Plant Circular RNA Database

Detail information of Zm00001d048546_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d048546_circ_g.2
					

						ID in PlantcircBase
						zma_circ_010121
					

						Alias
						Zm09circ00083
					

						Organism
						
							Zea mays						
					

						Position
						
							chr9: 158429573-158430485  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI2
					

						Parent gene
						
							Zm00001d048546						
					

						Parent gene annotation
						
							transcription regulators
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							NA						
					

						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  
						
							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
						Zm00001d048546_T006:3
Zm00001d048546_T117:4
Zm00001d048546_T121:2
Zm00001d048546_T077:4
Zm00001d048546_T052:4
Zm00001d048546_T076:4
Zm00001d048546_T072:4
Zm00001d048546_T038:4
Zm00001d048546_T083:4
Zm00001d048546_T073:4
Zm00001d048546_T060:4
Zm00001d048546_T024:4
Zm00001d048546_T008:3
Zm00001d048546_T041:4
Zm00001d048546_T078:4
Zm00001d048546_T021:4
Zm00001d048546_T081:4
Zm00001d048546_T062:4
Zm00001d048546_T054:4
Zm00001d048546_T067:4
Zm00001d048546_T005:3
Zm00001d048546_T074:4
Zm00001d048546_T085:4
Zm00001d048546_T075:4
Zm00001d048546_T114:4
Zm00001d048546_T009:4
Zm00001d048546_T069:4
Zm00001d048546_T016:4
Zm00001d048546_T014:4
Zm00001d048546_T019:4
Zm00001d048546_T058:4
Zm00001d048546_T079:4
Zm00001d048546_T071:4
Zm00001d048546_T035:4
Zm00001d048546_T039:4
Zm00001d048546_T043:4
Zm00001d048546_T111:4
Zm00001d048546_T084:4
Zm00001d048546_T112:4
Zm00001d048546_T068:4
Zm00001d048546_T047:4
Zm00001d048546_T011:4
Zm00001d048546_T001:4
Zm00001d048546_T007:3
Zm00001d048546_T004:4
Zm00001d048546_T028:4
Zm00001d048546_T070:4
Zm00001d048546_T046:4
Zm00001d048546_T063:4
Zm00001d048546_T113:4
Zm00001d048546_T055:4
Zm00001d048546_T066:4
Zm00001d048546_T120:4
Zm00001d048546_T013:4
Zm00001d048546_T030:4
Zm00001d048546_T049:4
Zm00001d048546_T115:4
Zm00001d048546_T026:4
Zm00001d048546_T087:4
Zm00001d048546_T032:4

					

			
		

General Information
CircRNA Name	Zm00001d048546_circ_g.2
ID in PlantcircBase	zma_circ_010121
Alias	Zm09circ00083
Organism	Zea mays
Position	chr9: 158429573-158430485 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d048546
Parent gene annotation	transcription regulators
Parent gene strand	-
Alternative splicing	NA
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	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	Zm00001d048546_T006:3 Zm00001d048546_T117:4 Zm00001d048546_T121:2 Zm00001d048546_T077:4 Zm00001d048546_T052:4 Zm00001d048546_T076:4 Zm00001d048546_T072:4 Zm00001d048546_T038:4 Zm00001d048546_T083:4 Zm00001d048546_T073:4 Zm00001d048546_T060:4 Zm00001d048546_T024:4 Zm00001d048546_T008:3 Zm00001d048546_T041:4 Zm00001d048546_T078:4 Zm00001d048546_T021:4 Zm00001d048546_T081:4 Zm00001d048546_T062:4 Zm00001d048546_T054:4 Zm00001d048546_T067:4 Zm00001d048546_T005:3 Zm00001d048546_T074:4 Zm00001d048546_T085:4 Zm00001d048546_T075:4 Zm00001d048546_T114:4 Zm00001d048546_T009:4 Zm00001d048546_T069:4 Zm00001d048546_T016:4 Zm00001d048546_T014:4 Zm00001d048546_T019:4 Zm00001d048546_T058:4 Zm00001d048546_T079:4 Zm00001d048546_T071:4 Zm00001d048546_T035:4 Zm00001d048546_T039:4 Zm00001d048546_T043:4 Zm00001d048546_T111:4 Zm00001d048546_T084:4 Zm00001d048546_T112:4 Zm00001d048546_T068:4 Zm00001d048546_T047:4 Zm00001d048546_T011:4 Zm00001d048546_T001:4 Zm00001d048546_T007:3 Zm00001d048546_T004:4 Zm00001d048546_T028:4 Zm00001d048546_T070:4 Zm00001d048546_T046:4 Zm00001d048546_T063:4 Zm00001d048546_T113:4 Zm00001d048546_T055:4 Zm00001d048546_T066:4 Zm00001d048546_T120:4 Zm00001d048546_T013:4 Zm00001d048546_T030:4 Zm00001d048546_T049:4 Zm00001d048546_T115:4 Zm00001d048546_T026:4 Zm00001d048546_T087:4 Zm00001d048546_T032:4

