Plant Circular RNA Database

Detail information of Zm00001d032704_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d032704_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006817
					
						Alias
						zma_circ_0000437, GRMZM2G107571_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 235337381-235338103  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d032704						
					
						Parent gene annotation
						
							Exportin-4
							
						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
						Zm00001d032704_T001:3
Zm00001d032704_T047:4
Zm00001d032704_T031:3
Zm00001d032704_T029:4
Zm00001d032704_T032:4
Zm00001d032704_T006:4
Zm00001d032704_T024:4
Zm00001d032704_T036:4
Zm00001d032704_T067:4
Zm00001d032704_T003:4
Zm00001d032704_T069:4
Zm00001d032704_T053:4
Zm00001d032704_T004:4
Zm00001d032704_T037:4
Zm00001d032704_T059:3
Zm00001d032704_T002:4
Zm00001d032704_T005:3
Zm00001d032704_T057:2
Zm00001d032704_T050:4
Zm00001d032704_T025:4
Zm00001d032704_T064:4
Zm00001d032704_T063:3
Zm00001d032704_T011:3
Zm00001d032704_T012:3
Zm00001d032704_T027:4
Zm00001d032704_T043:3
Zm00001d032704_T026:2
Zm00001d032704_T022:4
Zm00001d032704_T045:3
Zm00001d032704_T075:4
Zm00001d032704_T061:3
Zm00001d032704_T019:4
Zm00001d032704_T007:4
Zm00001d032704_T040:4
Zm00001d032704_T073:4
Zm00001d032704_T074:4
Zm00001d032704_T071:4
Zm00001d032704_T054:4
Zm00001d032704_T009:4
Zm00001d032704_T076:4
Zm00001d032704_T033:4
Zm00001d032704_T052:4
Zm00001d032704_T008:4
Zm00001d032704_T010:3
Zm00001d032704_T078:4

General Information
CircRNA Name	Zm00001d032704_circ_g.2
ID in PlantcircBase	zma_circ_006817
Alias	zma_circ_0000437, GRMZM2G107571_C1
Organism	Zea mays
Position	chr1: 235337381-235338103 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d032704
Parent gene annotation	Exportin-4
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	Zm00001d032704_T001:3 Zm00001d032704_T047:4 Zm00001d032704_T031:3 Zm00001d032704_T029:4 Zm00001d032704_T032:4 Zm00001d032704_T006:4 Zm00001d032704_T024:4 Zm00001d032704_T036:4 Zm00001d032704_T067:4 Zm00001d032704_T003:4 Zm00001d032704_T069:4 Zm00001d032704_T053:4 Zm00001d032704_T004:4 Zm00001d032704_T037:4 Zm00001d032704_T059:3 Zm00001d032704_T002:4 Zm00001d032704_T005:3 Zm00001d032704_T057:2 Zm00001d032704_T050:4 Zm00001d032704_T025:4 Zm00001d032704_T064:4 Zm00001d032704_T063:3 Zm00001d032704_T011:3 Zm00001d032704_T012:3 Zm00001d032704_T027:4 Zm00001d032704_T043:3 Zm00001d032704_T026:2 Zm00001d032704_T022:4 Zm00001d032704_T045:3 Zm00001d032704_T075:4 Zm00001d032704_T061:3 Zm00001d032704_T019:4 Zm00001d032704_T007:4 Zm00001d032704_T040:4 Zm00001d032704_T073:4 Zm00001d032704_T074:4 Zm00001d032704_T071:4 Zm00001d032704_T054:4 Zm00001d032704_T009:4 Zm00001d032704_T076:4 Zm00001d032704_T033:4 Zm00001d032704_T052:4 Zm00001d032704_T008:4 Zm00001d032704_T010:3 Zm00001d032704_T078:4

			
						 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  
						
							GATTTATACCCTTCAAGTGTGACTCCACAATCATCTTAAACAAACTTGAAGATGCAAGTGCTCC
ATCGGTTGAGATTGGATTTTTATCGGCATCTACGTCaagtagtgtttctccttcgccagagtca
gttaggacatgactagtaaccaacaacagccaatagagctcttccagtgtttgagtaggatcac
tttcacca

						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: 511
Transcript exons: 235337381-235337737,235337824-235337886,235338013-235338
103
AAGTAGTGTTTCTCCTTCGCCAGAGTCAGTTAGGACATGACTAGTAACCAACAACAGCCAATAG
AGCTCTTCCAGTGTTTGAGTAGGATCACTTTCACCATTTCTCTGCTTAGAAAAATCTATTAAAT
GTTAACTGTAAAAATACACCACCACAAAACAGTAGAATGTACAAGGCTACTGAAGCAGTATAGC
TTAGTAGCTTCTCCTTTCTTAATAACTCAGGTAAATTACAAGATAACAAGAAGACCTGATTTAG
CCGGGCAAATCGTTCTGAAAACAACTGTGCAAGAAATGGAATAGTAGTATTTGCAGAAGCCCGT
GCTATTAGAGCATACAAGGCTAACTGTTCATCACGTTTTGAAACAGAAACATGAAAATATTCAG
TATCATCAGTATCCTCGAACGCAGAATCAGCAGCAGCCTTCAAGTGTGACTCCACAATCATCTT
AAACAAACTTGAAGATGCAAGTGCTCCATCGGTTGAGATTGGATTTTTATCGGCATCTACGTC
						
