Plant Circular RNA Database

Detail information of Zm00001d002715_circ_g.6

			
						 General Information
					
						CircRNA Name
						Zm00001d002715_circ_g.6
					
						ID in PlantcircBase
						zma_circ_007094
					
						Alias
						zma_circ_0000887, GRMZM2G044143_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 20214639-20215892  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d002715						
					
						Parent gene annotation
						
							BEACH domain-containing protein C2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.7 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10 Zm00001d002715_circ_g.11 						
					
						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
						Zm00001d002715_T022:7
Zm00001d002715_T025:7
Zm00001d002715_T019:7
Zm00001d002715_T039:7
Zm00001d002715_T027:7
Zm00001d002715_T023:7
Zm00001d002715_T005:7
Zm00001d002715_T007:7
Zm00001d002715_T021:7
Zm00001d002715_T011:7
Zm00001d002715_T003:7
Zm00001d002715_T031:7
Zm00001d002715_T012:7
Zm00001d002715_T029:7
Zm00001d002715_T028:7
Zm00001d002715_T035:7
Zm00001d002715_T014:7
Zm00001d002715_T026:7
Zm00001d002715_T001:6
Zm00001d002715_T016:7
Zm00001d002715_T037:7

General Information
CircRNA Name	Zm00001d002715_circ_g.6
ID in PlantcircBase	zma_circ_007094
Alias	zma_circ_0000887, GRMZM2G044143_C1
Organism	Zea mays
Position	chr2: 20214639-20215892 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d002715
Parent gene annotation	BEACH domain-containing protein C2
Parent gene strand	+
Alternative splicing	Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.7 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10 Zm00001d002715_circ_g.11
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	Zm00001d002715_T022:7 Zm00001d002715_T025:7 Zm00001d002715_T019:7 Zm00001d002715_T039:7 Zm00001d002715_T027:7 Zm00001d002715_T023:7 Zm00001d002715_T005:7 Zm00001d002715_T007:7 Zm00001d002715_T021:7 Zm00001d002715_T011:7 Zm00001d002715_T003:7 Zm00001d002715_T031:7 Zm00001d002715_T012:7 Zm00001d002715_T029:7 Zm00001d002715_T028:7 Zm00001d002715_T035:7 Zm00001d002715_T014:7 Zm00001d002715_T026:7 Zm00001d002715_T001:6 Zm00001d002715_T016:7 Zm00001d002715_T037:7

			
						 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  
						
							GGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTGAGCACGTCTC
TGCTCATTTGCATGAGTGGATTGATCTAATTTTTGGagagctgagcagattcttaaaagaactc
agttgatggagcgctgggctaattgggaggtacacatacattgtcctgtgctatatgttggtag
ttttaata

									
								

					

						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: 686
Transcript exons: 20214639-20214695,20214763-20214831,20214908-20214994,20
215064-20215180,20215352-20215501,20215611-20215695,2021
5772-20215892
AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGATCAACA
ATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCAGTA
CCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAATCTGGATGACCCTTTG
TCGTATCGAGATCTTTCAAAGCCAATTGGAGCACTAAACCCTGAACGTCTAAAGAAGTTCCAAG
AACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCATTATGGTTCACATTACTCCAG
TGCTGGCACGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTG
CAAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTG
TTCTTGAAGACATGAGTGATGTAAAAGAGCTAGTACCCGAGATGTTTTACCTCCCTGAGGTATT
TACCAACATAAATGGCATTGACTTTGGGACAACTCAACTTGGAGGGAAGCTAGATTCCGTAGAA
TTGCCTCCCTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTG
AGCACGTCTCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGG
						
					

						Genomic sequence
						
							AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGGTACACA
TACATTGTCCTGTGCTATATGTTGGTAGTTTTAATACCTAACCATGTCTAATTTGTTCAGATCA
ACAATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCA
GGTCAGTATCCTGTATACTTAATATTTCTGGCCGAATCTAGCGACCTGTAGTCCTGATATTGTT
TCTGCTTGTGCAGTACCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAAT
CTGGATGACCCTTTGTCGTATCGAGATCTTTCAAAGGTTGCATTCACCTATTTGTTGCTCCTGT
CTTTTGCTGATCACTAACACAGCTTGTTTTATTTGATGCAGCCAATTGGAGCACTAAACCCTGA
ACGTCTAAAGAAGTTCCAAGAACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCAT
TATGGTTCACATTACTCCAGTGCTGGCACGGTATATCTTCATAGTAGATATGAATCCGATGTTT
ACTTAGAATTCTGGATTTGCAATGTGAATTCCTTGCTCGATTATGTGGCCTGCAATTTTGATAT
TTGGTCATTGTCCAGTGCATACTTGGTTATCACAATGTTTGATTTGTGTACTAATTACTACTAT
CCCTTTCAGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTGC
AAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTGT
TCTTGAAGACATGAGTGATGTAAAAGAGCTAGTAAGTCTACCAACAAGTATTTGCAGTAGTTCC
CATCGATCTTTACTGGTTCATGGCGAAACCAAGTCTAGGTTGCAGCAATCTGATTATTTGATGG
TAATTCATCTAGGTACCCGAGATGTTTTACCTCCCTGAGGTATTTACCAACATAAATGGCATTG
ACTTTGGGACAACTCAACTTGGAGGGAAGCTAGGTAATTGCATTTCAACTTATGTCCACTATGC
AGCTGAGTAGATAAAAACAGTAATGCAATTCCGGTACCATTGCAGATTCCGTAGAATTGCCTCC
CTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTGAGCACGTC
TCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGG
						