			
						 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  
						
							CATAAGCAAAAGTTTCATGATATGTAGGACCACCGCCCTCTCTTTGTTTCCTTTGTTGTGAAAA
TGACTGGGCTATTTCTGCATCAATCAATTCAACAGCcttctgagcaacctgtttgtatctctcc
aaagcatccccagtattcaaaggttcaggtaaaatagatcccagacgatcagcagatgttgatg
gagggggc

									
								

					

						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: 630
Transcript exons: 158429573-158429689,158429789-158429888,158429978-158430
207,158430303-158430485
CTTCTGAGCAACCTGTTTGTATCTCTCCAAAGCATCCCCAGTATTCAAAGGTTCAGGTAAAATA
GATCCCAGACGATCAGCAGATGTTGATGGAGGGGGCACCATAGCACTTATTTCAGGAAGGTCAT
TAGATGCCAATGGAGAAAATGTAGATGCAGCACCAACTGTTCCACTAAATAGGACAGGAGACTC
GCTTGGTCCAACTTGGGCAGGATTACTCAAAAATTGTGCGATAACAGTATCCTCAGACCCCAGT
TCTGTCGGCTGAGTTATACATGTTAGTCCACCCATATGGACAGTTGACAAATTACTGGAGGATG
CTGATGTCGAATTTGGACTGTAAGCTCGAAGTACACCAAGAGTACTCGAGACAGTAGCAACACC
AGACAGACCAGAACCTGTAGCTCCCACATTTTGATTGTGGGGATGCCATACATGAACAAAGTCC
TCGTACACTCTCTGTTGGGAAGCAGATAAATGCCCAGGCTTAGAACTTAATGCTTCAGGTACAC
GAGCAAACGGCCCTTGAGCATAAGCAAAAGTTTCATGATATGTAGGACCACCGCCCTCTCTTTG
TTTCCTTTGTTGTGAAAATGACTGGGCTATTTCTGCATCAATCAATTCAACAGC
						
					

						Genomic sequence
						
							CTTCTGAGCAACCTGTTTGTATCTCTCCAAAGCATCCCCAGTATTCAAAGGTTCAGGTAAAATA
GATCCCAGACGATCAGCAGATGTTGATGGAGGGGGCACCATAGCACTTATTTCCTGGCAGAAGG
TTAGAAAGGTCTTAGAAGATAATATATGGCAACATAGTCATGAGGTCAACAGGAAAAATACATT
GGTTGAGACAGTCGTTACACTAACAGGAAGGTCATTAGATGCCAATGGAGAAAATGTAGATGCA
GCACCAACTGTTCCACTAAATAGGACAGGAGACTCGCTTGGTCCAACTTGGGCAGGATTACTAT
GGAAGGCGCAAGAATATAATCAGTCCAAAACAAGCAACAGAAAAAAGAATGACACATCTGTAAA
AGATAGTCAAAACATGTGTACCTCAAAAATTGTGCGATAACAGTATCCTCAGACCCCAGTTCTG
TCGGCTGAGTTATACATGTTAGTCCACCCATATGGACAGTTGACAAATTACTGGAGGATGCTGA
TGTCGAATTTGGACTGTAAGCTCGAAGTACACCAAGAGTACTCGAGACAGTAGCAACACCAGAC
AGACCAGAACCTGTAGCTCCCACATTTTGATTGTGGGGATGCCATACATGAACAAAGTCCTGAA
AAGAACAGAATTAGATGCAGACAGTCATGTATCCAATGCAGAAACAATATGCAAAATTTTAATT
CAGAAGTTTATGTTCTGCTGCTGTACCTCGTACACTCTCTGTTGGGAAGCAGATAAATGCCCAG
GCTTAGAACTTAATGCTTCAGGTACACGAGCAAACGGCCCTTGAGCATAAGCAAAAGTTTCATG
ATATGTAGGACCACCGCCCTCTCTTTGTTTCCTTTGTTGTGAAAATGACTGGGCTATTTCTGCA
TCAATCAATTCAACAGC
						
