Plant Circular RNA Database

Detail information of Zm00001d002332_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d002332_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007054
					
						Alias
						zma_circ_0000757
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 10492681-10494988  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d002332						
					
						Parent gene annotation
						
							NAD(P)-binding Rossmann-fold superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d002332_circ_g.2 Zm00001d002332_circ_g.3 Zm00001d002332_circ_g.4 Zm00001d002332_circ_g.5 						
					
						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
						Zm00001d002332_T022:5
Zm00001d002332_T005:5
Zm00001d002332_T009:1
Zm00001d002332_T018:5
Zm00001d002332_T016:5
Zm00001d002332_T001:5
Zm00001d002332_T020:5
Zm00001d002332_T015:5
Zm00001d002332_T026:4
Zm00001d002332_T011:5
Zm00001d002332_T024:5
Zm00001d002332_T025:5
Zm00001d002332_T007:5
Zm00001d002332_T006:5
Zm00001d002332_T012:5
Zm00001d002332_T004:5

General Information
CircRNA Name	Zm00001d002332_circ_g.1
ID in PlantcircBase	zma_circ_007054
Alias	zma_circ_0000757
Organism	Zea mays
Position	chr2: 10492681-10494988 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d002332
Parent gene annotation	NAD(P)-binding Rossmann-fold superfamily protein
Parent gene strand	-
Alternative splicing	Zm00001d002332_circ_g.2 Zm00001d002332_circ_g.3 Zm00001d002332_circ_g.4 Zm00001d002332_circ_g.5
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	Zm00001d002332_T022:5 Zm00001d002332_T005:5 Zm00001d002332_T009:1 Zm00001d002332_T018:5 Zm00001d002332_T016:5 Zm00001d002332_T001:5 Zm00001d002332_T020:5 Zm00001d002332_T015:5 Zm00001d002332_T026:4 Zm00001d002332_T011:5 Zm00001d002332_T024:5 Zm00001d002332_T025:5 Zm00001d002332_T007:5 Zm00001d002332_T006:5 Zm00001d002332_T012:5 Zm00001d002332_T004:5

			
						 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  
						
							CGTTCACAAGAATGTCGAGCTTGCCAAAATGTGCAACTGTTGCAGCAAGCACTCTGGCCGCGTC
CTCCTGGTTGCGGACATCTCCATCGAAACCAACAGCctccgaaagagttcacggcaccgtcata
gtgacttataaggcaaagaaatgattctctccttctcacgcggcagttgagacacaggaggaga
atcgcaca

									
								

					

						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: 833
Transcript exons: 10492681-10492847,10493318-10493430,10494206-10494428,10
494500-10494669,10494829-10494988
CTCCGAAAGAGTTCACGGCACCGTCATAGTGACTTATAAGGCAAAGAAATGATTCTCTCCTTCT
CACGCGGCAGTTGAGACACAGGAGGAGAATCGCACAGCTTTGCTTGCCTGTCAGCGTCTTGTTT
TCTTTCTCTTGAAGATCTCCATCTCCATTGTGTTCACACCTTCTTCTCAACCACCTTCGACAGC
TCCCTAACTTCCTCCTTGGGAATATGGCGAGGGTGACTTAACCAAAGACCTCCATCGACCACCA
GTGTTGTCCCATTTACATATTTGCCTGCATCAGAAGCAAGGTAGAGCGCAGCCATTGCTATGTC
CCGCTTCTCCCCAAATTTGAACAATGGCATCATTTCTCGAAGCCCCTTGCTCATTTCTTCAGGT
GCAAGCTTCCTCAGCCCCGGGGTGTCTTGAATTGGTCCAGGTGCAATCCCGTTGACTCTAATGT
CATAATCTGTTCCCCACTCCAGAGCCAGTGATCTTGTGATGCTATCAACCCCAGCCTTAGCAGC
AGAGACATGGATTTGGTACCAAGAAGCACTGTAATGCAGTGTTGCACTTATGTTAATGATTAGT
CCACCAGTGGACGGGCCTTTTCCTGGCCCACCCTTTTTCAGATACTTGAGGGCTTCATAGCACA
TTGTGTATGTACCCAAAGTGTCGATCTCAAGAACAGTTCTGAATCCCTTGGGCGTCAAATCCTC
CGGGGAAGCAAGGAAGTTGCCAGCTGCACCGTTCACAAGAATGTCGAGCTTGCCAAAATGTGCA
ACTGTTGCAGCAAGCACTCTGGCCGCGTCCTCCTGGTTGCGGACATCTCCATCGAAACCAACAG
C
						
