Plant Circular RNA Database

Detail information of Zm00001d019947_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d019947_circ_g.1
					
						ID in PlantcircBase
						zma_circ_009295
					
						Alias
						zma_circ_0002750
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 78819969-78822125  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d019947						
					
						Parent gene annotation
						
							hydrolases acting on ester bonds
							
						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  
						
							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
						Zm00001d019947_T014:3
Zm00001d019947_T037:3
Zm00001d019947_T004:2
Zm00001d019947_T015:3
Zm00001d019947_T035:3
Zm00001d019947_T001:2
Zm00001d019947_T019:3
Zm00001d019947_T025:3
Zm00001d019947_T030:3
Zm00001d019947_T012:3
Zm00001d019947_T023:3
Zm00001d019947_T040:3
Zm00001d019947_T002:3
Zm00001d019947_T006:3
Zm00001d019947_T007:3
Zm00001d019947_T022:3
Zm00001d019947_T010:3
Zm00001d019947_T032:3
Zm00001d019947_T013:2
Zm00001d019947_T016:3
Zm00001d019947_T024:3
Zm00001d019947_T028:3
Zm00001d019947_T041:3
Zm00001d019947_T033:3
Zm00001d019947_T017:3

General Information
CircRNA Name	Zm00001d019947_circ_g.1
ID in PlantcircBase	zma_circ_009295
Alias	zma_circ_0002750
Organism	Zea mays
Position	chr7: 78819969-78822125 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d019947
Parent gene annotation	hydrolases acting on ester bonds
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	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	Zm00001d019947_T014:3 Zm00001d019947_T037:3 Zm00001d019947_T004:2 Zm00001d019947_T015:3 Zm00001d019947_T035:3 Zm00001d019947_T001:2 Zm00001d019947_T019:3 Zm00001d019947_T025:3 Zm00001d019947_T030:3 Zm00001d019947_T012:3 Zm00001d019947_T023:3 Zm00001d019947_T040:3 Zm00001d019947_T002:3 Zm00001d019947_T006:3 Zm00001d019947_T007:3 Zm00001d019947_T022:3 Zm00001d019947_T010:3 Zm00001d019947_T032:3 Zm00001d019947_T013:2 Zm00001d019947_T016:3 Zm00001d019947_T024:3 Zm00001d019947_T028:3 Zm00001d019947_T041:3 Zm00001d019947_T033:3 Zm00001d019947_T017:3

			
						 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  
						
							ATGGAGAAAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCTAATGTAGTT
GTTGTCTCTGTATCAGGTGGCATTCATGATTATCAGgttcggtcattggctgcagaatcttttc
gagcttatcagaatggtccacttgagcccaccttttatcaggaagcatctagtagtttaccagg
agatggac

									
								

					

						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: 285
Transcript exons: 78819969-78820093,78821966-78822125
GTTCGGTCATTGGCTGCAGAATCTTTTCGAGCTTATCAGAATGGTCCACTTGAGCCCACCTTTT
ATCAGGAAGCATCTAGTAGTTTACCAGGAGATGGACTCAACAATTTTTCTATTCCTTCACGGTA
CCCTCCCATCGCACTTCAGCCATCCTTGGGTCATTTTTTCTCCCATGTCAATGAAGAATGGAGA
AAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCTAATGTAGTTGTTGTCT
CTGTATCAGGTGGCATTCATGATTATCAG
						
					