					

			
		

Sequences
Splice junction sequence	GGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTGAGCACGTCTC TGCTCATTTGCATGAGTGGATTGATCTAATTTTTGGagagctgagcagattcttaaaagaactc agttgatggagcgctgggctaattgggaggtacacatacattgtcctgtgctatatgttggtag ttttaata
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: 686 Transcript exons: 20214639-20214695,20214763-20214831,20214908-20214994,20 215064-20215180,20215352-20215501,20215611-20215695,2021 5772-20215892 AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGATCAACA ATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCAGTA CCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAATCTGGATGACCCTTTG TCGTATCGAGATCTTTCAAAGCCAATTGGAGCACTAAACCCTGAACGTCTAAAGAAGTTCCAAG AACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCATTATGGTTCACATTACTCCAG TGCTGGCACGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTG CAAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTG TTCTTGAAGACATGAGTGATGTAAAAGAGCTAGTACCCGAGATGTTTTACCTCCCTGAGGTATT TACCAACATAAATGGCATTGACTTTGGGACAACTCAACTTGGAGGGAAGCTAGATTCCGTAGAA TTGCCTCCCTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTG AGCACGTCTCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGG
Genomic sequence	AGAGCTGAGCAGATTCTTAAAAGAACTCAGTTGATGGAGCGCTGGGCTAATTGGGAGGTACACA TACATTGTCCTGTGCTATATGTTGGTAGTTTTAATACCTAACCATGTCTAATTTGTTCAGATCA ACAATTTTGAGTACTTAATGGAACTTAACACACTGGCTGGGCGCAGTTACAATGACATTACTCA GGTCAGTATCCTGTATACTTAATATTTCTGGCCGAATCTAGCGACCTGTAGTCCTGATATTGTT TCTGCTTGTGCAGTACCCTGTTTTTCCCTGGGTAGTAGCAGATTACAAATCCCGAGTGTTGAAT CTGGATGACCCTTTGTCGTATCGAGATCTTTCAAAGGTTGCATTCACCTATTTGTTGCTCCTGT CTTTTGCTGATCACTAACACAGCTTGTTTTATTTGATGCAGCCAATTGGAGCACTAAACCCTGA ACGTCTAAAGAAGTTCCAAGAACGGTACTCTACATTCGAGGATCCAATCATACCAAAGTTTCAT TATGGTTCACATTACTCCAGTGCTGGCACGGTATATCTTCATAGTAGATATGAATCCGATGTTT ACTTAGAATTCTGGATTTGCAATGTGAATTCCTTGCTCGATTATGTGGCCTGCAATTTTGATAT TTGGTCATTGTCCAGTGCATACTTGGTTATCACAATGTTTGATTTGTGTACTAATTACTACTAT CCCTTTCAGGTCTTGTATTACCTTTTCAGAGTGGAGCCTTTTACAACACTGTCTATACAACTGC AAGACGGCAAATTTGACCACGCTGATCGCATGTTTTCTGATCTTTCTGGTACATGGGATAGTGT TCTTGAAGACATGAGTGATGTAAAAGAGCTAGTAAGTCTACCAACAAGTATTTGCAGTAGTTCC CATCGATCTTTACTGGTTCATGGCGAAACCAAGTCTAGGTTGCAGCAATCTGATTATTTGATGG TAATTCATCTAGGTACCCGAGATGTTTTACCTCCCTGAGGTATTTACCAACATAAATGGCATTG ACTTTGGGACAACTCAACTTGGAGGGAAGCTAGGTAATTGCATTTCAACTTATGTCCACTATGC AGCTGAGTAGATAAAAACAGTAATGCAATTCCGGTACCATTGCAGATTCCGTAGAATTGCCTCC CTGGGCTGAAAATCATGTGGATTTTGTCCATAAACATCGGAAGGCTCTTGAGAGTGAGCACGTC TCTGCTCATTTGCATGAGTGGATTGATCTAATTTTTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249628906

Conservation Information
Conserved circRNAs	NA
PMCS	0.249628906

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20214673-20214669(+)
						
						Potential amino acid sequence
						
							MERWANWEINNFEYLMELNTLAGRSYNDITQYPVFPWVVADYKSRVLNLDDPLSYRDLSKPIGA
LNPERLKKFQERYSTFEDPIIPKFHYGSHYSSAGTVLYYLFRVEPFTTLSIQLQDGKFDHADRM
FSDLSGTWDSVLEDMSDVKELVPEMFYLPEVFTNINGIDFGTTQLGGKLDSVELPPWAENHVDF
VHKHRKALESEHVSAHLHEWIDLIFGELSRFLKELS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	20214673-20214669(+)
Potential amino acid sequence	MERWANWEINNFEYLMELNTLAGRSYNDITQYPVFPWVVADYKSRVLNLDDPLSYRDLSKPIGA LNPERLKKFQERYSTFEDPIIPKFHYGSHYSSAGTVLYYLFRVEPFTTLSIQLQDGKFDHADRM FSDLSGTWDSVLEDMSDVKELVPEMFYLPEVFTNINGIDFGTTQLGGKLDSVELPPWAENHVDF VHKHRKALESEHVSAHLHEWIDLIFGELSRFLKELS*(+)
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 Zm00001d002715_circ_g.6

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