Plant Circular RNA Database

Detail information of Zm00001d043982_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d043982_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007844
					
						Alias
						Zm03circ00107, ZmciR149
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 215545150-215545761  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d043982						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d043982_circ_g.2 						
					
						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
						Zm00001d043982_T056:1
Zm00001d043982_T037:2
Zm00001d043982_T006:2
Zm00001d043982_T022:2
Zm00001d043982_T009:3
Zm00001d043982_T052:3
Zm00001d043982_T047:2
Zm00001d043982_T033:2
Zm00001d043982_T043:2
Zm00001d043982_T007:2
Zm00001d043982_T034:2
Zm00001d043982_T049:2
Zm00001d043982_T019:1
Zm00001d043982_T051:2
Zm00001d043982_T065:2
Zm00001d043982_T067:2
Zm00001d043982_T070:1
Zm00001d043982_T048:2
Zm00001d043982_T057:2
Zm00001d043982_T017:2
Zm00001d043982_T014:2
Zm00001d043982_T013:3
Zm00001d043982_T045:2
Zm00001d043982_T001:2
Zm00001d043982_T031:2
Zm00001d043982_T027:2
Zm00001d043982_T064:1
Zm00001d043982_T032:2
Zm00001d043982_T030:2
Zm00001d043982_T062:2
Zm00001d043982_T011:2
Zm00001d043982_T063:2
Zm00001d043982_T026:2
Zm00001d043982_T041:2
Zm00001d043982_T005:2
Zm00001d043982_T066:3
Zm00001d043982_T042:2
Zm00001d043982_T036:2
Zm00001d043982_T015:2
Zm00001d043982_T023:2
Zm00001d043982_T010:2
Zm00001d043982_T068:2
Zm00001d043982_T054:2
Zm00001d043982_T003:2
Zm00001d043982_T020:2
Zm00001d043982_T040:2
Zm00001d043982_T069:1
Zm00001d043982_T002:2

General Information
CircRNA Name	Zm00001d043982_circ_g.1
ID in PlantcircBase	zma_circ_007844
Alias	Zm03circ00107, ZmciR149
Organism	Zea mays
Position	chr3: 215545150-215545761 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d043982
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d043982_circ_g.2
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	Zm00001d043982_T056:1 Zm00001d043982_T037:2 Zm00001d043982_T006:2 Zm00001d043982_T022:2 Zm00001d043982_T009:3 Zm00001d043982_T052:3 Zm00001d043982_T047:2 Zm00001d043982_T033:2 Zm00001d043982_T043:2 Zm00001d043982_T007:2 Zm00001d043982_T034:2 Zm00001d043982_T049:2 Zm00001d043982_T019:1 Zm00001d043982_T051:2 Zm00001d043982_T065:2 Zm00001d043982_T067:2 Zm00001d043982_T070:1 Zm00001d043982_T048:2 Zm00001d043982_T057:2 Zm00001d043982_T017:2 Zm00001d043982_T014:2 Zm00001d043982_T013:3 Zm00001d043982_T045:2 Zm00001d043982_T001:2 Zm00001d043982_T031:2 Zm00001d043982_T027:2 Zm00001d043982_T064:1 Zm00001d043982_T032:2 Zm00001d043982_T030:2 Zm00001d043982_T062:2 Zm00001d043982_T011:2 Zm00001d043982_T063:2 Zm00001d043982_T026:2 Zm00001d043982_T041:2 Zm00001d043982_T005:2 Zm00001d043982_T066:3 Zm00001d043982_T042:2 Zm00001d043982_T036:2 Zm00001d043982_T015:2 Zm00001d043982_T023:2 Zm00001d043982_T010:2 Zm00001d043982_T068:2 Zm00001d043982_T054:2 Zm00001d043982_T003:2 Zm00001d043982_T020:2 Zm00001d043982_T040:2 Zm00001d043982_T069:1 Zm00001d043982_T002:2

