Plant Circular RNA Database

Detail information of Zm00001d033551_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d033551_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006890
					
						Alias
						Zm01circ00167
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 266944773-266945772  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d033551						
					
						Parent gene annotation
						
							Phosphoglycerate mutase-like family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d033551_T018:5
Zm00001d033551_T010:5
Zm00001d033551_T040:5
Zm00001d033551_T002:5
Zm00001d033551_T046:5
Zm00001d033551_T045:5
Zm00001d033551_T014:5
Zm00001d033551_T034:5
Zm00001d033551_T033:5
Zm00001d033551_T042:5
Zm00001d033551_T015:5
Zm00001d033551_T019:5
Zm00001d033551_T037:5
Zm00001d033551_T008:5
Zm00001d033551_T004:5
Zm00001d033551_T024:5
Zm00001d033551_T030:5
Zm00001d033551_T023:5
Zm00001d033551_T025:5
Zm00001d033551_T044:5
Zm00001d033551_T006:5
Zm00001d033551_T022:5
Zm00001d033551_T036:5
Zm00001d033551_T013:5
Zm00001d033551_T028:5
Zm00001d033551_T031:5
Zm00001d033551_T001:5

General Information
CircRNA Name	Zm00001d033551_circ_g.2
ID in PlantcircBase	zma_circ_006890
Alias	Zm01circ00167
Organism	Zea mays
Position	chr1: 266944773-266945772 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d033551
Parent gene annotation	Phosphoglycerate mutase-like family protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d033551_T018:5 Zm00001d033551_T010:5 Zm00001d033551_T040:5 Zm00001d033551_T002:5 Zm00001d033551_T046:5 Zm00001d033551_T045:5 Zm00001d033551_T014:5 Zm00001d033551_T034:5 Zm00001d033551_T033:5 Zm00001d033551_T042:5 Zm00001d033551_T015:5 Zm00001d033551_T019:5 Zm00001d033551_T037:5 Zm00001d033551_T008:5 Zm00001d033551_T004:5 Zm00001d033551_T024:5 Zm00001d033551_T030:5 Zm00001d033551_T023:5 Zm00001d033551_T025:5 Zm00001d033551_T044:5 Zm00001d033551_T006:5 Zm00001d033551_T022:5 Zm00001d033551_T036:5 Zm00001d033551_T013:5 Zm00001d033551_T028:5 Zm00001d033551_T031:5 Zm00001d033551_T001:5

			
						 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  
						
							ATTAATGTTGTGTATTAGGTCTGGTCGGGAGAGTGATAGTGATGCTGATGATATTGAGCATATC
GAGAAACTTCGTCAAGTCAAAGCAGTCCTAGAGGAGgtttgtggttttgatctcttaagatgtg
atgggagatcatatgtctgtgacgttaatggatggagctttgtgaagaactcatataagtattt
ttcttaat

						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
						
							GTTTGTGGTTTTGATCTCTTAAGATGTGATGGGAGATCATATGTCTGTGACGTTAATGGATGGA
GCTTTGTGAAGAACTCATATAAGTATTTTTCTTAATGTTCAGTTTTTAATTGGGAAACCTGTCA
GTTTGATTTAATAAGTGCTGAAATGTTTGAACAAACTTGTCATCCAGGTATTATGATGATGCTG
CTTGCATCTTGAGAAAAATATTTCTTGATGCAAAAGCTCCTCATCTTTCATCAACCATCCCTCC
AACTCTTCCTTGGAAGTCTGAACCAGTTCAGCCCACTGAAGGTCTTACACGACAGGGAAGTGGA
ATTATTGGTACATTTGGGCAGTCAGAAGAACTGCGCTGTGTAATTGTTGTAATACGCCAGTAAG
GATACTATTATTCCTTTGCTTCTATAAGATAATTGTTACTTCTGTAAGTTGACATCTTATATCT
GTTTAGTGGCGATCGGACACCAAAGCAGAAGGTGAAATTGAAAGTGACAGAAGAAAAGCTTCTG
AATTTGATGTTGAAGTACAATGGTGGAAAACCAAGAGTTGAGGTACCCTCTTTTCTGAATCTTG
AGTTCTGCTTAACTTATGGTGCTTAAATTGAATAGCAGTTTTGGGCTCTTCATGCAGACGAAAC
TAAAAAGTGCTGTACAGTTACAAGACTTGCTGGATGCTACAAGACAACTTGTACCACCAACTAG
GTACTGTATGATCAGATAAATATTTTAGCCTAGTATTTAGATTGCATGATAACTTTATGAAATT
TGCTTCCCCAACTTTATTCTTATCTTATGTATCTGCATGTTCTATTACCAGATTGCTGCATTAT
TCAAATTGTTAGTTTGATTTGATCTTCTGTTTCTTCAACTGCTCTTTTGAGTTAAATTCGGTGA
AGTGATTAATGTTGTGTATTAGGTCTGGTCGGGAGAGTGATAGTGATGCTGATGATATTGAGCA
TATCGAGAAACTTCGTCAAGTCAAAGCAGTCCTAGAGGAG

