Plant Circular RNA Database

Detail information of Zm00001d023640_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d023640_circ_g.5
					
						ID in PlantcircBase
						zma_circ_006061
					
						Alias
						embryosac_test_circ_001149
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 13327370-13329231  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d023640						
					
						Parent gene annotation
						
							Ubiquitin carboxyl-terminal hydrolase 13
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d023640_circ_g.1 Zm00001d023640_circ_g.2 Zm00001d023640_circ_g.3 Zm00001d023640_circ_g.4 Zm00001d023640_circ_g.6 						
					
						Support reads
						NA
					
						Tissues
						embryo sac
					
						Exon boundary  
						
							No-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-CA							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
						Zm00001d023640_T004:6
Zm00001d023640_T043:6
Zm00001d023640_T028:6
Zm00001d023640_T001:6
Zm00001d023640_T042:6
Zm00001d023640_T002:6
Zm00001d023640_T010:6
Zm00001d023640_T014:6
Zm00001d023640_T005:6
Zm00001d023640_T033:6
Zm00001d023640_T006:6
Zm00001d023640_T008:5
Zm00001d023640_T011:6
Zm00001d023640_T034:6
Zm00001d023640_T019:6
Zm00001d023640_T020:6
Zm00001d023640_T021:6
Zm00001d023640_T013:5
Zm00001d023640_T015:5
Zm00001d023640_T003:5
Zm00001d023640_T012:5
Zm00001d023640_T044:6
Zm00001d023640_T024:4
Zm00001d023640_T022:6
Zm00001d023640_T018:6
Zm00001d023640_T016:6
Zm00001d023640_T009:6
Zm00001d023640_T007:5
Zm00001d023640_T017:6
Zm00001d023640_T032:6

General Information
CircRNA Name	Zm00001d023640_circ_g.5
ID in PlantcircBase	zma_circ_006061
Alias	embryosac_test_circ_001149
Organism	Zea mays
Position	chr10: 13327370-13329231 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	find_circ
Parent gene	Zm00001d023640
Parent gene annotation	Ubiquitin carboxyl-terminal hydrolase 13
Parent gene strand	-
Alternative splicing	Zm00001d023640_circ_g.1 Zm00001d023640_circ_g.2 Zm00001d023640_circ_g.3 Zm00001d023640_circ_g.4 Zm00001d023640_circ_g.6
Support reads	NA
Tissues	embryo sac
Exon boundary	No-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-CA 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	Zm00001d023640_T004:6 Zm00001d023640_T043:6 Zm00001d023640_T028:6 Zm00001d023640_T001:6 Zm00001d023640_T042:6 Zm00001d023640_T002:6 Zm00001d023640_T010:6 Zm00001d023640_T014:6 Zm00001d023640_T005:6 Zm00001d023640_T033:6 Zm00001d023640_T006:6 Zm00001d023640_T008:5 Zm00001d023640_T011:6 Zm00001d023640_T034:6 Zm00001d023640_T019:6 Zm00001d023640_T020:6 Zm00001d023640_T021:6 Zm00001d023640_T013:5 Zm00001d023640_T015:5 Zm00001d023640_T003:5 Zm00001d023640_T012:5 Zm00001d023640_T044:6 Zm00001d023640_T024:4 Zm00001d023640_T022:6 Zm00001d023640_T018:6 Zm00001d023640_T016:6 Zm00001d023640_T009:6 Zm00001d023640_T007:5 Zm00001d023640_T017:6 Zm00001d023640_T032:6

			
						 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  
						
							AGAAACTCATGAGATTGAAACGCACCACTGATCCGAGAGTGTCGGCCGAATGAAAGCATAGTAG
TGGCCACCATGTACTCCTCCACTATGAACAAGAACActgattgtgcttcctcatggggtgtcaa
tggacgattgggccggtatgtatggttctgcctcttagcccacaaccagaagcgctgaaactgt
acagggat

									
								

					

