Plant Circular RNA Database

Detail information of Zm00001d030266_circ_g.9

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d030266_circ_g.9
					

						ID in PlantcircBase
						zma_circ_006605
					

						Alias
						zma_circ_0000236, GRMZM2G326643_C6
					

						Organism
						
							Zea mays						
					

						Position
						
							chr1: 117667249-117676325  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ, CIRI2
					

						Parent gene
						
							Zm00001d030266						
					

						Parent gene annotation
						
							Callose synthase 10
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d030266_circ_g.2 Zm00001d030266_circ_g.3 Zm00001d030266_circ_g.4 Zm00001d030266_circ_g.5 Zm00001d030266_circ_g.6 Zm00001d030266_circ_g.7 Zm00001d030266_circ_g.8 Zm00001d030266_circ_g.10 Zm00001d030266_circ_g.11 Zm00001d030266_circ_g.12 Zm00001d030266_circ_g.13 						
					

						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  
						
							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
						Zm00001d030266_T025:5
Zm00001d030266_T011:5
Zm00001d030266_T045:5
Zm00001d030266_T068:5
Zm00001d030266_T032:3
Zm00001d030266_T081:5
Zm00001d030266_T016:5
Zm00001d030266_T004:5
Zm00001d030266_T090:5
Zm00001d030266_T088:5
Zm00001d030266_T072:5
Zm00001d030266_T048:5
Zm00001d030266_T066:5
Zm00001d030266_T089:5
Zm00001d030266_T028:5
Zm00001d030266_T013:5
Zm00001d030266_T085:5
Zm00001d030266_T007:5
Zm00001d030266_T036:5
Zm00001d030266_T021:5
Zm00001d030266_T035:5
Zm00001d030266_T096:1
Zm00001d030266_T087:5
Zm00001d030266_T079:5
Zm00001d030266_T039:5
Zm00001d030266_T027:5
Zm00001d030266_T080:5
Zm00001d030266_T005:5
Zm00001d030266_T041:5
Zm00001d030266_T093:5
Zm00001d030266_T023:5
Zm00001d030266_T095:2
Zm00001d030266_T064:5
Zm00001d030266_T001:5
Zm00001d030266_T059:5
Zm00001d030266_T057:4
Zm00001d030266_T061:5
Zm00001d030266_T047:5
Zm00001d030266_T033:5
Zm00001d030266_T014:5
Zm00001d030266_T083:5
Zm00001d030266_T069:5
Zm00001d030266_T031:5
Zm00001d030266_T054:5
Zm00001d030266_T077:5
Zm00001d030266_T073:5
Zm00001d030266_T074:5
Zm00001d030266_T018:5
Zm00001d030266_T052:5
Zm00001d030266_T008:5
Zm00001d030266_T092:5
Zm00001d030266_T056:5
Zm00001d030266_T063:5
Zm00001d030266_T050:5
Zm00001d030266_T019:5

					

			
		

General Information
CircRNA Name	Zm00001d030266_circ_g.9
ID in PlantcircBase	zma_circ_006605
Alias	zma_circ_0000236, GRMZM2G326643_C6
Organism	Zea mays
Position	chr1: 117667249-117676325 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d030266
Parent gene annotation	Callose synthase 10
Parent gene strand	+
Alternative splicing	Zm00001d030266_circ_g.2 Zm00001d030266_circ_g.3 Zm00001d030266_circ_g.4 Zm00001d030266_circ_g.5 Zm00001d030266_circ_g.6 Zm00001d030266_circ_g.7 Zm00001d030266_circ_g.8 Zm00001d030266_circ_g.10 Zm00001d030266_circ_g.11 Zm00001d030266_circ_g.12 Zm00001d030266_circ_g.13
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	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	Zm00001d030266_T025:5 Zm00001d030266_T011:5 Zm00001d030266_T045:5 Zm00001d030266_T068:5 Zm00001d030266_T032:3 Zm00001d030266_T081:5 Zm00001d030266_T016:5 Zm00001d030266_T004:5 Zm00001d030266_T090:5 Zm00001d030266_T088:5 Zm00001d030266_T072:5 Zm00001d030266_T048:5 Zm00001d030266_T066:5 Zm00001d030266_T089:5 Zm00001d030266_T028:5 Zm00001d030266_T013:5 Zm00001d030266_T085:5 Zm00001d030266_T007:5 Zm00001d030266_T036:5 Zm00001d030266_T021:5 Zm00001d030266_T035:5 Zm00001d030266_T096:1 Zm00001d030266_T087:5 Zm00001d030266_T079:5 Zm00001d030266_T039:5 Zm00001d030266_T027:5 Zm00001d030266_T080:5 Zm00001d030266_T005:5 Zm00001d030266_T041:5 Zm00001d030266_T093:5 Zm00001d030266_T023:5 Zm00001d030266_T095:2 Zm00001d030266_T064:5 Zm00001d030266_T001:5 Zm00001d030266_T059:5 Zm00001d030266_T057:4 Zm00001d030266_T061:5 Zm00001d030266_T047:5 Zm00001d030266_T033:5 Zm00001d030266_T014:5 Zm00001d030266_T083:5 Zm00001d030266_T069:5 Zm00001d030266_T031:5 Zm00001d030266_T054:5 Zm00001d030266_T077:5 Zm00001d030266_T073:5 Zm00001d030266_T074:5 Zm00001d030266_T018:5 Zm00001d030266_T052:5 Zm00001d030266_T008:5 Zm00001d030266_T092:5 Zm00001d030266_T056:5 Zm00001d030266_T063:5 Zm00001d030266_T050:5 Zm00001d030266_T019:5