						Genomic sequence
						
							GTTCGGTCATTGGCTGCAGAATCTTTTCGAGCTTATCAGAATGGTCCACTTGAGCCCACCTTTT
ATCAGGAAGCATCTAGTAGTTTACCAGGAGATGGACTCAACAATTTTTCTATTCCTTCACGGTA
TGGCCGCATGTTGGACTGGTTTGCTGTTGACCTTGAAGGAGAGCACTCTGCTATGGATGGTCAG
ATACTTGAGGAGCATACTGAATATGTTGTCTACGCGATTCATAGGGTAACTAGTCCCAACCTTT
AGCTTTAGGCTCTGTTTGTTTCCTTCCAGGATTATATAATCCAGCTTATATAGATTATATAAGC
ACCTAATGACCTGCTTATGGATTATCATAATCTAGGTATCTAGATTATATAATCCATCTAATAA
TCTGTGTTGTTTGTTTGTGTTGGGATTAGGGTTACGGAGGTAGTACGAGTGATAGGTTTGAGGT
CTAGGGTTGGGGACGCTTGGGCGCCGTCGGGCTGGTGGTTGGGAGTGGCGACACTGTTCACGCG
ATGCGGTTAGCGGGATGGAGGAAACACGGGCAAGATACTTGCCTGCTTAATCTTTCATTGATTG
GAGTACATTTATAGGGCTGAGATAGCAGCCGACCTTATCTAATATCTTAACAAACCAATTCCTT
ATCTATCTAAACAAACTCCTTATCCCTATCCATCTAAACAAACTAACTGATACTTATCCATCTA
AACAAACTAACTGATTTTATTAGGGCTGCTAGGCTGCCGGTCATAACAACTCTCCCGGCCTCCC
AAAACAACTCGTGCTCGACCTAGAAGGTAGGACTATGGGGGTGGGGGATCTTCCGCAACAGCCA
CCCCGTTGTCGTTGGCGGCATCACTCTGTCATCTCTGCTGGGGTGAGGCGCTTGAACGTCAGTG
CTGCTGGGGTGGAGGCAGCAGCCGCTACCAGCGTAGAGGATGGTGTAGCCAGTAGATGCGTAGA
GGGCGGAGGCGCGTGGCCGTCCGAGCCTTGCTGCGGCGCGCGTATGCAGGCGAGGGCCATGGCC
TACTGCAGGTCGCTGGGTGCGCACAGTTTGACGTCCACCCGGAGATGCCATGGAAGTCCGGCAG
TGAAGAGTTGTGCTTGTTGGTGCGGTGGTGGCATGGGCTCCGCGTGGCACAGGTGAGCCAGGAA
TCGATCCTGGTAGTCCTCCACTGTGGAGCAGAACGACAGGCATGCCACTTCGCCCAACTTGTTG
CTGCGCAGAGGAGGCCCAAAACGCTGCTGGCACGCGCGGCCAGTGCAGTGTAGGCTCGTCGCGC
CGCAGCATTGAAGCTAACTGATTTTATAAGGGCTACTAGGCTGCCGGCCATAACAGTTTGCTTC
TTAACTTATTTAAGCTGGATTATATAATCTCGAGGGTAAACAAACAGGGCCTTAAGCTTCAATC
TTAGCTTACCTATTTGACCCTTTGCTCATTAATGTTGTAATCTAATTTTCTTTTAGCCACCATT
GAATAGGAAGATTTCCACACATTGTTGGAATTTTTAAAATGTTTAAGATGACTATGTTCACAAC
AAAACATTGCTGTGCACTTAATCTAGAATTGCCACAAATTTATGGCACTGAAGTTTCCAACTTT
CCATGCATATTGTAATGCCTAAGGATTTCATCAGTGATAAAAATTTAGCATGACTTGATCTTGT
GCTTTGTAGATCCTTGACCAATACAAAGAATCACATTTGGAGAGATCAAAGGGTGGTGCTCAAT
CCTCTCCTGACCTGCCATCCAGTGTTATACTTGTTGGCCATTCGATGGGTGGTTTTGTGGCTCG
AGCAGCTGTAGTCCACCCAAACCTGAGGAAATCAGCGGTGGAAACTATACTGACACTTTCCAGC
CCACACCAGTACTCTCTGGTTCTCTGTTATTTATTTGTTGTAGTTGTGAGAGCGGGGTTTTTTT
TTTCACCATTGATTATAATTTTCACCATTGGGTGGATGAGCAAGCGTTACTTAGATGTCACATA
ATTTCTTATACAGGTACCCTCCCATCGCACTTCAGCCATCCTTGGGTCATTTTTTCTCCCATGT
CAATGAAGAATGGAGAAAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCT
AATGTAGTTGTTGTCTCTGTATCAGGTGGCATTCATGATTATCAG
						
					

			
		

