Plant Circular RNA Database

Detail information of Zm00001d043418_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d043418_circ_g.1
					

						ID in PlantcircBase
						zma_circ_001496
					

						Alias
						circ663
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 199101940-199103487  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d043418						
					

						Parent gene annotation
						
							La-related protein 6A
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							NA						
					

						Support reads
						5
					

						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-TA							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
						Zm00001d043418_T004:6
Zm00001d043418_T121:6
Zm00001d043418_T045:6
Zm00001d043418_T007:6
Zm00001d043418_T135:6
Zm00001d043418_T038:6
Zm00001d043418_T049:6
Zm00001d043418_T086:6
Zm00001d043418_T137:6
Zm00001d043418_T013:6
Zm00001d043418_T091:6
Zm00001d043418_T109:6
Zm00001d043418_T042:6
Zm00001d043418_T033:6
Zm00001d043418_T114:5
Zm00001d043418_T027:6
Zm00001d043418_T118:6
Zm00001d043418_T054:6
Zm00001d043418_T099:6
Zm00001d043418_T064:6
Zm00001d043418_T074:6
Zm00001d043418_T084:6
Zm00001d043418_T094:6
Zm00001d043418_T072:6
Zm00001d043418_T009:6
Zm00001d043418_T119:6
Zm00001d043418_T018:6
Zm00001d043418_T129:6
Zm00001d043418_T139:4
Zm00001d043418_T058:6
Zm00001d043418_T133:6
Zm00001d043418_T104:6
Zm00001d043418_T130:6
Zm00001d043418_T075:6
Zm00001d043418_T040:6
Zm00001d043418_T082:6
Zm00001d043418_T102:5
Zm00001d043418_T010:6
Zm00001d043418_T044:6
Zm00001d043418_T026:6
Zm00001d043418_T052:6
Zm00001d043418_T011:6
Zm00001d043418_T070:6
Zm00001d043418_T126:6
Zm00001d043418_T106:6
Zm00001d043418_T016:6
Zm00001d043418_T050:6
Zm00001d043418_T112:5
Zm00001d043418_T023:6
Zm00001d043418_T002:6
Zm00001d043418_T088:6
Zm00001d043418_T101:6
Zm00001d043418_T092:6
Zm00001d043418_T035:6
Zm00001d043418_T005:6
Zm00001d043418_T059:6
Zm00001d043418_T076:6
Zm00001d043418_T062:6
Zm00001d043418_T068:6
Zm00001d043418_T057:6
Zm00001d043418_T103:6
Zm00001d043418_T078:6
Zm00001d043418_T083:6
Zm00001d043418_T069:6
Zm00001d043418_T095:6
Zm00001d043418_T037:6
Zm00001d043418_T138:5
Zm00001d043418_T090:6
Zm00001d043418_T107:6
Zm00001d043418_T046:6
Zm00001d043418_T029:6
Zm00001d043418_T089:6
Zm00001d043418_T122:6
Zm00001d043418_T003:6
Zm00001d043418_T117:6
Zm00001d043418_T039:6
Zm00001d043418_T063:6
Zm00001d043418_T079:6
Zm00001d043418_T041:6
Zm00001d043418_T110:6
Zm00001d043418_T097:6
Zm00001d043418_T048:6
Zm00001d043418_T115:6
Zm00001d043418_T031:6
Zm00001d043418_T066:5
Zm00001d043418_T028:6
Zm00001d043418_T032:6
Zm00001d043418_T055:6
Zm00001d043418_T034:6
Zm00001d043418_T012:6
Zm00001d043418_T019:6
Zm00001d043418_T077:6
Zm00001d043418_T020:6
Zm00001d043418_T098:6
Zm00001d043418_T131:6
Zm00001d043418_T006:5
Zm00001d043418_T043:6
Zm00001d043418_T065:6
Zm00001d043418_T093:6
Zm00001d043418_T096:6
Zm00001d043418_T087:6
Zm00001d043418_T053:6
Zm00001d043418_T080:6
Zm00001d043418_T071:6
Zm00001d043418_T047:6
Zm00001d043418_T125:6
Zm00001d043418_T056:6
Zm00001d043418_T025:6
Zm00001d043418_T134:6
Zm00001d043418_T015:6
Zm00001d043418_T021:6
Zm00001d043418_T073:6
Zm00001d043418_T100:6
Zm00001d043418_T017:6
Zm00001d043418_T051:6
Zm00001d043418_T105:6
Zm00001d043418_T111:6
Zm00001d043418_T132:6
Zm00001d043418_T067:6
Zm00001d043418_T081:6
Zm00001d043418_T127:6
Zm00001d043418_T036:6
Zm00001d043418_T014:6
Zm00001d043418_T008:6
Zm00001d043418_T120:6
Zm00001d043418_T136:6
Zm00001d043418_T030:6
Zm00001d043418_T116:6
Zm00001d043418_T124:6
Zm00001d043418_T123:6
Zm00001d043418_T128:6
Zm00001d043418_T024:6
Zm00001d043418_T113:6

