Plant Circular RNA Database

Detail information of Zm00001d011854_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d011854_circ_g.1
					

						ID in PlantcircBase
						zma_circ_009768
					

						Alias
						Zm08circ00071
					

						Organism
						
							Zea mays						
					

						Position
						
							chr8: 162915794-162916574  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI2
					

						Parent gene
						
							Zm00001d011854						
					

						Parent gene annotation
						
							Villin-2
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							NA						
					

						Support reads
						NA
					

						Tissues
						leaf, endosperm
					

						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-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
						Zm00001d011854_T039:2
Zm00001d011854_T014:2
Zm00001d011854_T067:2
Zm00001d011854_T024:2
Zm00001d011854_T046:2
Zm00001d011854_T047:2
Zm00001d011854_T028:2
Zm00001d011854_T043:2
Zm00001d011854_T031:2
Zm00001d011854_T056:2
Zm00001d011854_T037:2
Zm00001d011854_T088:2
Zm00001d011854_T072:2
Zm00001d011854_T077:2
Zm00001d011854_T080:2
Zm00001d011854_T055:2
Zm00001d011854_T018:2
Zm00001d011854_T015:2
Zm00001d011854_T017:2
Zm00001d011854_T089:2
Zm00001d011854_T051:2
Zm00001d011854_T004:2
Zm00001d011854_T030:2
Zm00001d011854_T010:2
Zm00001d011854_T069:2
Zm00001d011854_T006:2
Zm00001d011854_T005:2
Zm00001d011854_T036:2
Zm00001d011854_T079:2
Zm00001d011854_T021:2
Zm00001d011854_T013:2
Zm00001d011854_T022:2
Zm00001d011854_T054:2
Zm00001d011854_T063:2
Zm00001d011854_T083:2
Zm00001d011854_T064:2
Zm00001d011854_T040:2
Zm00001d011854_T091:1
Zm00001d011854_T075:2
Zm00001d011854_T050:2
Zm00001d011854_T068:2
Zm00001d011854_T001:2
Zm00001d011854_T038:2
Zm00001d011854_T033:2
Zm00001d011854_T087:2
Zm00001d011854_T002:2
Zm00001d011854_T025:2
Zm00001d011854_T065:2
Zm00001d011854_T008:2
Zm00001d011854_T041:2
Zm00001d011854_T011:2
Zm00001d011854_T070:2

					

			
		

General Information
CircRNA Name	Zm00001d011854_circ_g.1
ID in PlantcircBase	zma_circ_009768
Alias	Zm08circ00071
Organism	Zea mays
Position	chr8: 162915794-162916574 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d011854
Parent gene annotation	Villin-2
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm
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-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	Zm00001d011854_T039:2 Zm00001d011854_T014:2 Zm00001d011854_T067:2 Zm00001d011854_T024:2 Zm00001d011854_T046:2 Zm00001d011854_T047:2 Zm00001d011854_T028:2 Zm00001d011854_T043:2 Zm00001d011854_T031:2 Zm00001d011854_T056:2 Zm00001d011854_T037:2 Zm00001d011854_T088:2 Zm00001d011854_T072:2 Zm00001d011854_T077:2 Zm00001d011854_T080:2 Zm00001d011854_T055:2 Zm00001d011854_T018:2 Zm00001d011854_T015:2 Zm00001d011854_T017:2 Zm00001d011854_T089:2 Zm00001d011854_T051:2 Zm00001d011854_T004:2 Zm00001d011854_T030:2 Zm00001d011854_T010:2 Zm00001d011854_T069:2 Zm00001d011854_T006:2 Zm00001d011854_T005:2 Zm00001d011854_T036:2 Zm00001d011854_T079:2 Zm00001d011854_T021:2 Zm00001d011854_T013:2 Zm00001d011854_T022:2 Zm00001d011854_T054:2 Zm00001d011854_T063:2 Zm00001d011854_T083:2 Zm00001d011854_T064:2 Zm00001d011854_T040:2 Zm00001d011854_T091:1 Zm00001d011854_T075:2 Zm00001d011854_T050:2 Zm00001d011854_T068:2 Zm00001d011854_T001:2 Zm00001d011854_T038:2 Zm00001d011854_T033:2 Zm00001d011854_T087:2 Zm00001d011854_T002:2 Zm00001d011854_T025:2 Zm00001d011854_T065:2 Zm00001d011854_T008:2 Zm00001d011854_T041:2 Zm00001d011854_T011:2 Zm00001d011854_T070:2