Sequences
Splice junction sequence	ATTAATGTTGTGTATTAGGTCTGGTCGGGAGAGTGATAGTGATGCTGATGATATTGAGCATATC GAGAAACTTCGTCAAGTCAAAGCAGTCCTAGAGGAGgtttgtggttttgatctcttaagatgtg atgggagatcatatgtctgtgacgttaatggatggagctttgtgaagaactcatataagtattt ttcttaat
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	GTTTGTGGTTTTGATCTCTTAAGATGTGATGGGAGATCATATGTCTGTGACGTTAATGGATGGA GCTTTGTGAAGAACTCATATAAGTATTTTTCTTAATGTTCAGTTTTTAATTGGGAAACCTGTCA GTTTGATTTAATAAGTGCTGAAATGTTTGAACAAACTTGTCATCCAGGTATTATGATGATGCTG CTTGCATCTTGAGAAAAATATTTCTTGATGCAAAAGCTCCTCATCTTTCATCAACCATCCCTCC AACTCTTCCTTGGAAGTCTGAACCAGTTCAGCCCACTGAAGGTCTTACACGACAGGGAAGTGGA ATTATTGGTACATTTGGGCAGTCAGAAGAACTGCGCTGTGTAATTGTTGTAATACGCCAGTAAG GATACTATTATTCCTTTGCTTCTATAAGATAATTGTTACTTCTGTAAGTTGACATCTTATATCT GTTTAGTGGCGATCGGACACCAAAGCAGAAGGTGAAATTGAAAGTGACAGAAGAAAAGCTTCTG AATTTGATGTTGAAGTACAATGGTGGAAAACCAAGAGTTGAGGTACCCTCTTTTCTGAATCTTG AGTTCTGCTTAACTTATGGTGCTTAAATTGAATAGCAGTTTTGGGCTCTTCATGCAGACGAAAC TAAAAAGTGCTGTACAGTTACAAGACTTGCTGGATGCTACAAGACAACTTGTACCACCAACTAG GTACTGTATGATCAGATAAATATTTTAGCCTAGTATTTAGATTGCATGATAACTTTATGAAATT TGCTTCCCCAACTTTATTCTTATCTTATGTATCTGCATGTTCTATTACCAGATTGCTGCATTAT TCAAATTGTTAGTTTGATTTGATCTTCTGTTTCTTCAACTGCTCTTTTGAGTTAAATTCGGTGA AGTGATTAATGTTGTGTATTAGGTCTGGTCGGGAGAGTGATAGTGATGCTGATGATATTGAGCA TATCGAGAAACTTCGTCAAGTCAAAGCAGTCCTAGAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229372408

Conservation Information
Conserved circRNAs	NA
PMCS	0.229372408

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							266945292-266945769(+)
						
						Potential amino acid sequence
						
							MLKYNGGKPRVETKLKSAVQLQDLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEV
CGFDLLRCDGRSYVCDVNGWSFVKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPV
QPTEGLTRQGSGIIGTFGQSEELRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRV
ETKLKSAVQLQDLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEVCGFDLLRCDGR
SYVCDVNGWSFVKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPVQPTEGLTRQGS
GIIGTFGQSEELRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRVETKLKSAVQLQ
DLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEVCGFDLLRCDGRSYVCDVNGWSF
VKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPVQPTEGLTRQGSGIIGTFGQSEE
LRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRVETKLKSAVQLQDLLDATRQLVP
PTRSGRESDSDADDIEHIEKLRQVKAVLEE(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	266945292-266945769(+)
Potential amino acid sequence	MLKYNGGKPRVETKLKSAVQLQDLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEV CGFDLLRCDGRSYVCDVNGWSFVKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPV QPTEGLTRQGSGIIGTFGQSEELRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRV ETKLKSAVQLQDLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEVCGFDLLRCDGR SYVCDVNGWSFVKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPVQPTEGLTRQGS GIIGTFGQSEELRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRVETKLKSAVQLQ DLLDATRQLVPPTRSGRESDSDADDIEHIEKLRQVKAVLEEVCGFDLLRCDGRSYVCDVNGWSF VKNSYKYYDDAACILRKIFLDAKAPHLSSTIPPTLPWKSEPVQPTEGLTRQGSGIIGTFGQSEE LRCVIVVIRHGDRTPKQKVKLKVTEEKLLNLMLKYNGGKPRVETKLKSAVQLQDLLDATRQLVP PTRSGRESDSDADDIEHIEKLRQVKAVLEE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d033551_circ_g.2

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