					

			
		

Sequences
Splice junction sequence	CATAAGCAAAAGTTTCATGATATGTAGGACCACCGCCCTCTCTTTGTTTCCTTTGTTGTGAAAA TGACTGGGCTATTTCTGCATCAATCAATTCAACAGCcttctgagcaacctgtttgtatctctcc aaagcatccccagtattcaaaggttcaggtaaaatagatcccagacgatcagcagatgttgatg gagggggc
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: 630 Transcript exons: 158429573-158429689,158429789-158429888,158429978-158430 207,158430303-158430485 CTTCTGAGCAACCTGTTTGTATCTCTCCAAAGCATCCCCAGTATTCAAAGGTTCAGGTAAAATA GATCCCAGACGATCAGCAGATGTTGATGGAGGGGGCACCATAGCACTTATTTCAGGAAGGTCAT TAGATGCCAATGGAGAAAATGTAGATGCAGCACCAACTGTTCCACTAAATAGGACAGGAGACTC GCTTGGTCCAACTTGGGCAGGATTACTCAAAAATTGTGCGATAACAGTATCCTCAGACCCCAGT TCTGTCGGCTGAGTTATACATGTTAGTCCACCCATATGGACAGTTGACAAATTACTGGAGGATG CTGATGTCGAATTTGGACTGTAAGCTCGAAGTACACCAAGAGTACTCGAGACAGTAGCAACACC AGACAGACCAGAACCTGTAGCTCCCACATTTTGATTGTGGGGATGCCATACATGAACAAAGTCC TCGTACACTCTCTGTTGGGAAGCAGATAAATGCCCAGGCTTAGAACTTAATGCTTCAGGTACAC GAGCAAACGGCCCTTGAGCATAAGCAAAAGTTTCATGATATGTAGGACCACCGCCCTCTCTTTG TTTCCTTTGTTGTGAAAATGACTGGGCTATTTCTGCATCAATCAATTCAACAGC
Genomic sequence	CTTCTGAGCAACCTGTTTGTATCTCTCCAAAGCATCCCCAGTATTCAAAGGTTCAGGTAAAATA GATCCCAGACGATCAGCAGATGTTGATGGAGGGGGCACCATAGCACTTATTTCCTGGCAGAAGG TTAGAAAGGTCTTAGAAGATAATATATGGCAACATAGTCATGAGGTCAACAGGAAAAATACATT GGTTGAGACAGTCGTTACACTAACAGGAAGGTCATTAGATGCCAATGGAGAAAATGTAGATGCA GCACCAACTGTTCCACTAAATAGGACAGGAGACTCGCTTGGTCCAACTTGGGCAGGATTACTAT GGAAGGCGCAAGAATATAATCAGTCCAAAACAAGCAACAGAAAAAAGAATGACACATCTGTAAA AGATAGTCAAAACATGTGTACCTCAAAAATTGTGCGATAACAGTATCCTCAGACCCCAGTTCTG TCGGCTGAGTTATACATGTTAGTCCACCCATATGGACAGTTGACAAATTACTGGAGGATGCTGA TGTCGAATTTGGACTGTAAGCTCGAAGTACACCAAGAGTACTCGAGACAGTAGCAACACCAGAC AGACCAGAACCTGTAGCTCCCACATTTTGATTGTGGGGATGCCATACATGAACAAAGTCCTGAA AAGAACAGAATTAGATGCAGACAGTCATGTATCCAATGCAGAAACAATATGCAAAATTTTAATT CAGAAGTTTATGTTCTGCTGCTGTACCTCGTACACTCTCTGTTGGGAAGCAGATAAATGCCCAG GCTTAGAACTTAATGCTTCAGGTACACGAGCAAACGGCCCTTGAGCATAAGCAAAAGTTTCATG ATATGTAGGACCACCGCCCTCTCTTTGTTTCCTTTGTTGTGAAAATGACTGGGCTATTTCTGCA TCAATCAATTCAACAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.139903564