						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
						
							CTGATTGTGCTTCCTCATGGGGTGTCAATGGACGATTGGGCCGGTATGTATGGTTCTGCCTCTT
AGCCCACAACCAGAAGCGCTGAAACTGTACAGGGATGCCAAATTCCTTTGCAACTTCCTCCTGA
ACAGTTCATTTGAATATCAAATCAGACTACCAAAATAAATGGTCACTAACTCACTGTTATAGCT
TCAGATTATAGAGCGCAACTAGAAAATTAATGAAATCTAGAATGCAGTAATAGAATGTTCCAAA
GTGGTAATGAAAACCATTAATCAGCCAGACTATAAAGCAAGTTTGCTGACTATTTCTGGTAGGT
GTCCATTTTAATTTTTTAAGATAGAATTGCAACAGAATAGGACTGTAGCAGCTCAATCTCTTAC
AAAGAGGACTGTAGTATCCAAAAATCATAACCATGAAGCCATGGTTTAAATAAACATGTAGGGT
TTTTTGGGCCAATACCTTGAATGAAGTAAAAGGCAACTGCTTCTGAATGCGGAAACTGTGAACT
TTTTCATGGTCCACCAGATCAAAATATATATTCTTACCGATTTGCTCCTTTAAGTCCTCGTCTC
GAGCGATCTATTTTCATTTTTACACAAAAAGTTCTATCAAGAGGAGTCACCAAGAGAGAACTTA
GGCACTTAGCTGCTGGTATGACTGAAACAAGATCAGACCTTTATGATAGTGTAGAGATGAGCTT
CAGCCTTCTCCTTCTTCTTGTGTTCTTTCTCTTCTTGTTCTTTCTTCAACCTTATCTGTAAAAG
AATAGTTCAATCAATCACTATCTTCAACAAAAATACAAGATGATACAAAGAAAAGTGGGAAAGT
ATACAGGAACTACCGAACTACTTACCCGCAAATGCTCAGCGATGTCCTTCTCATCGACATTACA
CATTATTTTCTCTTTGTCACTCTCACGTATATAGACAAGCATGTAGGCATTCGAATACTTTGTG
AATTTAAATGGCGTGTTATTGAAACCAGGGTTTATTTGAGGCAACTGTTCCATACAAAGAAGAA
ATAAGAGGAAAGTTAATACAAGTCCGCAAGTATTGTATTGAATGAACATTTGTCATAAAGAATG
TTACCTCTTCCTCACCCCCATACTGCTCTTCAAGTGCCTTTTTAGTGTCTTCTTTTGTAACCCG
CTCATCATCAAATTTGTACCTGCAAACCAACCAGAAAAAAACCATAGAGATGGTATTTGTATAA
CGTTTTCAAACTTCAAAGATATAGTAACTGGATGATAATGTGCTCATAAGCAAAGAATGTGACT
CCATGTGCCATCTGGTTAAATAAGATATTACTGTGAAAGAAGGCTCTTTATCACTGTGAACAGT
CAATCTACAGTGTAGCTGATAGAAGATGATAAAGCTAACCAACAGATTCAGAGGATTACATTGC
ATGTTGACACCAGACACAAGATGGTGATAAAGCCAGAAATGAGTAGACTCAAGTTATGAGCATG
GCAAAGTGTAAATATACCCAGTTCATATCACGCAGCTGTTACATATATATCACGCCCATCTATT
CTAGACCCATACAGCCCATATGCTGTAATGCTGTATATATGAGACATCAAGTCTAACTGAGAGG
TTATCTTCCCACAAATTATTCCAAGGTAACAGCAGCATGGAGCATTTTAAGAATCACAAATATG
TCTTAAGCTTCAATATGATGGGCCACAACCAGAATAATGGTGCATGACAGAAAATTGTAAGGCA
AACTGTATCACAGGACACATCTACCACAATGAACAGAAACTCATGAGATTGAAACGCACCACTG
ATCCGAGAGTGTCGGCCGAATGAAAGCATAGTAGTGGCCACCATGTACTCCTCCACTATGAACA
AGAACA
						
					

			
		

