Plant Circular RNA Database

Detail information of Zm00001d035346_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d035346_circ_g.2
					

						ID in PlantcircBase
						zma_circ_008896
					

						Alias
						zma_circ_0002449
					

						Organism
						
							Zea mays						
					

						Position
						
							chr6: 22741039-22741211  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d035346						
					

						Parent gene annotation
						
							Probable sucrose-phosphatase 2
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							NA						
					

						Support reads
						NA
					

						Tissues
						leaf, root
					

						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  
						
							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
						Zm00001d035346_T170:1
Zm00001d035346_T052:1
Zm00001d035346_T132:1
Zm00001d035346_T175:1
Zm00001d035346_T115:1
Zm00001d035346_T149:1
Zm00001d035346_T105:1
Zm00001d035346_T134:1
Zm00001d035346_T074:1
Zm00001d035346_T159:1
Zm00001d035346_T185:1
Zm00001d035346_T166:1
Zm00001d035346_T083:1
Zm00001d035346_T140:1
Zm00001d035346_T021:1
Zm00001d035346_T145:1
Zm00001d035346_T179:1
Zm00001d035346_T019:1
Zm00001d035346_T137:1
Zm00001d035346_T013:1
Zm00001d035346_T163:1
Zm00001d035346_T165:1
Zm00001d035346_T042:1
Zm00001d035346_T176:1
Zm00001d035346_T101:1
Zm00001d035346_T047:1
Zm00001d035346_T073:1
Zm00001d035346_T131:1
Zm00001d035346_T150:1
Zm00001d035346_T051:1
Zm00001d035346_T182:1
Zm00001d035346_T076:1
Zm00001d035346_T144:1
Zm00001d035346_T010:1
Zm00001d035346_T093:1
Zm00001d035346_T173:1
Zm00001d035346_T104:1
Zm00001d035346_T103:1
Zm00001d035346_T007:1
Zm00001d035346_T053:1
Zm00001d035346_T111:1
Zm00001d035346_T012:1
Zm00001d035346_T181:1
Zm00001d035346_T094:1
Zm00001d035346_T020:1
Zm00001d035346_T079:1
Zm00001d035346_T157:1
Zm00001d035346_T177:1
Zm00001d035346_T092:1
Zm00001d035346_T147:1
Zm00001d035346_T004:1
Zm00001d035346_T109:1
Zm00001d035346_T114:1
Zm00001d035346_T146:1
Zm00001d035346_T090:1
Zm00001d035346_T011:1
Zm00001d035346_T091:1
Zm00001d035346_T141:1
Zm00001d035346_T039:1
Zm00001d035346_T128:1
Zm00001d035346_T108:1
Zm00001d035346_T028:1
Zm00001d035346_T110:1
Zm00001d035346_T216:1
Zm00001d035346_T056:1
Zm00001d035346_T044:1
Zm00001d035346_T088:1
Zm00001d035346_T023:1
Zm00001d035346_T121:1
Zm00001d035346_T138:1
Zm00001d035346_T130:1
Zm00001d035346_T006:1
Zm00001d035346_T129:1
Zm00001d035346_T058:1
Zm00001d035346_T081:1
Zm00001d035346_T078:1
Zm00001d035346_T005:1
Zm00001d035346_T116:1
Zm00001d035346_T113:1
Zm00001d035346_T015:1
Zm00001d035346_T184:1
Zm00001d035346_T008:1
Zm00001d035346_T106:1
Zm00001d035346_T119:1
Zm00001d035346_T033:1
Zm00001d035346_T050:1
Zm00001d035346_T038:1
Zm00001d035346_T030:1
Zm00001d035346_T040:1
Zm00001d035346_T009:1
Zm00001d035346_T107:1
Zm00001d035346_T161:1
Zm00001d035346_T085:1
Zm00001d035346_T096:1
Zm00001d035346_T086:1
Zm00001d035346_T095:1
Zm00001d035346_T059:1
Zm00001d035346_T024:1
Zm00001d035346_T049:1
Zm00001d035346_T180:1
Zm00001d035346_T087:1
Zm00001d035346_T154:1
Zm00001d035346_T167:1
Zm00001d035346_T045:1
Zm00001d035346_T135:1
Zm00001d035346_T178:1
Zm00001d035346_T031:1
Zm00001d035346_T003:1
Zm00001d035346_T148:1
Zm00001d035346_T080:1
Zm00001d035346_T075:1
Zm00001d035346_T037:1
Zm00001d035346_T002:1
Zm00001d035346_T022:1
Zm00001d035346_T043:1
Zm00001d035346_T164:1
Zm00001d035346_T048:1
Zm00001d035346_T082:1
Zm00001d035346_T136:1
Zm00001d035346_T112:1
Zm00001d035346_T061:1
Zm00001d035346_T139:1
Zm00001d035346_T153:1
Zm00001d035346_T018:1
Zm00001d035346_T186:1
Zm00001d035346_T102:1
Zm00001d035346_T151:1
Zm00001d035346_T208:1
Zm00001d035346_T084:1
Zm00001d035346_T032:1
Zm00001d035346_T089:1
Zm00001d035346_T122:1
Zm00001d035346_T152:1
Zm00001d035346_T183:1
Zm00001d035346_T120:1
Zm00001d035346_T133:1
Zm00001d035346_T077:1

