCAAGAAATGTAACATTTTAAGATGAATTCCGTAAATTCATGAAG
GATTCTTTTCACATTTTATAGGACAAAATATAAATGCTACAAGGAATTTAAAAAGACAACATAG
AGAAGGAAAGTTTCACCATACTGTAAACAGCATGAATAAATCCTCGTTTCATCACAAGTAGAAA
GAGTAATGTTAAAGTAATTGCACGTGAAAGTTTGCGTAGACCCCATGCTATTGTTGCTACAATC
AGAACCATTGTATCTTCCTTCTCTGTAAAGAACAGTCCACAAGAAATCAGAACATAAGTCATAT
CACACAATAACAAAAACATTTGCAATACCAAACATAGGGCACTGTAGCTCCTGTGCAATCTGTT
TGAAGTAAACTCTCAAAATTCACATAAAGGAATGTATAACATACTACTGAGATAACTTTCAAAC
ACGCCTAAAATAGTAGAAATTAGCCTCATGAAGCATTGTCAATCTATCGAGACAGGAGAGACAA
CATGAATAACTATATCACTGGATTCGAGTTAAACTTGAAGAATCAATAGTTCGATTTGTTTCAT
TGGCCAGGGAGATTTGGAAAGACCAGAATGCATGTGTTGACAGGCTCCTTGATCCCATCGCGGT
TGCGAAGTGCATTAGAATGTGAGATTAGGGATGAGAGTCAGAATTTCCAACTTCGGGAAGGCGC
TGTGATAGCTGAGGTGTAGAGTGATGGCGCAGTAGCGAGCGAGGGACAGAGAAAACATAGGGGG
AGCCCTTGAGGCCCGGCAAGATGTTTGCCTTTTTCTGGTTAAATGGCCCCTAAATTTATAGTCC
CTAGAGGTGGTTTTCAAGCAAACTAGAGGAGGAATCCTTATATATTTTGACTCTCCTTTCCTAA
CGAGAAATCCACATAGATTTCGACTCTCCTTTCATAACAAACTAATTATATTTCCTAGACGGGT
ACTGGTCATGTCATACTGTTATGCCTGGTTATAATCCGAGCCTAACACCTGCATGGCCCGCTTT
CCAACGTGCATAGAAAATATAGGTCAGGTGTGTCTTTGATGGAGCAAGACCGAATAGTTTGTTG
GTGCTGAATCTGAATGTTTCTTCTGGGGTTCGGCTGATGCAAAGAGACTGCAGGAGCTTCTGAT
AAGTCTTGGACCTGGAGTGGCTGATCTTGCCCTCCGGTAATCCTGATCATGTTTTATTTCTCAA
AGGGCAAGGTGTGGGCATTGTTTTCTTTTTCTTTTCTTTTTTTGGAGGGTGCAGGCATATATGC
TTGTTTGTTTAAGGATTCTTCACCCATTGTATTCTATGTACACTCTCTTCTTCTTAATAAAAAA
AAGCACAGCTCTCCTACATGTTCAACAAAAATGTTTCATTGGGAAATAATCATACAATAATGAC
AATGTGATTGCAGGAATTCCATACAGAACCTAAAACTCCTAAACAAAAGTAAAAGAAAGTTATG
GAAATTCAATGCAGCAGTTCCTTTTCAAAACCTTGCCACTGGTTTTGTCAGAATTAAATACATC
AGTTATATCCAACATGGCTGAACGTAAGGTACATTATCCAAGAATAGAGCATCATATTGCTCAA
GTGTCAACTGCGGCAACAATGAATATGTAAAATGAAAATGCCTTTTCATGATAATACGATAGAC
ATACCATCAATGAGGTGATCATCACTTGTTGAAGGACCCCCTTCAGAAGTCAAGTAAAGAAAAA
CAGAATTGTTAACAAGATTACACAGTGCCACAAAAACTCCAAGGCAGAATTGGGCAAGTAAAAA
TAATCCAGGAATAGAATAGTGCCAAAGCCCAACAGTCTCCCAAATCATCATATCCTGCAACATT
AAGAAGATAACTTCTCATAAATATTGATAGATAAATTAACTTCTGGAGGGCTTGCATAGCTTAA
CGTGATACCTTTTGAAATCTTTTGTTGAAGAATGTGAATGCCACATTGAAGACATATGTGCTGG
CTGCCCAAAGCAGAATGAACACTAGAAGTGACCAATTCAGCCGATGCATTTGGAACAAAGAAGG
AAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACCAAAAGCACAAATACTAGTGAAGTTG
AAACTCCAGAAGGAAAGGGCAAGCAGCAAGAC
						
					

			
		