			
						 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  
						
							GCATCTTTTTCCTGGCGAAACACATTGGACTCCCCAGCTTCAGACTGAGGAGAAGATGGACCAG
ATGGTCCAGCTGGAGTTATGACAGGCCTATCGACATtctcatgggaccgaccattcacgacgag
agggtcgcattttctagcaggcgcttgagacaaggcgtgttctctttagaagagatctgctttt
cgcttctg

						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
						
							TCTCATGGGACCGACCATTCACGACGAGAGGGTCGCATTTTCTAGCAGGCGCTTGAGACAAGGC
GTGTTCTCTTTAGAAGAGATCTGCTTTTCGCTTCTGTAGTTCTTGCTTCCAATTTGGCTGTCGG
TAGAATGCATCCTTGGTCATGCCAAAAACACTTTGGAACTCACTATCAGATAAGTATGCCTGCA
GAATCAATAGAGCAATTCAATAAAATTGGCCCAGCACAGTTCAATGTAAACCTCTCTTCAAGCA
AACTCGAACGTGAATAGACTCGGTTAAAACGAGGAACAAAAGAATATATATACGAATAAATGTG
ATGTCTCGAAAAGGAGCTGTCCAAAGAGAACCAATGGAACCAAAATGCGGCAATATAACAGAAG
CAAGCAATTTAGCTGCAGACAAAAGGTCGTAATTACTTATTGACACATGGAACAAATAAATAAC
TCCATACATGTTCACATCCTAAAGTCGAAATTCACCACTGCAAGGAGAGAATGGAAGGTGGGTG
TGGGGGACAAACCTCTCTGCGTTTGTAATCTATCCCACGGACTGGATCGGTAGATTTAGATATC
AAGCGGTCATAGCTAAATGTCGCTTCACCAACATTCTCTGTCGTTTCTTCCTCTCGGGTCTCAG
CCACTGCTCCATCAGTGTCAGATGGTGCCCCATCTACTGCAGCATCTTTTTCCTGGCGAAACAC
ATTGGACTCCCCAGCTTCAGACTGAGGAGAAGATGGACCAGATGGTCCAGCTGGAGTTATGACA
GGCCTATCGACAT

Sequences
Splice junction sequence	GCATCTTTTTCCTGGCGAAACACATTGGACTCCCCAGCTTCAGACTGAGGAGAAGATGGACCAG ATGGTCCAGCTGGAGTTATGACAGGCCTATCGACATtctcatgggaccgaccattcacgacgag agggtcgcattttctagcaggcgcttgagacaaggcgtgttctctttagaagagatctgctttt cgcttctg
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	TCTCATGGGACCGACCATTCACGACGAGAGGGTCGCATTTTCTAGCAGGCGCTTGAGACAAGGC GTGTTCTCTTTAGAAGAGATCTGCTTTTCGCTTCTGTAGTTCTTGCTTCCAATTTGGCTGTCGG TAGAATGCATCCTTGGTCATGCCAAAAACACTTTGGAACTCACTATCAGATAAGTATGCCTGCA GAATCAATAGAGCAATTCAATAAAATTGGCCCAGCACAGTTCAATGTAAACCTCTCTTCAAGCA AACTCGAACGTGAATAGACTCGGTTAAAACGAGGAACAAAAGAATATATATACGAATAAATGTG ATGTCTCGAAAAGGAGCTGTCCAAAGAGAACCAATGGAACCAAAATGCGGCAATATAACAGAAG CAAGCAATTTAGCTGCAGACAAAAGGTCGTAATTACTTATTGACACATGGAACAAATAAATAAC TCCATACATGTTCACATCCTAAAGTCGAAATTCACCACTGCAAGGAGAGAATGGAAGGTGGGTG TGGGGGACAAACCTCTCTGCGTTTGTAATCTATCCCACGGACTGGATCGGTAGATTTAGATATC AAGCGGTCATAGCTAAATGTCGCTTCACCAACATTCTCTGTCGTTTCTTCCTCTCGGGTCTCAG CCACTGCTCCATCAGTGTCAGATGGTGCCCCATCTACTGCAGCATCTTTTTCCTGGCGAAACAC ATTGGACTCCCCAGCTTCAGACTGAGGAGAAGATGGACCAGATGGTCCAGCTGGAGTTATGACA GGCCTATCGACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159300005

Conservation Information
Conserved circRNAs	NA
PMCS	0.159300005

			
						 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
						Han et al., 2020

circRNA

Detail information of Zm00001d011854_circ_g.1

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