Plant Circular RNA Database

Detail information of Zm00001d031231_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d031231_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006691
					
						Alias
						Zm01circ00112, GRMZM2G151236_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 182823438-182823966  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d031231						
					
						Parent gene annotation
						
							Protein kinase superfamily protein
							
						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
						Zm00001d031231_T053:2
Zm00001d031231_T016:2
Zm00001d031231_T031:2
Zm00001d031231_T025:2
Zm00001d031231_T028:2
Zm00001d031231_T023:3
Zm00001d031231_T022:3
Zm00001d031231_T012:2
Zm00001d031231_T026:2
Zm00001d031231_T052:3
Zm00001d031231_T008:2
Zm00001d031231_T056:2
Zm00001d031231_T017:3
Zm00001d031231_T033:3
Zm00001d031231_T001:2
Zm00001d031231_T010:2
Zm00001d031231_T014:2
Zm00001d031231_T032:2
Zm00001d031231_T015:3
Zm00001d031231_T024:2
Zm00001d031231_T037:2
Zm00001d031231_T006:3
Zm00001d031231_T054:3
Zm00001d031231_T029:2
Zm00001d031231_T057:2
Zm00001d031231_T021:3
Zm00001d031231_T005:2
Zm00001d031231_T055:2
Zm00001d031231_T050:2
Zm00001d031231_T030:2
Zm00001d031231_T013:2
Zm00001d031231_T007:2
Zm00001d031231_T011:3
Zm00001d031231_T027:2
Zm00001d031231_T036:2
Zm00001d031231_T047:2
Zm00001d031231_T039:2
Zm00001d031231_T002:2
Zm00001d031231_T020:2
Zm00001d031231_T034:2
Zm00001d031231_T004:2

General Information
CircRNA Name	Zm00001d031231_circ_g.2
ID in PlantcircBase	zma_circ_006691
Alias	Zm01circ00112, GRMZM2G151236_C1
Organism	Zea mays
Position	chr1: 182823438-182823966 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d031231
Parent gene annotation	Protein kinase superfamily protein
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	Zm00001d031231_T053:2 Zm00001d031231_T016:2 Zm00001d031231_T031:2 Zm00001d031231_T025:2 Zm00001d031231_T028:2 Zm00001d031231_T023:3 Zm00001d031231_T022:3 Zm00001d031231_T012:2 Zm00001d031231_T026:2 Zm00001d031231_T052:3 Zm00001d031231_T008:2 Zm00001d031231_T056:2 Zm00001d031231_T017:3 Zm00001d031231_T033:3 Zm00001d031231_T001:2 Zm00001d031231_T010:2 Zm00001d031231_T014:2 Zm00001d031231_T032:2 Zm00001d031231_T015:3 Zm00001d031231_T024:2 Zm00001d031231_T037:2 Zm00001d031231_T006:3 Zm00001d031231_T054:3 Zm00001d031231_T029:2 Zm00001d031231_T057:2 Zm00001d031231_T021:3 Zm00001d031231_T005:2 Zm00001d031231_T055:2 Zm00001d031231_T050:2 Zm00001d031231_T030:2 Zm00001d031231_T013:2 Zm00001d031231_T007:2 Zm00001d031231_T011:3 Zm00001d031231_T027:2 Zm00001d031231_T036:2 Zm00001d031231_T047:2 Zm00001d031231_T039:2 Zm00001d031231_T002:2 Zm00001d031231_T020:2 Zm00001d031231_T034:2 Zm00001d031231_T004:2

			
						 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  
						
							GCTTTAAGATCTTTTGCCCGCACGACTTTTGAGAACACACCCTTCCCATGTGCTGCTATGATTT
CGTAATGGCCATCCAGCAATTCTCCGAACCGGTAAGcagcatattgtcaggtttaatatcacag
tgcaaaactttgcagttcttcaggtgcttcagggcgatgaaaagctgctttgaatatgccctca
ccgcagtc

						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: 449
Transcript exons: 182823438-182823729,182823810-182823966
CAGCATATTGTCAGGTTTAATATCACAGTGCAAAACTTTGCAGTTCTTCAGGTGCTTCAGGGCG
ATGAAAAGCTGCTTTGAATATGCCCTCACCGCAGTCAGTTTAAGCCCAATATTACGACCAAATT
TCTTTAAAACCTCACGAAGATTCATATTGAGAGATTCAAAAACTAAGCAAAGATGGTTCCGGTA
CATGAAACTAGAAATAAACCGCACGCAGTGGCGTTTGTCCTCACGGTCCACACTTGCAAGTTTT
TCCAGTATTGAAACCTCTTGCTTACCAGCCTTGTACATTGTCTCCTTGTTGCGAATAATTTTGA
TAGCAACTTCTTCAGGATCATCTTTACTCGCTTTAAGATCTTTTGCCCGCACGACTTTTGAGAA
CACACCCTTCCCATGTGCTGCTATGATTTCGTAATGGCCATCCAGCAATTCTCCGAACCGGTAA
G
						