					

						Genomic sequence
						
							CTCCGAAAGAGTTCACGGCACCGTCATAGTGACTTATAAGGCAAAGAAATGATTCTCTCCTTCT
CACGCGGCAGTTGAGACACAGGAGGAGAATCGCACAGCTTTGCTTGCCTGTCAGCGTCTTGTTT
TCTTTCTCTTGAAGATCTCCATCTCCATTGTGTTCACACCTGGTATGGTATATAGTTGTTACAT
GTTTTGTTACATATATAAATCCTCTCGCTTTTCCTGATTGTGCAGTAGCTACAACTTTGATGAA
GTGCCCCATTTGCAATGTTTTGACACATATGTTTATCCTAAACTAGACTGAAATTTATTATTCA
ACATAACACCTCGATGACACTATGAAGAGATGAGGGACAATTATGCTGTATTTTGTGTTCACAG
CACATAACGTGAACGTTTGGCGACAAACATCTTGGCTGGCATCACATATCAATCAAAACTGTCT
CAAATGGAACTTAGAAGAAAGAAATGTACTGTAAATATGCCAAGTTACTCAACTAAACAAACTC
GCTAATTAGATTGCAAGAGCCACACAGACAATAAAGTTCTGTAATAACATATTGATCGATGCTA
CAGATCACACAAATGCAAATCACAATTTGCTAGATGTTACACCAACACCAGAGGCCCTAACCTT
CTTCTCAACCACCTTCGACAGCTCCCTAACTTCCTCCTTGGGAATATGGCGAGGGTGACTTAAC
CAAAGACCTCCATCGACCACCAGTGTTGTCCCATTTACATATTTGCCTGCAAACATGATTATGT
CAAATGTCTGTGTTTCAGCTGAATTCAAACTGTTTCACCGCTCTATGGATTCCTTTAGATTACA
CCTAAAACAGTGTTAGACTGTTAGGGCTTGTTTGGGATAAATGGTAATGGAGGGGATTGAGGGG
GCTATAATCCCTCACTATTCAAAATTGAGTAGTGAGGGATTCTAGCCCACTTAACCCACTTCAT
TACCTTTGATCCCAAACAAACCCTTGGTGTCTGTCTAAGTGCTATGGGCCTAGAGCCCAGTTCA
TATAATCCACTACCATTGGGTATATCAGTATATGTAGTAATTTTCTCTTCCCCTCTCCTCCCTT
AGCTGCCGCCGCCACCTAGGCAGCATGACCCGCACTCCTACCCCTCCTCTCCTCTCCTCTCCCC
TCTCCCTCGAGGCTGGGTGTCAGTGGTCGCGGCACCTCCACCTCTCCCCGCCACCGCCCCCTCC
ACCCTAGCCACCGCCGCCGTTCCCCGAGCAAAAATCACAATATAGAGTCGGCTAAGGCCTTGTT
CGGTAATTACTATTCCATATAGATGGAATGAAATTGGAAAACAATATGAAAGATTTTAAATTGT
TTGGGATTTAAACCCACTCAATCCAATACATTGAGAGCAAAACGAACAAGCCCTTCTATTAGCT
CTGTGGACAATATCTTTCGTAATGACCTTCAGGTAAGTGGTGCACATCTATTGTTGAAATTATG
TGAGTATCTGACTTACGATAATCTCGTTAGGAAATATGCAGAACAGAACCAACCTGCATCAGAA
GCAAGGTAGAGCGCAGCCATTGCTATGTCCCGCTTCTCCCCAAATTTGAACAATGGCATCATTT
CTCGAAGCCCCTTGCTCATTTCTTCAGGTGCAAGCTTCCTCAGCCCCGGGGTGTCTTGAATTGG
TCCAGGTGCAATCCCGTTGACTCTAATGTCATAATCTGTTCCCCACTCCAGAGCCAGTGATCTT
GTGATGCTATCAACCCCAGCCTATACAAACGAATCTGCTTACTCCAATTATTTTCTGTTATTAA
GGAGTGATTCAGAGAAGAACCAGGTACCTTAGCAGCAGAGACATGGATTTGGTACCAAGAAGCA
CTGTAATGCAGTGTTGCACTTATGTTAATGATTAGTCCACCAGTGGACGGGCCTTTTCCTGGCC
CACCCTTTTTCAGATACTTGAGGGCTTCATAGCACATTGTGTATGTACCCAAAGTGTCGATCTC
AAGAACTGCAGAGAGAAATTCAGTCATTACAAACTTGTCTGAAAAAAGCGTAATAACAAACAAA
GTAAAATAAACAAGTTTTTGATCTAGCAGGCAATCACAATTGCCCAAACCAAAGACTCAGTGAA
TCTGAATGGAAACAAGAGCACATTTTGATGAAGTACCAGTTCTGAATCCCTTGGGCGTCAAATC
CTCCGGGGAAGCAAGGAAGTTGCCAGCTGCACCGTTCACAAGAATGTCGAGCTTGCCAAAATGT
GCAACTGTTGCAGCAAGCACTCTGGCCGCGTCCTCCTGGTTGCGGACATCTCCATCGAAACCAA
CAGC
						