Sequences
Splice junction sequence	AGAAACTCATGAGATTGAAACGCACCACTGATCCGAGAGTGTCGGCCGAATGAAAGCATAGTAG TGGCCACCATGTACTCCTCCACTATGAACAAGAACActgattgtgcttcctcatggggtgtcaa tggacgattgggccggtatgtatggttctgcctcttagcccacaaccagaagcgctgaaactgt acagggat
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	CTGATTGTGCTTCCTCATGGGGTGTCAATGGACGATTGGGCCGGTATGTATGGTTCTGCCTCTT AGCCCACAACCAGAAGCGCTGAAACTGTACAGGGATGCCAAATTCCTTTGCAACTTCCTCCTGA ACAGTTCATTTGAATATCAAATCAGACTACCAAAATAAATGGTCACTAACTCACTGTTATAGCT TCAGATTATAGAGCGCAACTAGAAAATTAATGAAATCTAGAATGCAGTAATAGAATGTTCCAAA GTGGTAATGAAAACCATTAATCAGCCAGACTATAAAGCAAGTTTGCTGACTATTTCTGGTAGGT GTCCATTTTAATTTTTTAAGATAGAATTGCAACAGAATAGGACTGTAGCAGCTCAATCTCTTAC AAAGAGGACTGTAGTATCCAAAAATCATAACCATGAAGCCATGGTTTAAATAAACATGTAGGGT TTTTTGGGCCAATACCTTGAATGAAGTAAAAGGCAACTGCTTCTGAATGCGGAAACTGTGAACT TTTTCATGGTCCACCAGATCAAAATATATATTCTTACCGATTTGCTCCTTTAAGTCCTCGTCTC GAGCGATCTATTTTCATTTTTACACAAAAAGTTCTATCAAGAGGAGTCACCAAGAGAGAACTTA GGCACTTAGCTGCTGGTATGACTGAAACAAGATCAGACCTTTATGATAGTGTAGAGATGAGCTT CAGCCTTCTCCTTCTTCTTGTGTTCTTTCTCTTCTTGTTCTTTCTTCAACCTTATCTGTAAAAG AATAGTTCAATCAATCACTATCTTCAACAAAAATACAAGATGATACAAAGAAAAGTGGGAAAGT ATACAGGAACTACCGAACTACTTACCCGCAAATGCTCAGCGATGTCCTTCTCATCGACATTACA CATTATTTTCTCTTTGTCACTCTCACGTATATAGACAAGCATGTAGGCATTCGAATACTTTGTG AATTTAAATGGCGTGTTATTGAAACCAGGGTTTATTTGAGGCAACTGTTCCATACAAAGAAGAA ATAAGAGGAAAGTTAATACAAGTCCGCAAGTATTGTATTGAATGAACATTTGTCATAAAGAATG TTACCTCTTCCTCACCCCCATACTGCTCTTCAAGTGCCTTTTTAGTGTCTTCTTTTGTAACCCG CTCATCATCAAATTTGTACCTGCAAACCAACCAGAAAAAAACCATAGAGATGGTATTTGTATAA CGTTTTCAAACTTCAAAGATATAGTAACTGGATGATAATGTGCTCATAAGCAAAGAATGTGACT CCATGTGCCATCTGGTTAAATAAGATATTACTGTGAAAGAAGGCTCTTTATCACTGTGAACAGT CAATCTACAGTGTAGCTGATAGAAGATGATAAAGCTAACCAACAGATTCAGAGGATTACATTGC ATGTTGACACCAGACACAAGATGGTGATAAAGCCAGAAATGAGTAGACTCAAGTTATGAGCATG GCAAAGTGTAAATATACCCAGTTCATATCACGCAGCTGTTACATATATATCACGCCCATCTATT CTAGACCCATACAGCCCATATGCTGTAATGCTGTATATATGAGACATCAAGTCTAACTGAGAGG TTATCTTCCCACAAATTATTCCAAGGTAACAGCAGCATGGAGCATTTTAAGAATCACAAATATG TCTTAAGCTTCAATATGATGGGCCACAACCAGAATAATGGTGCATGACAGAAAATTGTAAGGCA AACTGTATCACAGGACACATCTACCACAATGAACAGAAACTCATGAGATTGAAACGCACCACTG ATCCGAGAGTGTCGGCCGAATGAAAGCATAGTAGTGGCCACCATGTACTCCTCCACTATGAACA AGAACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.014008136

Conservation Information
Conserved circRNAs	NA
PMCS	0.014008136

			
						 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
						Tang et al., 2018

circRNA

Detail information of Zm00001d023640_circ_g.5

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