						Genomic sequence
						
							CAGCATATTGTCAGGTTTAATATCACAGTGCAAAACTTTGCAGTTCTTCAGGTGCTTCAGGGCG
ATGAAAAGCTGCTTTGAATATGCCCTCACCGCAGTCAGTTTAAGCCCAATATTACGACCAAATT
TCTTTAAAACCTCACGAAGATTCATATTGAGAGATTCAAAAACTAAGCAAAGATGGTTCCGGTA
CATGAAACTAGAAATAAACCGCACGCAGTGGCGTTTGTCCTCACGGTCCACACTTGCAAGTTTT
TCCAGTATTGAAACCTCTTGCTTACCAGCCTTGTACCTGTATAATCGAATATTGAATTACAGTC
CTATTTAATTTTCCATACTAAAAATTGCAGATCTCTAGGAAGATTATATTACATTGTCTCCTTG
TTGCGAATAATTTTGATAGCAACTTCTTCAGGATCATCTTTACTCGCTTTAAGATCTTTTGCCC
GCACGACTTTTGAGAACACACCCTTCCCATGTGCTGCTATGATTTCGTAATGGCCATCCAGCAA
TTCTCCGAACCGGTAAG

Sequences
Splice junction sequence	GCTTTAAGATCTTTTGCCCGCACGACTTTTGAGAACACACCCTTCCCATGTGCTGCTATGATTT CGTAATGGCCATCCAGCAATTCTCCGAACCGGTAAGcagcatattgtcaggtttaatatcacag tgcaaaactttgcagttcttcaggtgcttcagggcgatgaaaagctgctttgaatatgccctca ccgcagtc
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: 449 Transcript exons: 182823438-182823729,182823810-182823966 CAGCATATTGTCAGGTTTAATATCACAGTGCAAAACTTTGCAGTTCTTCAGGTGCTTCAGGGCG ATGAAAAGCTGCTTTGAATATGCCCTCACCGCAGTCAGTTTAAGCCCAATATTACGACCAAATT TCTTTAAAACCTCACGAAGATTCATATTGAGAGATTCAAAAACTAAGCAAAGATGGTTCCGGTA CATGAAACTAGAAATAAACCGCACGCAGTGGCGTTTGTCCTCACGGTCCACACTTGCAAGTTTT TCCAGTATTGAAACCTCTTGCTTACCAGCCTTGTACATTGTCTCCTTGTTGCGAATAATTTTGA TAGCAACTTCTTCAGGATCATCTTTACTCGCTTTAAGATCTTTTGCCCGCACGACTTTTGAGAA CACACCCTTCCCATGTGCTGCTATGATTTCGTAATGGCCATCCAGCAATTCTCCGAACCGGTAA G
Genomic sequence	CAGCATATTGTCAGGTTTAATATCACAGTGCAAAACTTTGCAGTTCTTCAGGTGCTTCAGGGCG ATGAAAAGCTGCTTTGAATATGCCCTCACCGCAGTCAGTTTAAGCCCAATATTACGACCAAATT TCTTTAAAACCTCACGAAGATTCATATTGAGAGATTCAAAAACTAAGCAAAGATGGTTCCGGTA CATGAAACTAGAAATAAACCGCACGCAGTGGCGTTTGTCCTCACGGTCCACACTTGCAAGTTTT TCCAGTATTGAAACCTCTTGCTTACCAGCCTTGTACCTGTATAATCGAATATTGAATTACAGTC CTATTTAATTTTCCATACTAAAAATTGCAGATCTCTAGGAAGATTATATTACATTGTCTCCTTG TTGCGAATAATTTTGATAGCAACTTCTTCAGGATCATCTTTACTCGCTTTAAGATCTTTTGCCC GCACGACTTTTGAGAACACACCCTTCCCATGTGCTGCTATGATTTCGTAATGGCCATCCAGCAA TTCTCCGAACCGGTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.21195321

Conservation Information
Conserved circRNAs	NA
PMCS	0.21195321

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							182823915-182823932(+)
182823813-182823924(-)
						
						Potential amino acid sequence
						
							MCCYDFVMAIQQFSEPVSSILSGLISQCKTLQFFRCFRAMKSCFEYALTAVSLSPILRPNFFKT
SRRFILRDSKTKQRWFRYMKLEINRTQWRLSSRSTLASFSSIETSCLPALYIVSLLRIILIATS
SGSSLLALRSFARTTFENTPFPCAAMIS*(+)
MYKAGKQEVSILEKLASVDREDKRHCVRFISSFMYRNHLCLVFESLNMNLREVLKKFGRNIGLK
LTAVRAYSKQLFIALKHLKNCKVLHCDIKPDNMLLTGSENCWMAITKS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	182823915-182823932(+) 182823813-182823924(-)
Potential amino acid sequence	MCCYDFVMAIQQFSEPVSSILSGLISQCKTLQFFRCFRAMKSCFEYALTAVSLSPILRPNFFKT SRRFILRDSKTKQRWFRYMKLEINRTQWRLSSRSTLASFSSIETSCLPALYIVSLLRIILIATS SGSSLLALRSFARTTFENTPFPCAAMIS(+) MYKAGKQEVSILEKLASVDREDKRHCVRFISSFMYRNHLCLVFESLNMNLREVLKKFGRNIGLK LTAVRAYSKQLFIALKHLKNCKVLHCDIKPDNMLLTGSENCWMAITKS(-)
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 Zm00001d031231_circ_g.2

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