					

			
		

Sequences
Splice junction sequence	CGTTCACAAGAATGTCGAGCTTGCCAAAATGTGCAACTGTTGCAGCAAGCACTCTGGCCGCGTC CTCCTGGTTGCGGACATCTCCATCGAAACCAACAGCctccgaaagagttcacggcaccgtcata gtgacttataaggcaaagaaatgattctctccttctcacgcggcagttgagacacaggaggaga atcgcaca
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: 833 Transcript exons: 10492681-10492847,10493318-10493430,10494206-10494428,10 494500-10494669,10494829-10494988 CTCCGAAAGAGTTCACGGCACCGTCATAGTGACTTATAAGGCAAAGAAATGATTCTCTCCTTCT CACGCGGCAGTTGAGACACAGGAGGAGAATCGCACAGCTTTGCTTGCCTGTCAGCGTCTTGTTT TCTTTCTCTTGAAGATCTCCATCTCCATTGTGTTCACACCTTCTTCTCAACCACCTTCGACAGC TCCCTAACTTCCTCCTTGGGAATATGGCGAGGGTGACTTAACCAAAGACCTCCATCGACCACCA GTGTTGTCCCATTTACATATTTGCCTGCATCAGAAGCAAGGTAGAGCGCAGCCATTGCTATGTC CCGCTTCTCCCCAAATTTGAACAATGGCATCATTTCTCGAAGCCCCTTGCTCATTTCTTCAGGT GCAAGCTTCCTCAGCCCCGGGGTGTCTTGAATTGGTCCAGGTGCAATCCCGTTGACTCTAATGT CATAATCTGTTCCCCACTCCAGAGCCAGTGATCTTGTGATGCTATCAACCCCAGCCTTAGCAGC AGAGACATGGATTTGGTACCAAGAAGCACTGTAATGCAGTGTTGCACTTATGTTAATGATTAGT CCACCAGTGGACGGGCCTTTTCCTGGCCCACCCTTTTTCAGATACTTGAGGGCTTCATAGCACA TTGTGTATGTACCCAAAGTGTCGATCTCAAGAACAGTTCTGAATCCCTTGGGCGTCAAATCCTC CGGGGAAGCAAGGAAGTTGCCAGCTGCACCGTTCACAAGAATGTCGAGCTTGCCAAAATGTGCA ACTGTTGCAGCAAGCACTCTGGCCGCGTCCTCCTGGTTGCGGACATCTCCATCGAAACCAACAG C
Genomic sequence	CTCCGAAAGAGTTCACGGCACCGTCATAGTGACTTATAAGGCAAAGAAATGATTCTCTCCTTCT CACGCGGCAGTTGAGACACAGGAGGAGAATCGCACAGCTTTGCTTGCCTGTCAGCGTCTTGTTT TCTTTCTCTTGAAGATCTCCATCTCCATTGTGTTCACACCTGGTATGGTATATAGTTGTTACAT GTTTTGTTACATATATAAATCCTCTCGCTTTTCCTGATTGTGCAGTAGCTACAACTTTGATGAA GTGCCCCATTTGCAATGTTTTGACACATATGTTTATCCTAAACTAGACTGAAATTTATTATTCA ACATAACACCTCGATGACACTATGAAGAGATGAGGGACAATTATGCTGTATTTTGTGTTCACAG CACATAACGTGAACGTTTGGCGACAAACATCTTGGCTGGCATCACATATCAATCAAAACTGTCT CAAATGGAACTTAGAAGAAAGAAATGTACTGTAAATATGCCAAGTTACTCAACTAAACAAACTC GCTAATTAGATTGCAAGAGCCACACAGACAATAAAGTTCTGTAATAACATATTGATCGATGCTA CAGATCACACAAATGCAAATCACAATTTGCTAGATGTTACACCAACACCAGAGGCCCTAACCTT CTTCTCAACCACCTTCGACAGCTCCCTAACTTCCTCCTTGGGAATATGGCGAGGGTGACTTAAC CAAAGACCTCCATCGACCACCAGTGTTGTCCCATTTACATATTTGCCTGCAAACATGATTATGT CAAATGTCTGTGTTTCAGCTGAATTCAAACTGTTTCACCGCTCTATGGATTCCTTTAGATTACA