			
						 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  
						
							ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG
AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAGgagtgctgcatctgccttgcgtagtacg
gggagaaggaggaggttcggcagctgccgtgcacacacgtgtttcatctcaagtgcatatacag
gtggctca

						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: 507
Transcript exons: 215545150-215545372,215545478-215545761
GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC
ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA
GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA
AGGTGTTAGTATCCTAGACACAACAGATATTTTCCAGCTAACAAGGGAAATCAAGGAAGAATTG
ATCTTTATATTAGCAGGCGGATGCAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGG
ATTTTAAATTTTATTTTGGATTGTTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGA
TGCCCTCGTGAGGTTCTACGCCGACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGG
CCAGCTTGAGTCGGCTCACCGGGAGCAGCGCGAGATCCGCTACAACTAAATGATAGGAG
						
						Genomic sequence
						
							GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC
ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA
GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA
AGGTGTTAGTATCCTAGACACAACAGATATTGTCAGTATTGATTCCTTCCTTCCTATTATTAAC
TATCCCTCTCTGTTTTCAAATCAAGTGATGGGATATACTTCTTCATTTTTCCTTTATGCTTTTA
CTACCCAGTTCCAGCTAACAAGGGAAATCAAGGAAGAATTGATCTTTATATTAGCAGGCGGATG
CAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGGATTTTAAATTTTATTTTGGATTG
TTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGATGCCCTCGTGAGGTTCTACGCCG
ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG
AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAG

Sequences
Splice junction sequence	ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAGgagtgctgcatctgccttgcgtagtacg gggagaaggaggaggttcggcagctgccgtgcacacacgtgtttcatctcaagtgcatatacag gtggctca
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: 507 Transcript exons: 215545150-215545372,215545478-215545761 GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA AGGTGTTAGTATCCTAGACACAACAGATATTTTCCAGCTAACAAGGGAAATCAAGGAAGAATTG ATCTTTATATTAGCAGGCGGATGCAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGG ATTTTAAATTTTATTTTGGATTGTTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGA TGCCCTCGTGAGGTTCTACGCCGACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGG CCAGCTTGAGTCGGCTCACCGGGAGCAGCGCGAGATCCGCTACAACTAAATGATAGGAG
Genomic sequence	GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA AGGTGTTAGTATCCTAGACACAACAGATATTGTCAGTATTGATTCCTTCCTTCCTATTATTAAC TATCCCTCTCTGTTTTCAAATCAAGTGATGGGATATACTTCTTCATTTTTCCTTTATGCTTTTA CTACCCAGTTCCAGCTAACAAGGGAAATCAAGGAAGAATTGATCTTTATATTAGCAGGCGGATG CAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGGATTTTAAATTTTATTTTGGATTG TTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGATGCCCTCGTGAGGTTCTACGCCG ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.191338247

Conservation Information
Conserved circRNAs	NA
PMCS	0.191338247

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							215545753-215545355(+)
215545226-215545656(-)
215545162-215545670(-)
						
						Potential amino acid sequence
						
							MIGGVLHLPCVVRGEGGGSAAAVHTRVSSQVHIQVAQDHLLLPSLQARAQVNFIFITHMTFSLI
LWIKVLVS*(+)
MKHVCARQLPNLLLLPVLRKADAALLLSFSCSGSRAAPGEPTQAGHPHHGLCESLLKASA*(-)
MQHSSYHLVVADLALLPVSRLKLAILTMASVNPS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	215545753-215545355(+) 215545226-215545656(-) 215545162-215545670(-)
Potential amino acid sequence	MIGGVLHLPCVVRGEGGGSAAAVHTRVSSQVHIQVAQDHLLLPSLQARAQVNFIFITHMTFSLI LWIKVLVS(+) MKHVCARQLPNLLLLPVLRKADAALLLSFSCSGSRAAPGEPTQAGHPHHGLCESLLKASA(-) MQHSSYHLVVADLALLPVSRLKLAILTMASVNPS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d043982_circ_g.1

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