Plant Circular RNA Database

Detail information of Zm00001d052282_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d052282_circ_g.1
					

						ID in PlantcircBase
						zma_circ_001777
					

						Alias
						circ806
					

						Organism
						
							Zea mays						
					

						Position
						
							chr4: 185933857-185934578  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d052282						
					

						Parent gene annotation
						
							Nuclear-pore anchor
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							NA						
					

						Support reads
						3
					

						Tissues
						seedling leaves
					

						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  
						
							GT-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
						Zm00001d052282_T066:4
Zm00001d052282_T002:4
Zm00001d052282_T022:4
Zm00001d052282_T057:4
Zm00001d052282_T017:4
Zm00001d052282_T007:4
Zm00001d052282_T084:4
Zm00001d052282_T042:4
Zm00001d052282_T019:4
Zm00001d052282_T040:4
Zm00001d052282_T077:4
Zm00001d052282_T006:4
Zm00001d052282_T036:3
Zm00001d052282_T004:4
Zm00001d052282_T047:4
Zm00001d052282_T054:4
Zm00001d052282_T024:4
Zm00001d052282_T089:4
Zm00001d052282_T030:4
Zm00001d052282_T082:4
Zm00001d052282_T015:4
Zm00001d052282_T049:3
Zm00001d052282_T086:3
Zm00001d052282_T080:4
Zm00001d052282_T013:4
Zm00001d052282_T045:4
Zm00001d052282_T063:4
Zm00001d052282_T052:4
Zm00001d052282_T074:4
Zm00001d052282_T001:4
Zm00001d052282_T058:3
Zm00001d052282_T025:4
Zm00001d052282_T069:3
Zm00001d052282_T034:4
Zm00001d052282_T061:4
Zm00001d052282_T072:4
Zm00001d052282_T070:4
Zm00001d052282_T027:4
Zm00001d052282_T005:4
Zm00001d052282_T091:1
Zm00001d052282_T029:4
Zm00001d052282_T003:4
Zm00001d052282_T041:4
Zm00001d052282_T038:4
Zm00001d052282_T088:4
Zm00001d052282_T090:4
Zm00001d052282_T079:4
Zm00001d052282_T051:4
Zm00001d052282_T064:4

					

			
		

General Information
CircRNA Name	Zm00001d052282_circ_g.1
ID in PlantcircBase	zma_circ_001777
Alias	circ806
Organism	Zea mays
Position	chr4: 185933857-185934578 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d052282
Parent gene annotation	Nuclear-pore anchor
Parent gene strand	+
Alternative splicing	NA
Support reads	3
Tissues	seedling leaves
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	GT-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	Zm00001d052282_T066:4 Zm00001d052282_T002:4 Zm00001d052282_T022:4 Zm00001d052282_T057:4 Zm00001d052282_T017:4 Zm00001d052282_T007:4 Zm00001d052282_T084:4 Zm00001d052282_T042:4 Zm00001d052282_T019:4 Zm00001d052282_T040:4 Zm00001d052282_T077:4 Zm00001d052282_T006:4 Zm00001d052282_T036:3 Zm00001d052282_T004:4 Zm00001d052282_T047:4 Zm00001d052282_T054:4 Zm00001d052282_T024:4 Zm00001d052282_T089:4 Zm00001d052282_T030:4 Zm00001d052282_T082:4 Zm00001d052282_T015:4 Zm00001d052282_T049:3 Zm00001d052282_T086:3 Zm00001d052282_T080:4 Zm00001d052282_T013:4 Zm00001d052282_T045:4 Zm00001d052282_T063:4 Zm00001d052282_T052:4 Zm00001d052282_T074:4 Zm00001d052282_T001:4 Zm00001d052282_T058:3 Zm00001d052282_T025:4 Zm00001d052282_T069:3 Zm00001d052282_T034:4 Zm00001d052282_T061:4 Zm00001d052282_T072:4 Zm00001d052282_T070:4 Zm00001d052282_T027:4 Zm00001d052282_T005:4 Zm00001d052282_T091:1 Zm00001d052282_T029:4 Zm00001d052282_T003:4 Zm00001d052282_T041:4 Zm00001d052282_T038:4 Zm00001d052282_T088:4 Zm00001d052282_T090:4 Zm00001d052282_T079:4 Zm00001d052282_T051:4 Zm00001d052282_T064:4