Conservation Information
Conserved circRNAs	NA
PMCS	0.139903564

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							158430450-158429634(+)
158430053-158429575(-)
						
						Potential amino acid sequence
						
							MTGLFLHQSIQQPSEQPVCISPKHPQYSKVQVK*(+)
MGGLTCITQPTELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMV
PPPSTSADRLGSILPEPLNTGDALERYKQVAQKAVELIDAEIAQSFSQQRKQREGGGPTYHETF
AYAQGPFARVPEALSSKPGHLSASQQRVYEDFVHVWHPHNQNVGATGSGLSGVATVSSTLGVLR
AYSPNSTSASSSNLSTVHMGGLTCITQPTELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAA
STFSPLASNDLPEISAMVPPPSTSADRLGSILPEPLNTGDALERYKQVAQKAVELIDAEIAQSF
SQQRKQREGGGPTYHETFAYAQGPFARVPEALSSKPGHLSASQQRVYEDFVHVWHPHNQNVGAT
GSGLSGVATVSSTLGVLRAYSPNSTSASSSNLSTVHMGGLTCITQPTELGSEDTVIAQFLSNPA
QVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMVPPPSTSADRLGSILPEPLNTGDALERYK
QVAQKAVELIDAEIAQSFSQQRKQREGGGPTYHETFAYAQGPFARVPEALSSKPGHLSASQQRV
YEDFVHVWHPHNQNVGATGSGLSGVATVSSTLGVLRAYSPNSTSASSSNLSTVHMGGLTCITQP
TELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMVPPPSTSADRL
GSILPEPLNTGDALERYKQVAQK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	158430450-158429634(+) 158430053-158429575(-)
Potential amino acid sequence	MTGLFLHQSIQQPSEQPVCISPKHPQYSKVQVK*(+) MGGLTCITQPTELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMV PPPSTSADRLGSILPEPLNTGDALERYKQVAQKAVELIDAEIAQSFSQQRKQREGGGPTYHETF AYAQGPFARVPEALSSKPGHLSASQQRVYEDFVHVWHPHNQNVGATGSGLSGVATVSSTLGVLR AYSPNSTSASSSNLSTVHMGGLTCITQPTELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAA STFSPLASNDLPEISAMVPPPSTSADRLGSILPEPLNTGDALERYKQVAQKAVELIDAEIAQSF SQQRKQREGGGPTYHETFAYAQGPFARVPEALSSKPGHLSASQQRVYEDFVHVWHPHNQNVGAT GSGLSGVATVSSTLGVLRAYSPNSTSASSSNLSTVHMGGLTCITQPTELGSEDTVIAQFLSNPA QVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMVPPPSTSADRLGSILPEPLNTGDALERYK QVAQKAVELIDAEIAQSFSQQRKQREGGGPTYHETFAYAQGPFARVPEALSSKPGHLSASQQRV YEDFVHVWHPHNQNVGATGSGLSGVATVSSTLGVLRAYSPNSTSASSSNLSTVHMGGLTCITQP TELGSEDTVIAQFLSNPAQVGPSESPVLFSGTVGAASTFSPLASNDLPEISAMVPPPSTSADRL GSILPEPLNTGDALERYKQVAQK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d048546_circ_g.2

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