Sequences
Splice junction sequence	AAGGAAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACCAAAAGCACAAATACTAGTGAA GTTGAAACTCCAGAAGGAAAGGGCAAGCAGCAAGACctaactgtgagagtacctccattgttaa tgaaccactgcgctccagagcactggacactagatcaagctggagaatgtacagtatcgaaaaa tgaacctc
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: 697 Transcript exons: 73261480-73261653,73262269-73262397,73263788-73263965,73 264048-73264263 CTAACTGTGAGAGTACCTCCATTGTTAATGAACCACTGCGCTCCAGAGCACTGGACACTAGATC AAGCTGGAGAATGTACAGTATCGAAAAATGAACCTCACAAAACAATACTAAGATCTGGCGCAGT CTCTTGTCGATTGAATGATTCACCAGAAACACCAAGAAAAAGCACATGTAAACAGCATGAATAA ATCCTCGTTTCATCACAAGTAGAAAGAGTAATGTTAAAGTAATTGCACGTGAAAGTTTGCGTAG ACCCCATGCTATTGTTGCTACAATCAGAACCATTGTATCTTCCTTCTCATCAATGAGGTGATCA TCACTTGTTGAAGGACCCCCTTCAGAAGTCAAGTAAAGAAAAACAGAATTGTTAACAAGATTAC ACAGTGCCACAAAAACTCCAAGGCAGAATTGGGCAAGTAAAAATAATCCAGGAATAGAATAGTG CCAAAGCCCAACAGTCTCCCAAATCATCATATCCTTTTGAAATCTTTTGTTGAAGAATGTGAAT GCCACATTGAAGACATATGTGCTGGCTGCCCAAAGCAGAATGAACACTAGAAGTGACCAATTCA GCCGATGCATTTGGAACAAAGAAGGAAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACC AAAAGCACAAATACTAGTGAAGTTGAAACTCCAGAAGGAAAGGGCAAGCAGCAAGAC
Genomic sequence	CTAACTGTGAGAGTACCTCCATTGTTAATGAACCACTGCGCTCCAGAGCACTGGACACTAGATC AAGCTGGAGAATGTACAGTATCGAAAAATGAACCTCACAAAACAATACTAAGATCTGGCGCAGT CTCTTGTCGATTGAATGATTCACCAGAAACACCAAGAAAAAGCACACTGAGACAGAAATAAGGT AGTTAAAAATGGTACAGGTCTAGTATATTATGACGGTAAAAGAATAAATTTTAGAGGTCACGAA GTGATTTAATAATATAAAGGAACCAACTACCAACATAAATAAACGAAACAAGGCAGAACATTGC TCCATTTGCTTGACTGACTAGGTAAACTCAAATGAGTTACAGGTTATACTAATAAAATAAAGGG ACATCGAAGTCCTAACAAATATTAGAAGAACAGGAATATTTCCATGCCCAGAGCCAAAAGTTGC AGTTAAGGGCTCAGATAAATATAAATCTTAGGCCTAGTTTGGAAGTAAGTGGGAGGCAAACCCA GGGATAGAAAGCCTTCCATGTTAAATTAAATGGTAAGTCCGTGGATTGCTGGCCCTGGGAAAAG TCCAGGATCCCGAGGGGGTTGGAGTTTTCATATTTGAAATATATATGCAGCCAGTAGCCACTCA ATAAAACATGTAAAATAAATCAAGAAATGTAACATTTTAAGATGAATTCCGTAAATTCATGAAG GATTCTTTTCACATTTTATAGGACAAAATATAAATGCTACAAGGAATTTAAAAAGACAACATAG AGAAGGAAAGTTTCACCATACTGTAAACAGCATGAATAAATCCTCGTTTCATCACAAGTAGAAA GAGTAATGTTAAAGTAATTGCACGTGAAAGTTTGCGTAGACCCCATGCTATTGTTGCTACAATC AGAACCATTGTATCTTCCTTCTCTGTAAAGAACAGTCCACAAGAAATCAGAACATAAGTCATAT CACACAATAACAAAAACATTTGCAATACCAAACATAGGGCACTGTAGCTCCTGTGCAATCTGTT TGAAGTAAACTCTCAAAATTCACATAAAGGAATGTATAACATACTACTGAGATAACTTTCAAAC ACGCCTAAAATAGTAGAAATTAGCCTCATGAAGCATTGTCAATCTATCGAGACAGGAGAGACAA CATGAATAACTATATCACTGGATTCGAGTTAAACTTGAAGAATCAATAGTTCGATTTGTTTCAT TGGCCAGGGAGATTTGGAAAGACCAGAATGCATGTGTTGACAGGCTCCTTGATCCCATCGCGGT TGCGAAGTGCATTAGAATGTGAGATTAGGGATGAGAGTCAGAATTTCCAACTTCGGGAAGGCGC TGTGATAGCTGAGGTGTAGAGTGATGGCGCAGTAGCGAGCGAGGGACAGAGAAAACATAGGGGG AGCCCTTGAGGCCCGGCAAGATGTTTGCCTTTTTCTGGTTAAATGGCCCCTAAATTTATAGTCC CTAGAGGTGGTTTTCAAGCAAACTAGAGGAGGAATCCTTATATATTTTGACTCTCCTTTCCTAA CGAGAAATCCACATAGATTTCGACTCTCCTTTCATAACAAACTAATTATATTTCCTAGACGGGT ACTGGTCATGTCATACTGTTATGCCTGGTTATAATCCGAGCCTAACACCTGCATGGCCCGCTTT CCAACGTGCATAGAAAATATAGGTCAGGTGTGTCTTTGATGGAGCAAGACCGAATAGTTTGTTG GTGCTGAATCTGAATGTTTCTTCTGGGGTTCGGCTGATGCAAAGAGACTGCAGGAGCTTCTGAT AAGTCTTGGACCTGGAGTGGCTGATCTTGCCCTCCGGTAATCCTGATCATGTTTTATTTCTCAA AGGGCAAGGTGTGGGCATTGTTTTCTTTTTCTTTTCTTTTTTTGGAGGGTGCAGGCATATATGC TTGTTTGTTTAAGGATTCTTCACCCATTGTATTCTATGTACACTCTCTTCTTCTTAATAAAAAA AAGCACAGCTCTCCTACATGTTCAACAAAAATGTTTCATTGGGAAATAATCATACAATAATGAC AATGTGATTGCAGGAATTCCATACAGAACCTAAAACTCCTAAACAAAAGTAAAAGAAAGTTATG GAAATTCAATGCAGCAGTTCCTTTTCAAAACCTTGCCACTGGTTTTGTCAGAATTAAATACATC AGTTATATCCAACATGGCTGAACGTAAGGTACATTATCCAAGAATAGAGCATCATATTGCTCAA GTGTCAACTGCGGCAACAATGAATATGTAAAATGAAAATGCCTTTTCATGATAATACGATAGAC ATACCATCAATGAGGTGATCATCACTTGTTGAAGGACCCCCTTCAGAAGTCAAGTAAAGAAAAA CAGAATTGTTAACAAGATTACACAGTGCCACAAAAACTCCAAGGCAGAATTGGGCAAGTAAAAA TAATCCAGGAATAGAATAGTGCCAAAGCCCAACAGTCTCCCAAATCATCATATCCTGCAACATT AAGAAGATAACTTCTCATAAATATTGATAGATAAATTAACTTCTGGAGGGCTTGCATAGCTTAA CGTGATACCTTTTGAAATCTTTTGTTGAAGAATGTGAATGCCACATTGAAGACATATGTGCTGG CTGCCCAAAGCAGAATGAACACTAGAAGTGACCAATTCAGCCGATGCATTTGGAACAAAGAAGG AAAAGCATATAAAATGTACCCAACGTATGCTAGGAGACCAAAAGCACAAATACTAGTGAAGTTG AAACTCCAGAAGGAAAGGGCAAGCAGCAAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.071488854