			
						 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  
						
							GGACTGATAGTATTTTATTTGAGAATGGGGCATATTTGGCTTGTTTCTCTTTATGCAGGCCAAG
TGTTCTGATCTAGAGGCAAAGGTGAAATCGAGAAAGggccacaatcgacacaatccataccact
gaggaggtccaagaggtatgcagttttaggcttaaagacgagtcatggaaaggtttagattata
tgttgcct

						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
						
							GGCCACAATCGACACAATCCATACCACTGAGGAGGTCCAAGAGGTATGCAGTTTTAGGCTTAAA
GACGAGTCATGGAAAGGTTTAGATTATATGTTGCCTCCTTGTTAACCTGTGGATTGTTTAGAAT
GCTAGGTCCATGGAAAGGAGAAATCATGAGGAACACATTAAGCGACTGGAAGTAAGTTTCCTCC
TTGCTACTTTTCCGCAGTGATGATTACTTGTATTTTATTTTTTAGGGATTGTCACTAGTGTTTT
GTTTTGTGTCTATGTTTTCATGGGTTTAATATTTTTGATCGTCTATCTTGTGTTCAAGCTTGTA
ACAGCTCAAATCTTAGCATGAGTTATCTGCATTACTTTTCCTTTCACTTAATCTTACCTAGGTA
TCCATTTATTCACAAACTTAATCATTCTGCAGAGGGATTGGGCTGAGCTTAACAAGGAGCTTCA
AGAGCAACGAGATCATGTCCGTGTTTTGTCTCTTGACAAGAAAAATGTCTTCGACAGCTGCATG
AAGCAGGTAGAGGATATGAGAAAAGAGCTAAATAACTCGTGGAAAGCTGTTTCTGATGCTGAAG
CAAGGGCTGCCATTGCGGAGGTTTGTTGAAATATTTTTATTGTACTGGACTGATAGTATTTTAT
TTGAGAATGGGGCATATTTGGCTTGTTTCTCTTTATGCAGGCCAAGTGTTCTGATCTAGAGGCA
AAGGTGAAATCGAGAAAG

Sequences
Splice junction sequence	GGACTGATAGTATTTTATTTGAGAATGGGGCATATTTGGCTTGTTTCTCTTTATGCAGGCCAAG TGTTCTGATCTAGAGGCAAAGGTGAAATCGAGAAAGggccacaatcgacacaatccataccact gaggaggtccaagaggtatgcagttttaggcttaaagacgagtcatggaaaggtttagattata tgttgcct
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	GGCCACAATCGACACAATCCATACCACTGAGGAGGTCCAAGAGGTATGCAGTTTTAGGCTTAAA GACGAGTCATGGAAAGGTTTAGATTATATGTTGCCTCCTTGTTAACCTGTGGATTGTTTAGAAT GCTAGGTCCATGGAAAGGAGAAATCATGAGGAACACATTAAGCGACTGGAAGTAAGTTTCCTCC TTGCTACTTTTCCGCAGTGATGATTACTTGTATTTTATTTTTTAGGGATTGTCACTAGTGTTTT GTTTTGTGTCTATGTTTTCATGGGTTTAATATTTTTGATCGTCTATCTTGTGTTCAAGCTTGTA ACAGCTCAAATCTTAGCATGAGTTATCTGCATTACTTTTCCTTTCACTTAATCTTACCTAGGTA TCCATTTATTCACAAACTTAATCATTCTGCAGAGGGATTGGGCTGAGCTTAACAAGGAGCTTCA AGAGCAACGAGATCATGTCCGTGTTTTGTCTCTTGACAAGAAAAATGTCTTCGACAGCTGCATG AAGCAGGTAGAGGATATGAGAAAAGAGCTAAATAACTCGTGGAAAGCTGTTTCTGATGCTGAAG CAAGGGCTGCCATTGCGGAGGTTTGTTGAAATATTTTTATTGTACTGGACTGATAGTATTTTAT TTGAGAATGGGGCATATTTGGCTTGTTTCTCTTTATGCAGGCCAAGTGTTCTGATCTAGAGGCA AAGGTGAAATCGAGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120447253

Conservation Information
Conserved circRNAs	NA
PMCS	0.120447253

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d052282_circ_g.1

Address

Any questions?

Supported by