					

			
		

General Information
CircRNA Name	Zm00001d043418_circ_g.1
ID in PlantcircBase	zma_circ_001496
Alias	circ663
Organism	Zea mays
Position	chr3: 199101940-199103487 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d043418
Parent gene annotation	La-related protein 6A
Parent gene strand	+
Alternative splicing	NA
Support reads	5
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-TA 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	Zm00001d043418_T004:6 Zm00001d043418_T121:6 Zm00001d043418_T045:6 Zm00001d043418_T007:6 Zm00001d043418_T135:6 Zm00001d043418_T038:6 Zm00001d043418_T049:6 Zm00001d043418_T086:6 Zm00001d043418_T137:6 Zm00001d043418_T013:6 Zm00001d043418_T091:6 Zm00001d043418_T109:6 Zm00001d043418_T042:6 Zm00001d043418_T033:6 Zm00001d043418_T114:5 Zm00001d043418_T027:6 Zm00001d043418_T118:6 Zm00001d043418_T054:6 Zm00001d043418_T099:6 Zm00001d043418_T064:6 Zm00001d043418_T074:6 Zm00001d043418_T084:6 Zm00001d043418_T094:6 Zm00001d043418_T072:6 Zm00001d043418_T009:6 Zm00001d043418_T119:6 Zm00001d043418_T018:6 Zm00001d043418_T129:6 Zm00001d043418_T139:4 Zm00001d043418_T058:6 Zm00001d043418_T133:6 Zm00001d043418_T104:6 Zm00001d043418_T130:6 Zm00001d043418_T075:6 Zm00001d043418_T040:6 Zm00001d043418_T082:6 Zm00001d043418_T102:5 Zm00001d043418_T010:6 Zm00001d043418_T044:6 Zm00001d043418_T026:6 Zm00001d043418_T052:6 Zm00001d043418_T011:6 Zm00001d043418_T070:6 Zm00001d043418_T126:6 Zm00001d043418_T106:6 Zm00001d043418_T016:6 Zm00001d043418_T050:6 Zm00001d043418_T112:5 Zm00001d043418_T023:6 Zm00001d043418_T002:6 Zm00001d043418_T088:6 Zm00001d043418_T101:6 Zm00001d043418_T092:6 Zm00001d043418_T035:6 Zm00001d043418_T005:6 Zm00001d043418_T059:6 Zm00001d043418_T076:6 Zm00001d043418_T062:6 Zm00001d043418_T068:6 Zm00001d043418_T057:6 Zm00001d043418_T103:6 Zm00001d043418_T078:6 Zm00001d043418_T083:6 Zm00001d043418_T069:6 Zm00001d043418_T095:6 Zm00001d043418_T037:6 Zm00001d043418_T138:5 Zm00001d043418_T090:6 Zm00001d043418_T107:6 Zm00001d043418_T046:6 Zm00001d043418_T029:6 Zm00001d043418_T089:6 Zm00001d043418_T122:6 Zm00001d043418_T003:6 Zm00001d043418_T117:6 Zm00001d043418_T039:6 Zm00001d043418_T063:6 Zm00001d043418_T079:6 Zm00001d043418_T041:6 Zm00001d043418_T110:6 Zm00001d043418_T097:6 Zm00001d043418_T048:6 Zm00001d043418_T115:6 Zm00001d043418_T031:6 Zm00001d043418_T066:5 Zm00001d043418_T028:6 Zm00001d043418_T032:6 Zm00001d043418_T055:6 Zm00001d043418_T034:6 Zm00001d043418_T012:6 Zm00001d043418_T019:6 Zm00001d043418_T077:6 Zm00001d043418_T020:6 Zm00001d043418_T098:6 Zm00001d043418_T131:6 Zm00001d043418_T006:5 Zm00001d043418_T043:6 Zm00001d043418_T065:6 Zm00001d043418_T093:6 Zm00001d043418_T096:6 Zm00001d043418_T087:6 Zm00001d043418_T053:6 Zm00001d043418_T080:6 Zm00001d043418_T071:6 Zm00001d043418_T047:6 Zm00001d043418_T125:6 Zm00001d043418_T056:6 Zm00001d043418_T025:6 Zm00001d043418_T134:6 Zm00001d043418_T015:6 Zm00001d043418_T021:6 Zm00001d043418_T073:6 Zm00001d043418_T100:6 Zm00001d043418_T017:6 Zm00001d043418_T051:6 Zm00001d043418_T105:6 Zm00001d043418_T111:6 Zm00001d043418_T132:6 Zm00001d043418_T067:6 Zm00001d043418_T081:6 Zm00001d043418_T127:6 Zm00001d043418_T036:6 Zm00001d043418_T014:6 Zm00001d043418_T008:6 Zm00001d043418_T120:6 Zm00001d043418_T136:6 Zm00001d043418_T030:6 Zm00001d043418_T116:6 Zm00001d043418_T124:6 Zm00001d043418_T123:6 Zm00001d043418_T128:6 Zm00001d043418_T024:6 Zm00001d043418_T113:6