Conservation Information
Conserved circRNAs	NA
PMCS	0.071488854

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							73264119-73261480(+)
73264154-73264222(-)
						
						Potential amino acid sequence
						
							MNTRSDQFSRCIWNKEGKAYKMYPTYARRPKAQILVKLKLQKERASSKT*(+)
MHRLNWSLLVFILLWAASTYVFNVAFTFFNKRFQKDMMIWETVGLWHYSIPGLFLLAQFCLGVF
VALCNLVNNSVFLYLTSEGGPSTSDDHLIDEKEDTMVLIVATIAWGLRKLSRAITLTLLFLLVM
KRGFIHAVYMCFFLVFLVNHSIDKRLRQILVLFCEVHFSILYILQLDLVSSALERSGSLTMEVL
SQLGLAACPFLLEFQLH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	73264119-73261480(+) 73264154-73264222(-)
Potential amino acid sequence	MNTRSDQFSRCIWNKEGKAYKMYPTYARRPKAQILVKLKLQKERASSKT(+) MHRLNWSLLVFILLWAASTYVFNVAFTFFNKRFQKDMMIWETVGLWHYSIPGLFLLAQFCLGVF VALCNLVNNSVFLYLTSEGGPSTSDDHLIDEKEDTMVLIVATIAWGLRKLSRAITLTLLFLLVM KRGFIHAVYMCFFLVFLVNHSIDKRLRQILVLFCEVHFSILYILQLDLVSSALERSGSLTMEVL SQLGLAACPFLLEFQLH(-)
Sponge-miRNAs	NA
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 Zm00001d040864_circ_g.3

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