						Genomic sequence
						
							AAGTAGTGTTTCTCCTTCGCCAGAGTCAGTTAGGACATGACTAGTAACCAACAACAGCCAATAG
AGCTCTTCCAGTGTTTGAGTAGGATCACTTTCACCATTTCTCTGCTTAGAAAAATCTATTAAAT
GTTAACTGTAAAAATACACCACCACAAAACAGTAGAATGTACAAGGCTACTGAAGCAGTATAGC
TTAGTAGCTTCTCCTTTCTTAATAACTCAGGTAAATTACAAGATAACAAGAAGACCTGATTTAG
CCGGGCAAATCGTTCTGAAAACAACTGTGCAAGAAATGGAATAGTAGTATTTGCAGAAGCCCGT
GCTATTAGAGCATACAAGGCTAACTGTTCATCACGTTCTGGAAGAAGTACTTCATTATTATTTG
ATGAATCCAAAAGAGGTAGAGATACTAGAACAGATGAACTGTCGGGAATTTAAGCATACTTGAA
ACAGAAACATGAAAATATTCAGTATCATCAGTATCCTCGAACGCAGAATCAGCAGCAGCTATGT
CAAAGAAAATAAGAGTAATCAGTATGCAGAATGTAAACAACATAGAAAATCTTTTACACCATCT
GTAACATTCTTCAAGACTGAGGTTACATTTAAATGGGAATATAAAGAGATTTATACCCTTCAAG
TGTGACTCCACAATCATCTTAAACAAACTTGAAGATGCAAGTGCTCCATCGGTTGAGATTGGAT
TTTTATCGGCATCTACGTC

Sequences
Splice junction sequence	GATTTATACCCTTCAAGTGTGACTCCACAATCATCTTAAACAAACTTGAAGATGCAAGTGCTCC ATCGGTTGAGATTGGATTTTTATCGGCATCTACGTCaagtagtgtttctccttcgccagagtca gttaggacatgactagtaaccaacaacagccaatagagctcttccagtgtttgagtaggatcac tttcacca
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: 511 Transcript exons: 235337381-235337737,235337824-235337886,235338013-235338 103 AAGTAGTGTTTCTCCTTCGCCAGAGTCAGTTAGGACATGACTAGTAACCAACAACAGCCAATAG AGCTCTTCCAGTGTTTGAGTAGGATCACTTTCACCATTTCTCTGCTTAGAAAAATCTATTAAAT GTTAACTGTAAAAATACACCACCACAAAACAGTAGAATGTACAAGGCTACTGAAGCAGTATAGC TTAGTAGCTTCTCCTTTCTTAATAACTCAGGTAAATTACAAGATAACAAGAAGACCTGATTTAG CCGGGCAAATCGTTCTGAAAACAACTGTGCAAGAAATGGAATAGTAGTATTTGCAGAAGCCCGT GCTATTAGAGCATACAAGGCTAACTGTTCATCACGTTTTGAAACAGAAACATGAAAATATTCAG TATCATCAGTATCCTCGAACGCAGAATCAGCAGCAGCCTTCAAGTGTGACTCCACAATCATCTT AAACAAACTTGAAGATGCAAGTGCTCCATCGGTTGAGATTGGATTTTTATCGGCATCTACGTC
Genomic sequence	AAGTAGTGTTTCTCCTTCGCCAGAGTCAGTTAGGACATGACTAGTAACCAACAACAGCCAATAG AGCTCTTCCAGTGTTTGAGTAGGATCACTTTCACCATTTCTCTGCTTAGAAAAATCTATTAAAT GTTAACTGTAAAAATACACCACCACAAAACAGTAGAATGTACAAGGCTACTGAAGCAGTATAGC TTAGTAGCTTCTCCTTTCTTAATAACTCAGGTAAATTACAAGATAACAAGAAGACCTGATTTAG CCGGGCAAATCGTTCTGAAAACAACTGTGCAAGAAATGGAATAGTAGTATTTGCAGAAGCCCGT GCTATTAGAGCATACAAGGCTAACTGTTCATCACGTTCTGGAAGAAGTACTTCATTATTATTTG ATGAATCCAAAAGAGGTAGAGATACTAGAACAGATGAACTGTCGGGAATTTAAGCATACTTGAA ACAGAAACATGAAAATATTCAGTATCATCAGTATCCTCGAACGCAGAATCAGCAGCAGCTATGT CAAAGAAAATAAGAGTAATCAGTATGCAGAATGTAAACAACATAGAAAATCTTTTACACCATCT GTAACATTCTTCAAGACTGAGGTTACATTTAAATGGGAATATAAAGAGATTTATACCCTTCAAG TGTGACTCCACAATCATCTTAAACAAACTTGAAGATGCAAGTGCTCCATCGGTTGAGATTGGAT TTTTATCGGCATCTACGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.168625429

Conservation Information
Conserved circRNAs	NA
PMCS	0.168625429

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							235338056-235337421(+)
						
						Potential amino acid sequence
						
							MQVLHRLRLDFYRHLRQVVFLLRQSQLGHD*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	235338056-235337421(+)
Potential amino acid sequence	MQVLHRLRLDFYRHLRQVVFLLRQSQLGHD*(+)
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 Zm00001d032704_circ_g.2

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