			
						 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  
						
							AAAAGAAGACCAGCTTAAAACCTTGGAAAAGATCTCCGGTGCTGATGCAGTGGGGATTACCAAG
GACAGAGATAATTTGAAACCTGTTTTTATCACTGAGgttcctattgagatcatcgcatcattta
ggagaatgaagaaactcgttcaagacctctcagtaattgaagctgcactcaggacatcatcaaa
gctggtag

									
								

					

						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
						
							GTTCCTATTGAGATCATCGCATCATTTAGGAGAATGAAGAAACTCGTTCAAGACCTCTCAGTAA
TTGAAGCTGCACTCAGGACATCATCAAAGCTGGTAGTATTTTGCAATTTCAATCTGTGCGGACA
CTTTGAATTACTTACCGTCTGTTAGTAATGCACACTCGATTGCCATGTCAGGTTTTAAATTTTG
GGACATAATTGTCTGCACCTTCTATTTTAGGTTGTAAGTTCAAATGGGAAACGGGTCAGGAGGT
TACATCCATTGCCACACAAAGAATTGAAAGATTCAAAGGTAAATAACTGATTCCATCCTTATTG
GACTGCATTATACCTAGGGTATCTGAATTGCAACAACTTAAAGAGAATACATTGTATTTGCAGA
AAAGCACTGTTTTGGTCGAAAATCTACCTCCAGATTTCTCAATGGAGAGTATTCAGGAAAAATT
CGCAACAGTGGGCAAGTATGTTTTCTGTTCATTCGTAGTTGTATGTGCTTCCTATTGACTCGTT
TTATAATATATTCTGATACTGTAATGTACCTTTTCATATCTCAGAGTTGTGAACATAACAATTA
ATGATCCAGAATCAGTGAAAGAATTTTCAACTGCTAAGAAGCCTGACTTCAATTTAAGTTTTAA
GGTATGATCTCAACATTATGTAGTATTTCCATTATTGCTGACATTTTAATTGGAAACTCTTTTA
ATTGTGTTTCCTGCTCCTAAGTACAACAAACAGTAACATATTTATGTCTAGATTTCAGGGGAAA
ACACTGTTATACTCCGTTTGGATGTAGATATTGGAGCACATAATTGAGAATTAGAATCAGTTTT
CCTAAATTCTATTGTTTGGTTGCACTTGGAATTGAGATTTGAAAAGAGGCTCAAATTCCCTGGA
ATTGGACTATAACTAGAAACCCTCTCCCAATACAAAGCCTCACCCCTCGGTATTGTGTGGAATT
CACACAATTCCAAACTCCAATTCAGTGATATCCAAACAATAGAATTGGAATTACATCTCATTTC
AATACCATGCCTGATTTGGTTTTCAACCCAATTCAATTCCATCATCTCCAATATTGACATCCAA
ATGGAGCATTAGATTGTGTTAGTTATATTATTTGTCAATCAAGTTAATGAAGCAGATTTTCACA
GGCTCATGTACTTGTTGAATATGAAGCAGTGGAGGCTGCTGAGAAGGCTGTGAGTTTCTCATCT
CCTATCTAATAATAATAGATTTGGTTTGTATGCCTAGAATAATCAACTTCTTATTCGATTATCT
GTTCTGGCCATATTAGGTTACTGCCCTAAGTGATGAGAGCAACTGGAGAACTGGGATGAAAGTC
AGGCTTCTGTCTAAACAAAGTGTAATGGGACCAGGAAAGTATAAAAAACCTTCTAAAGAAAATC
AAGATGCAGTTTCCAAAATGATTGATCAGAATCAACATTCAAAAGAAGACCAGCTTAAAACCTT
GGAAAAGATCTCCGGTGCTGATGCAGTGGGGATTACCAAGGACAGAGATAATTTGAAACCTGTT
TTTATCACTGAG
						