Sequences
Splice junction sequence	ATGGAGAAAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCTAATGTAGTT GTTGTCTCTGTATCAGGTGGCATTCATGATTATCAGgttcggtcattggctgcagaatcttttc gagcttatcagaatggtccacttgagcccaccttttatcaggaagcatctagtagtttaccagg agatggac
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: 285 Transcript exons: 78819969-78820093,78821966-78822125 GTTCGGTCATTGGCTGCAGAATCTTTTCGAGCTTATCAGAATGGTCCACTTGAGCCCACCTTTT ATCAGGAAGCATCTAGTAGTTTACCAGGAGATGGACTCAACAATTTTTCTATTCCTTCACGGTA CCCTCCCATCGCACTTCAGCCATCCTTGGGTCATTTTTTCTCCCATGTCAATGAAGAATGGAGA AAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCTAATGTAGTTGTTGTCT CTGTATCAGGTGGCATTCATGATTATCAG
Genomic sequence	GTTCGGTCATTGGCTGCAGAATCTTTTCGAGCTTATCAGAATGGTCCACTTGAGCCCACCTTTT ATCAGGAAGCATCTAGTAGTTTACCAGGAGATGGACTCAACAATTTTTCTATTCCTTCACGGTA TGGCCGCATGTTGGACTGGTTTGCTGTTGACCTTGAAGGAGAGCACTCTGCTATGGATGGTCAG ATACTTGAGGAGCATACTGAATATGTTGTCTACGCGATTCATAGGGTAACTAGTCCCAACCTTT AGCTTTAGGCTCTGTTTGTTTCCTTCCAGGATTATATAATCCAGCTTATATAGATTATATAAGC ACCTAATGACCTGCTTATGGATTATCATAATCTAGGTATCTAGATTATATAATCCATCTAATAA TCTGTGTTGTTTGTTTGTGTTGGGATTAGGGTTACGGAGGTAGTACGAGTGATAGGTTTGAGGT CTAGGGTTGGGGACGCTTGGGCGCCGTCGGGCTGGTGGTTGGGAGTGGCGACACTGTTCACGCG ATGCGGTTAGCGGGATGGAGGAAACACGGGCAAGATACTTGCCTGCTTAATCTTTCATTGATTG GAGTACATTTATAGGGCTGAGATAGCAGCCGACCTTATCTAATATCTTAACAAACCAATTCCTT ATCTATCTAAACAAACTCCTTATCCCTATCCATCTAAACAAACTAACTGATACTTATCCATCTA AACAAACTAACTGATTTTATTAGGGCTGCTAGGCTGCCGGTCATAACAACTCTCCCGGCCTCCC AAAACAACTCGTGCTCGACCTAGAAGGTAGGACTATGGGGGTGGGGGATCTTCCGCAACAGCCA CCCCGTTGTCGTTGGCGGCATCACTCTGTCATCTCTGCTGGGGTGAGGCGCTTGAACGTCAGTG CTGCTGGGGTGGAGGCAGCAGCCGCTACCAGCGTAGAGGATGGTGTAGCCAGTAGATGCGTAGA GGGCGGAGGCGCGTGGCCGTCCGAGCCTTGCTGCGGCGCGCGTATGCAGGCGAGGGCCATGGCC TACTGCAGGTCGCTGGGTGCGCACAGTTTGACGTCCACCCGGAGATGCCATGGAAGTCCGGCAG TGAAGAGTTGTGCTTGTTGGTGCGGTGGTGGCATGGGCTCCGCGTGGCACAGGTGAGCCAGGAA TCGATCCTGGTAGTCCTCCACTGTGGAGCAGAACGACAGGCATGCCACTTCGCCCAACTTGTTG CTGCGCAGAGGAGGCCCAAAACGCTGCTGGCACGCGCGGCCAGTGCAGTGTAGGCTCGTCGCGC CGCAGCATTGAAGCTAACTGATTTTATAAGGGCTACTAGGCTGCCGGCCATAACAGTTTGCTTC TTAACTTATTTAAGCTGGATTATATAATCTCGAGGGTAAACAAACAGGGCCTTAAGCTTCAATC TTAGCTTACCTATTTGACCCTTTGCTCATTAATGTTGTAATCTAATTTTCTTTTAGCCACCATT GAATAGGAAGATTTCCACACATTGTTGGAATTTTTAAAATGTTTAAGATGACTATGTTCACAAC AAAACATTGCTGTGCACTTAATCTAGAATTGCCACAAATTTATGGCACTGAAGTTTCCAACTTT CCATGCATATTGTAATGCCTAAGGATTTCATCAGTGATAAAAATTTAGCATGACTTGATCTTGT GCTTTGTAGATCCTTGACCAATACAAAGAATCACATTTGGAGAGATCAAAGGGTGGTGCTCAAT CCTCTCCTGACCTGCCATCCAGTGTTATACTTGTTGGCCATTCGATGGGTGGTTTTGTGGCTCG AGCAGCTGTAGTCCACCCAAACCTGAGGAAATCAGCGGTGGAAACTATACTGACACTTTCCAGC CCACACCAGTACTCTCTGGTTCTCTGTTATTTATTTGTTGTAGTTGTGAGAGCGGGGTTTTTTT TTTCACCATTGATTATAATTTTCACCATTGGGTGGATGAGCAAGCGTTACTTAGATGTCACATA ATTTCTTATACAGGTACCCTCCCATCGCACTTCAGCCATCCTTGGGTCATTTTTTCTCCCATGT CAATGAAGAATGGAGAAAGGGATACAAGACTGGTGTATCACATGCAATCAGTTCAAAATTATCT AATGTAGTTGTTGTCTCTGTATCAGGTGGCATTCATGATTATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.162021915

Conservation Information
Conserved circRNAs	NA
PMCS	0.162021915

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							78822116-78822084(+)
78820046-78822081(-)
						
						Potential amino acid sequence
						
							MIIRFGHWLQNLFELIRMVHLSPPFIRKHLVVYQEMDSTIFLFLHGTLPSHFSHPWVIFSPMSM
KNGERDTRLVYHMQSVQNYLM*(+)
MLPDKRWAQVDHSDKLEKILQPMTEPDNHECHLIQRQQLH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	78822116-78822084(+) 78820046-78822081(-)
Potential amino acid sequence	MIIRFGHWLQNLFELIRMVHLSPPFIRKHLVVYQEMDSTIFLFLHGTLPSHFSHPWVIFSPMSM KNGERDTRLVYHMQSVQNYLM(+) MLPDKRWAQVDHSDKLEKILQPMTEPDNHECHLIQRQQLH(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d019947_circ_g.1

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