			
						 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  
						
							GCCTGGGAACCCCAAGCTTGGTGAAGGCAAACCTGAGAACCAAAACCATGCCATAATCTTCACT
CGAGGAGATGCAGTTCAGACGATCGATATGAATCAGatgagtgggctaacttcttagaacgaat
tggctgtggtgaatcatcagaagatgattttaaagaaagtccaagtgacaccatggaactccgg
ttttgggt

						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: 620
Transcript exons: 117667249-117667380,117667551-117667619,117667710-117667
887,117672023-117672143,117676206-117676325
ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA
AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG
ACAGTGCGTGGAATGATGTACTATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGAT
GCCTTGGGGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATGAGTT
ATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATAT
GGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAGAAATG
AGGCTCTTCGGGTTGCTTTCATACACGAAGAGGAAATCATATCAAGGGATGGTAAGGCTACAAC
AAGAGAGTATTATTCCAAGCTTGTGAAGGCTGATGTTCATGGCAAAGACCAAGAAATATACTGC
ATTAAATTGCCTGGGAACCCCAAGCTTGGTGAAGGCAAACCTGAGAACCAAAACCATGCCATAA
TCTTCACTCGAGGAGATGCAGTTCAGACGATCGATATGAATCAG
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	GCCTGGGAACCCCAAGCTTGGTGAAGGCAAACCTGAGAACCAAAACCATGCCATAATCTTCACT CGAGGAGATGCAGTTCAGACGATCGATATGAATCAGatgagtgggctaacttcttagaacgaat tggctgtggtgaatcatcagaagatgattttaaagaaagtccaagtgacaccatggaactccgg ttttgggt
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: 620 Transcript exons: 117667249-117667380,117667551-117667619,117667710-117667 887,117672023-117672143,117676206-117676325 ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG ACAGTGCGTGGAATGATGTACTATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGAT GCCTTGGGGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATGAGTT ATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATAT GGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAGAAATG AGGCTCTTCGGGTTGCTTTCATACACGAAGAGGAAATCATATCAAGGGATGGTAAGGCTACAAC AAGAGAGTATTATTCCAAGCTTGTGAAGGCTGATGTTCATGGCAAAGACCAAGAAATATACTGC ATTAAATTGCCTGGGAACCCCAAGCTTGGTGAAGGCAAACCTGAGAACCAAAACCATGCCATAA TCTTCACTCGAGGAGATGCAGTTCAGACGATCGATATGAATCAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.055352685

Conservation Information
Conserved circRNAs	NA
PMCS	0.055352685

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							117667330-117667266(+)
117667332-117676287(-)
						
						Potential amino acid sequence
						
							MELRFWVSYRGQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDAR
AQADIKFTYVVSCQIYGLQKQTKKQEAADIALLLQRNEALRVAFIHEEEIISRDGKATTREYYS
KLVKADVHGKDQEIYCIKLPGNPKLGEGKPENQNHAIIFTRGDAVQTIDMNQMSGLTS*(+)
MVSLGLSLKSSSDDSPQPIRSKKLAHSSDSYRSSELHLLE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	117667330-117667266(+) 117667332-117676287(-)
Potential amino acid sequence	MELRFWVSYRGQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDAR AQADIKFTYVVSCQIYGLQKQTKKQEAADIALLLQRNEALRVAFIHEEEIISRDGKATTREYYS KLVKADVHGKDQEIYCIKLPGNPKLGEGKPENQNHAIIFTRGDAVQTIDMNQMSGLTS(+) MVSLGLSLKSSSDDSPQPIRSKKLAHSSDSYRSSELHLLE(-)
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 Zm00001d030266_circ_g.9

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