CCTAAAACAGTGTTAGACTGTTAGGGCTTGTTTGGGATAAATGGTAATGGAGGGGATTGAGGGG GCTATAATCCCTCACTATTCAAAATTGAGTAGTGAGGGATTCTAGCCCACTTAACCCACTTCAT TACCTTTGATCCCAAACAAACCCTTGGTGTCTGTCTAAGTGCTATGGGCCTAGAGCCCAGTTCA TATAATCCACTACCATTGGGTATATCAGTATATGTAGTAATTTTCTCTTCCCCTCTCCTCCCTT AGCTGCCGCCGCCACCTAGGCAGCATGACCCGCACTCCTACCCCTCCTCTCCTCTCCTCTCCCC TCTCCCTCGAGGCTGGGTGTCAGTGGTCGCGGCACCTCCACCTCTCCCCGCCACCGCCCCCTCC ACCCTAGCCACCGCCGCCGTTCCCCGAGCAAAAATCACAATATAGAGTCGGCTAAGGCCTTGTT CGGTAATTACTATTCCATATAGATGGAATGAAATTGGAAAACAATATGAAAGATTTTAAATTGT TTGGGATTTAAACCCACTCAATCCAATACATTGAGAGCAAAACGAACAAGCCCTTCTATTAGCT CTGTGGACAATATCTTTCGTAATGACCTTCAGGTAAGTGGTGCACATCTATTGTTGAAATTATG TGAGTATCTGACTTACGATAATCTCGTTAGGAAATATGCAGAACAGAACCAACCTGCATCAGAA GCAAGGTAGAGCGCAGCCATTGCTATGTCCCGCTTCTCCCCAAATTTGAACAATGGCATCATTT CTCGAAGCCCCTTGCTCATTTCTTCAGGTGCAAGCTTCCTCAGCCCCGGGGTGTCTTGAATTGG TCCAGGTGCAATCCCGTTGACTCTAATGTCATAATCTGTTCCCCACTCCAGAGCCAGTGATCTT GTGATGCTATCAACCCCAGCCTATACAAACGAATCTGCTTACTCCAATTATTTTCTGTTATTAA GGAGTGATTCAGAGAAGAACCAGGTACCTTAGCAGCAGAGACATGGATTTGGTACCAAGAAGCA CTGTAATGCAGTGTTGCACTTATGTTAATGATTAGTCCACCAGTGGACGGGCCTTTTCCTGGCC CACCCTTTTTCAGATACTTGAGGGCTTCATAGCACATTGTGTATGTACCCAAAGTGTCGATCTC AAGAACTGCAGAGAGAAATTCAGTCATTACAAACTTGTCTGAAAAAAGCGTAATAACAAACAAA GTAAAATAAACAAGTTTTTGATCTAGCAGGCAATCACAATTGCCCAAACCAAAGACTCAGTGAA TCTGAATGGAAACAAGAGCACATTTTGATGAAGTACCAGTTCTGAATCCCTTGGGCGTCAAATC CTCCGGGGAAGCAAGGAAGTTGCCAGCTGCACCGTTCACAAGAATGTCGAGCTTGCCAAAATGT GCAACTGTTGCAGCAAGCACTCTGGCCGCGTCCTCCTGGTTGCGGACATCTCCATCGAAACCAA CAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.104197644

Conservation Information
Conserved circRNAs	NA
PMCS	0.104197644

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10494901-10492729(+)
10494918-10492716(+)
						
						Potential amino acid sequence
						
							MSSLPKCATVAASTLAASSWLRTSPSKPTASERVHGTVIVTYKAKK*(+)
MCNCCSKHSGRVLLVADISIETNSLRKSSRHRHSDL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10494901-10492729(+) 10494918-10492716(+)
Potential amino acid sequence	MSSLPKCATVAASTLAASSWLRTSPSKPTASERVHGTVIVTYKAKK(+) MCNCCSKHSGRVLLVADISIETNSLRKSSRHRHSDL(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d002332_circ_g.1

Address

Any questions?

Supported by