Plant Circular RNA Database

Detail information of Zm00001d032597_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d032597_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006809
					
						Alias
						zma_circ_0000429, GRMZM5G871419_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 231555204-231555449  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d032597						
					
						Parent gene annotation
						
							Nucleic acid binding protein  
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d032597_circ_g.1 						
					
						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
						Zm00001d032597_T013:1
Zm00001d032597_T042:2
Zm00001d032597_T015:2
Zm00001d032597_T035:1
Zm00001d032597_T001:1
Zm00001d032597_T029:1
Zm00001d032597_T023:1
Zm00001d032597_T005:1
Zm00001d032597_T030:1
Zm00001d032597_T008:1
Zm00001d032597_T021:1
Zm00001d032597_T019:1
Zm00001d032597_T036:1
Zm00001d032597_T006:1
Zm00001d032597_T003:1
Zm00001d032597_T032:1
Zm00001d032597_T007:1
Zm00001d032597_T031:2
Zm00001d032597_T016:1
Zm00001d032597_T028:1
Zm00001d032597_T027:1
Zm00001d032597_T041:1
Zm00001d032597_T025:1
Zm00001d032597_T034:2
Zm00001d032597_T022:1
Zm00001d032597_T002:1
Zm00001d032597_T004:1
Zm00001d032597_T020:1
Zm00001d032597_T040:1
Zm00001d032597_T009:1
Zm00001d032597_T010:1

General Information
CircRNA Name	Zm00001d032597_circ_g.2
ID in PlantcircBase	zma_circ_006809
Alias	zma_circ_0000429, GRMZM5G871419_C1
Organism	Zea mays
Position	chr1: 231555204-231555449 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d032597
Parent gene annotation	Nucleic acid binding protein
Parent gene strand	-
Alternative splicing	Zm00001d032597_circ_g.1
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	Zm00001d032597_T013:1 Zm00001d032597_T042:2 Zm00001d032597_T015:2 Zm00001d032597_T035:1 Zm00001d032597_T001:1 Zm00001d032597_T029:1 Zm00001d032597_T023:1 Zm00001d032597_T005:1 Zm00001d032597_T030:1 Zm00001d032597_T008:1 Zm00001d032597_T021:1 Zm00001d032597_T019:1 Zm00001d032597_T036:1 Zm00001d032597_T006:1 Zm00001d032597_T003:1 Zm00001d032597_T032:1 Zm00001d032597_T007:1 Zm00001d032597_T031:2 Zm00001d032597_T016:1 Zm00001d032597_T028:1 Zm00001d032597_T027:1 Zm00001d032597_T041:1 Zm00001d032597_T025:1 Zm00001d032597_T034:2 Zm00001d032597_T022:1 Zm00001d032597_T002:1 Zm00001d032597_T004:1 Zm00001d032597_T020:1 Zm00001d032597_T040:1 Zm00001d032597_T009:1 Zm00001d032597_T010:1

			
						 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  
						
							CAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTTATCATGGAGCAAAATGAG
TGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTATctgcacaagttcatcatcaaaagacaag
tattttggtttatctgcctttgagtaaactcgaatttcagccccagttcgtcttctcatgtcag
taatcact

						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: 246
Transcript exons: 231555204-231555449
CTGCACAAGTTCATCATCAAAAGACAAGTATTTTGGTTTATCTGCCTTTGAGTAAACTCGAATT
TCAGCCCCAGTTCGTCTTCTCATGTCAGTAATCACTTTTCCACCTTCCCCAATAATACAGCCAA
CTTTGCTTGATGGTACAACAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTT
ATCATGGAGCAAAATGAGTGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTAT
						
						Genomic sequence
						
							CTGCACAAGTTCATCATCAAAAGACAAGTATTTTGGTTTATCTGCCTTTGAGTAAACTCGAATT
TCAGCCCCAGTTCGTCTTCTCATGTCAGTAATCACTTTTCCACCTTCCCCAATAATACAGCCAA
CTTTGCTTGATGGTACAACAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTT
ATCATGGAGCAAAATGAGTGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTAT

Sequences
Splice junction sequence	CAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTTATCATGGAGCAAAATGAG TGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTATctgcacaagttcatcatcaaaagacaag tattttggtttatctgcctttgagtaaactcgaatttcagccccagttcgtcttctcatgtcag taatcact
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: 246 Transcript exons: 231555204-231555449 CTGCACAAGTTCATCATCAAAAGACAAGTATTTTGGTTTATCTGCCTTTGAGTAAACTCGAATT TCAGCCCCAGTTCGTCTTCTCATGTCAGTAATCACTTTTCCACCTTCCCCAATAATACAGCCAA CTTTGCTTGATGGTACAACAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTT ATCATGGAGCAAAATGAGTGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTAT
Genomic sequence	CTGCACAAGTTCATCATCAAAAGACAAGTATTTTGGTTTATCTGCCTTTGAGTAAACTCGAATT TCAGCCCCAGTTCGTCTTCTCATGTCAGTAATCACTTTTCCACCTTCCCCAATAATACAGCCAA CTTTGCTTGATGGTACAACAAGCCTTGTACTTGAATGGTGTTTCTCAGAGGGTGCACTAACTTT ATCATGGAGCAAAATGAGTGCCTCAATTGCTGGGGATATTGGTTCAGCTGGTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.276033404

Conservation Information
Conserved circRNAs	NA
PMCS	0.276033404

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							231555367-231555251(+)
231555290-231555255(+)
231555292-231555206(-)
231555222-231555301(-)
						
						Potential amino acid sequence
						
							MVFLRGCTNFIMEQNECLNCWGYWFSWYLHKFIIKRQVFWFICL*(+)
MSVITFPPSPIIQPTLLDGTTSLVLEWCFSEGALTLSWSKMSASIAGDIGSAGICTSSSSKDKY
FGLSAFE*(+)
MRRRTGAEIRVYSKADKPKYLSFDDELVQIPAEPISPAIEALILLHDKVSAPSEKHHSSTRLVV
PSSKVGCIIGEGGKVITDMRRRTGAEIRVYSKADKPKYLSFDDELVQIPAEPISPAIEALILLH
DKVSAPSEKHHSSTRLVVPSSKVGCIIGEGGKVITDMRRRTGAEIRVYSKADKPKYLSFDDELV
QIPAEPISPAIEALILLHDKVSAPSEKHHSSTRLVVPSSKVGCIIGEGGKVITDMRRRTGAEIR
VYSKADKPKYLSFDDELVQ(-)
MMNLCRYQLNQYPQQLRHSFCSMIKLVHPLRNTIQVQGLLYHQAKLAVLLGKVEK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	231555367-231555251(+) 231555290-231555255(+) 231555292-231555206(-) 231555222-231555301(-)
Potential amino acid sequence	MVFLRGCTNFIMEQNECLNCWGYWFSWYLHKFIIKRQVFWFICL(+) MSVITFPPSPIIQPTLLDGTTSLVLEWCFSEGALTLSWSKMSASIAGDIGSAGICTSSSSKDKY FGLSAFE(+) MRRRTGAEIRVYSKADKPKYLSFDDELVQIPAEPISPAIEALILLHDKVSAPSEKHHSSTRLVV PSSKVGCIIGEGGKVITDMRRRTGAEIRVYSKADKPKYLSFDDELVQIPAEPISPAIEALILLH DKVSAPSEKHHSSTRLVVPSSKVGCIIGEGGKVITDMRRRTGAEIRVYSKADKPKYLSFDDELV QIPAEPISPAIEALILLHDKVSAPSEKHHSSTRLVVPSSKVGCIIGEGGKVITDMRRRTGAEIR VYSKADKPKYLSFDDELVQ(-) MMNLCRYQLNQYPQQLRHSFCSMIKLVHPLRNTIQVQGLLYHQAKLAVLLGKVEK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d032597_circ_g.2

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