					

			
		

General Information
CircRNA Name	Zm00001d035346_circ_g.2
ID in PlantcircBase	zma_circ_008896
Alias	zma_circ_0002449
Organism	Zea mays
Position	chr6: 22741039-22741211 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d035346
Parent gene annotation	Probable sucrose-phosphatase 2
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
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	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	Zm00001d035346_T170:1 Zm00001d035346_T052:1 Zm00001d035346_T132:1 Zm00001d035346_T175:1 Zm00001d035346_T115:1 Zm00001d035346_T149:1 Zm00001d035346_T105:1 Zm00001d035346_T134:1 Zm00001d035346_T074:1 Zm00001d035346_T159:1 Zm00001d035346_T185:1 Zm00001d035346_T166:1 Zm00001d035346_T083:1 Zm00001d035346_T140:1 Zm00001d035346_T021:1 Zm00001d035346_T145:1 Zm00001d035346_T179:1 Zm00001d035346_T019:1 Zm00001d035346_T137:1 Zm00001d035346_T013:1 Zm00001d035346_T163:1 Zm00001d035346_T165:1 Zm00001d035346_T042:1 Zm00001d035346_T176:1 Zm00001d035346_T101:1 Zm00001d035346_T047:1 Zm00001d035346_T073:1 Zm00001d035346_T131:1 Zm00001d035346_T150:1 Zm00001d035346_T051:1 Zm00001d035346_T182:1 Zm00001d035346_T076:1 Zm00001d035346_T144:1 Zm00001d035346_T010:1 Zm00001d035346_T093:1 Zm00001d035346_T173:1 Zm00001d035346_T104:1 Zm00001d035346_T103:1 Zm00001d035346_T007:1 Zm00001d035346_T053:1 Zm00001d035346_T111:1 Zm00001d035346_T012:1 Zm00001d035346_T181:1 Zm00001d035346_T094:1 Zm00001d035346_T020:1 Zm00001d035346_T079:1 Zm00001d035346_T157:1 Zm00001d035346_T177:1 Zm00001d035346_T092:1 Zm00001d035346_T147:1 Zm00001d035346_T004:1 Zm00001d035346_T109:1 Zm00001d035346_T114:1 Zm00001d035346_T146:1 Zm00001d035346_T090:1 Zm00001d035346_T011:1 Zm00001d035346_T091:1 Zm00001d035346_T141:1 Zm00001d035346_T039:1 Zm00001d035346_T128:1 Zm00001d035346_T108:1 Zm00001d035346_T028:1 Zm00001d035346_T110:1 Zm00001d035346_T216:1 Zm00001d035346_T056:1 Zm00001d035346_T044:1 Zm00001d035346_T088:1 Zm00001d035346_T023:1 Zm00001d035346_T121:1 Zm00001d035346_T138:1 Zm00001d035346_T130:1 Zm00001d035346_T006:1 Zm00001d035346_T129:1 Zm00001d035346_T058:1 Zm00001d035346_T081:1 Zm00001d035346_T078:1 Zm00001d035346_T005:1 Zm00001d035346_T116:1 Zm00001d035346_T113:1 Zm00001d035346_T015:1 Zm00001d035346_T184:1 Zm00001d035346_T008:1 Zm00001d035346_T106:1 Zm00001d035346_T119:1 Zm00001d035346_T033:1 Zm00001d035346_T050:1 Zm00001d035346_T038:1 Zm00001d035346_T030:1 Zm00001d035346_T040:1 Zm00001d035346_T009:1 Zm00001d035346_T107:1 Zm00001d035346_T161:1 Zm00001d035346_T085:1 Zm00001d035346_T096:1 Zm00001d035346_T086:1 Zm00001d035346_T095:1 Zm00001d035346_T059:1 Zm00001d035346_T024:1 Zm00001d035346_T049:1 Zm00001d035346_T180:1 Zm00001d035346_T087:1 Zm00001d035346_T154:1 Zm00001d035346_T167:1 Zm00001d035346_T045:1 Zm00001d035346_T135:1 Zm00001d035346_T178:1 Zm00001d035346_T031:1 Zm00001d035346_T003:1 Zm00001d035346_T148:1 Zm00001d035346_T080:1 Zm00001d035346_T075:1 Zm00001d035346_T037:1 Zm00001d035346_T002:1 Zm00001d035346_T022:1 Zm00001d035346_T043:1 Zm00001d035346_T164:1 Zm00001d035346_T048:1 Zm00001d035346_T082:1 Zm00001d035346_T136:1 Zm00001d035346_T112:1 Zm00001d035346_T061:1 Zm00001d035346_T139:1 Zm00001d035346_T153:1 Zm00001d035346_T018:1 Zm00001d035346_T186:1 Zm00001d035346_T102:1 Zm00001d035346_T151:1 Zm00001d035346_T208:1 Zm00001d035346_T084:1 Zm00001d035346_T032:1 Zm00001d035346_T089:1 Zm00001d035346_T122:1 Zm00001d035346_T152:1 Zm00001d035346_T183:1 Zm00001d035346_T120:1 Zm00001d035346_T133:1 Zm00001d035346_T077:1