					

			
		

Sequences
Splice junction sequence	AAAAGAAGACCAGCTTAAAACCTTGGAAAAGATCTCCGGTGCTGATGCAGTGGGGATTACCAAG GACAGAGATAATTTGAAACCTGTTTTTATCACTGAGgttcctattgagatcatcgcatcattta ggagaatgaagaaactcgttcaagacctctcagtaattgaagctgcactcaggacatcatcaaa gctggtag
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	GTTCCTATTGAGATCATCGCATCATTTAGGAGAATGAAGAAACTCGTTCAAGACCTCTCAGTAA TTGAAGCTGCACTCAGGACATCATCAAAGCTGGTAGTATTTTGCAATTTCAATCTGTGCGGACA CTTTGAATTACTTACCGTCTGTTAGTAATGCACACTCGATTGCCATGTCAGGTTTTAAATTTTG GGACATAATTGTCTGCACCTTCTATTTTAGGTTGTAAGTTCAAATGGGAAACGGGTCAGGAGGT TACATCCATTGCCACACAAAGAATTGAAAGATTCAAAGGTAAATAACTGATTCCATCCTTATTG GACTGCATTATACCTAGGGTATCTGAATTGCAACAACTTAAAGAGAATACATTGTATTTGCAGA AAAGCACTGTTTTGGTCGAAAATCTACCTCCAGATTTCTCAATGGAGAGTATTCAGGAAAAATT CGCAACAGTGGGCAAGTATGTTTTCTGTTCATTCGTAGTTGTATGTGCTTCCTATTGACTCGTT TTATAATATATTCTGATACTGTAATGTACCTTTTCATATCTCAGAGTTGTGAACATAACAATTA ATGATCCAGAATCAGTGAAAGAATTTTCAACTGCTAAGAAGCCTGACTTCAATTTAAGTTTTAA GGTATGATCTCAACATTATGTAGTATTTCCATTATTGCTGACATTTTAATTGGAAACTCTTTTA ATTGTGTTTCCTGCTCCTAAGTACAACAAACAGTAACATATTTATGTCTAGATTTCAGGGGAAA ACACTGTTATACTCCGTTTGGATGTAGATATTGGAGCACATAATTGAGAATTAGAATCAGTTTT CCTAAATTCTATTGTTTGGTTGCACTTGGAATTGAGATTTGAAAAGAGGCTCAAATTCCCTGGA ATTGGACTATAACTAGAAACCCTCTCCCAATACAAAGCCTCACCCCTCGGTATTGTGTGGAATT CACACAATTCCAAACTCCAATTCAGTGATATCCAAACAATAGAATTGGAATTACATCTCATTTC AATACCATGCCTGATTTGGTTTTCAACCCAATTCAATTCCATCATCTCCAATATTGACATCCAA ATGGAGCATTAGATTGTGTTAGTTATATTATTTGTCAATCAAGTTAATGAAGCAGATTTTCACA GGCTCATGTACTTGTTGAATATGAAGCAGTGGAGGCTGCTGAGAAGGCTGTGAGTTTCTCATCT CCTATCTAATAATAATAGATTTGGTTTGTATGCCTAGAATAATCAACTTCTTATTCGATTATCT GTTCTGGCCATATTAGGTTACTGCCCTAAGTGATGAGAGCAACTGGAGAACTGGGATGAAAGTC AGGCTTCTGTCTAAACAAAGTGTAATGGGACCAGGAAAGTATAAAAAACCTTCTAAAGAAAATC AAGATGCAGTTTCCAAAATGATTGATCAGAATCAACATTCAAAAGAAGACCAGCTTAAAACCTT GGAAAAGATCTCCGGTGCTGATGCAGTGGGGATTACCAAGGACAGAGATAATTTGAAACCTGTT TTTATCACTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.116046016

Conservation Information
Conserved circRNAs	NA
PMCS	0.116046016

			
						 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 Zm00001d043418_circ_g.1

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