			
						 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  
						
							TCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGCCAAATCTGGCACTTTCCTGGCAA
TCCTTATAGAGCACAAAGTAGCcttcctcaggtactctagagcatctttgcttgctttgcatag
ttctgtgcatagctgaattgcagatataaggacccatggtgtttc

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 173
Transcript exons: 22741039-22741211
CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTGCATAGTTCTGTGCATAGCTGAATTGCA
GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC
CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC
Transcript length: 173
Transcript exons: 22741039-22741211
CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTTCATAGTTCTGTGCATAGCTGAATTGCA
GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC
CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC
Transcript length: 173
Transcript exons: 22741039-22741211
CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTTGATAGTTCTGTGCATAGCTGAATTGCA
GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC
CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC
						
						Genomic sequence
						
							CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTGCATAGTTCTGTGCATAGCTGAATTGCA
GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC
CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC

Sequences
Splice junction sequence	TCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGCCAAATCTGGCACTTTCCTGGCAA TCCTTATAGAGCACAAAGTAGCcttcctcaggtactctagagcatctttgcttgctttgcatag ttctgtgcatagctgaattgcagatataaggacccatggtgtttc
Assembled circRNA sequence	Yes 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	Transcript length: 173 Transcript exons: 22741039-22741211 CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTGCATAGTTCTGTGCATAGCTGAATTGCA GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC Transcript length: 173 Transcript exons: 22741039-22741211 CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTTCATAGTTCTGTGCATAGCTGAATTGCA GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC Transcript length: 173 Transcript exons: 22741039-22741211 CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTTGATAGTTCTGTGCATAGCTGAATTGCA GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC
Genomic sequence	CTTCCTCAGGTACTCTAGAGCATCTTTGCTTGCTTTGCATAGTTCTGTGCATAGCTGAATTGCA GATATAAGGACCCATGGTGTTTCTCCTTTAACAATGATGCATCCAGGCCCATGAAGTTCTCTGC CAAATCTGGCACTTTCCTGGCAATCCTTATAGAGCACAAAGTAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.833593515

Conservation Information
Conserved circRNAs	NA
PMCS	0.833593515

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22741154-22741093(+)
22741119-22741055(-)
						
						Potential amino acid sequence
						
							MKFSAKSGTFLAILIEHKVAFLRYSRASLLALHSSVHS*(+)
MGPYICNSAMHRTMQSKQRCSRVPEEGYFVLYKDCQESARFGRELHGPGCIIVKGETPWVLISA
IQLCTELCKASKDALEYLRKATLCSIRIARKVPDLAENFMGLDASLLKEKHHGSLYLQFSYAQN
YAKQAKML*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22741154-22741093(+) 22741119-22741055(-)
Potential amino acid sequence	MKFSAKSGTFLAILIEHKVAFLRYSRASLLALHSSVHS(+) MGPYICNSAMHRTMQSKQRCSRVPEEGYFVLYKDCQESARFGRELHGPGCIIVKGETPWVLISA IQLCTELCKASKDALEYLRKATLCSIRIARKVPDLAENFMGLDASLLKEKHHGSLYLQFSYAQN YAKQAKML(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d035346_circ_g.2

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