Plant Circular RNA Database

Detail information of Zm00001d031232_circ_g.3

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d031232_circ_g.3
					

						ID in PlantcircBase
						zma_circ_006694
					

						Alias
						Zm01circ00113, GRMZM2G098494_C2
					

						Organism
						
							Zea mays						
					

						Position
						
							chr1: 182936688-182938347  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI2
					

						Parent gene
						
							Zm00001d031232						
					

						Parent gene annotation
						
							Sodium/hydrogen exchanger 7
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d031232_circ_g.2 						
					

						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
						Zm00001d031232_T019:6
Zm00001d031232_T036:7
Zm00001d031232_T027:6
Zm00001d031232_T086:6
Zm00001d031232_T051:6
Zm00001d031232_T045:6
Zm00001d031232_T032:6
Zm00001d031232_T020:3
Zm00001d031232_T061:7
Zm00001d031232_T088:7
Zm00001d031232_T013:6
Zm00001d031232_T015:7
Zm00001d031232_T043:6
Zm00001d031232_T074:5
Zm00001d031232_T037:7
Zm00001d031232_T097:6
Zm00001d031232_T062:6
Zm00001d031232_T054:7
Zm00001d031232_T092:6
Zm00001d031232_T068:6
Zm00001d031232_T007:7
Zm00001d031232_T058:5
Zm00001d031232_T057:6
Zm00001d031232_T069:7
Zm00001d031232_T011:7
Zm00001d031232_T048:6
Zm00001d031232_T003:6
Zm00001d031232_T082:6
Zm00001d031232_T078:7
Zm00001d031232_T093:5
Zm00001d031232_T030:6
Zm00001d031232_T016:7
Zm00001d031232_T021:5
Zm00001d031232_T005:7
Zm00001d031232_T085:6
Zm00001d031232_T049:5
Zm00001d031232_T053:7
Zm00001d031232_T070:6
Zm00001d031232_T047:6
Zm00001d031232_T022:6
Zm00001d031232_T024:3
Zm00001d031232_T040:6
Zm00001d031232_T004:6
Zm00001d031232_T090:7
Zm00001d031232_T056:5
Zm00001d031232_T002:7
Zm00001d031232_T055:7
Zm00001d031232_T081:7
Zm00001d031232_T075:6
Zm00001d031232_T077:6
Zm00001d031232_T084:7
Zm00001d031232_T025:6
Zm00001d031232_T067:6
Zm00001d031232_T009:8
Zm00001d031232_T065:5
Zm00001d031232_T095:7
Zm00001d031232_T029:7
Zm00001d031232_T041:6

					

			
		

General Information
CircRNA Name	Zm00001d031232_circ_g.3
ID in PlantcircBase	zma_circ_006694
Alias	Zm01circ00113, GRMZM2G098494_C2
Organism	Zea mays
Position	chr1: 182936688-182938347 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d031232
Parent gene annotation	Sodium/hydrogen exchanger 7
Parent gene strand	-
Alternative splicing	Zm00001d031232_circ_g.2
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	Zm00001d031232_T019:6 Zm00001d031232_T036:7 Zm00001d031232_T027:6 Zm00001d031232_T086:6 Zm00001d031232_T051:6 Zm00001d031232_T045:6 Zm00001d031232_T032:6 Zm00001d031232_T020:3 Zm00001d031232_T061:7 Zm00001d031232_T088:7 Zm00001d031232_T013:6 Zm00001d031232_T015:7 Zm00001d031232_T043:6 Zm00001d031232_T074:5 Zm00001d031232_T037:7 Zm00001d031232_T097:6 Zm00001d031232_T062:6 Zm00001d031232_T054:7 Zm00001d031232_T092:6 Zm00001d031232_T068:6 Zm00001d031232_T007:7 Zm00001d031232_T058:5 Zm00001d031232_T057:6 Zm00001d031232_T069:7 Zm00001d031232_T011:7 Zm00001d031232_T048:6 Zm00001d031232_T003:6 Zm00001d031232_T082:6 Zm00001d031232_T078:7 Zm00001d031232_T093:5 Zm00001d031232_T030:6 Zm00001d031232_T016:7 Zm00001d031232_T021:5 Zm00001d031232_T005:7 Zm00001d031232_T085:6 Zm00001d031232_T049:5 Zm00001d031232_T053:7 Zm00001d031232_T070:6 Zm00001d031232_T047:6 Zm00001d031232_T022:6 Zm00001d031232_T024:3 Zm00001d031232_T040:6 Zm00001d031232_T004:6 Zm00001d031232_T090:7 Zm00001d031232_T056:5 Zm00001d031232_T002:7 Zm00001d031232_T055:7 Zm00001d031232_T081:7 Zm00001d031232_T075:6 Zm00001d031232_T077:6 Zm00001d031232_T084:7 Zm00001d031232_T025:6 Zm00001d031232_T067:6 Zm00001d031232_T009:8 Zm00001d031232_T065:5 Zm00001d031232_T095:7 Zm00001d031232_T029:7 Zm00001d031232_T041:6

			
						 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  
						
							TCCAAGTGAAACTTCAGACAAGAACTTTATTATTGAGCCAGCATCAAAGGTTCTTCCAAGCACC
ATTCGATAGAATAGCTGATAGGCAACAATAGCGGTCcgtgcctctcaaagtggccattattttg
tagaacaccatctgcaataacaaccccactgaagggaattcacatatgagaaactttacaactg
tcattatg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CGTGCCTCTCAAAGTGGCCATTATTTTGTAGAACACCATCTGCAATAACAACCCCACTGAAGGG
AATTCACATATGAGAAACTTTACAACTGTCATTATGAAGTATAAGATCAAAGCAACTAGTAGTC
CAAACCAGTTGGACAAGTGGACATAAACAGCAAAACCAAAGAAATTTTTTTCCCATGTGTACAG
AAGAGCTGTCAATACCTCAGTATAAAAATAAGTGTATTTGCAATGTAAGCAACCATTTCCCTGA
GTACATGAATAAGAGCAAAGCAAACATGAAACTCAGATCAGATGAATACTCATATATCAGAAGA
GTAAAGAACATGTACATAAACTACAGAAAAAAAGAAGTCAATAATTTGATGTGTTCGTAGTAAT
ACCCAGATTAGGGTACCTTAATTCAGTGTCAACTGAAGATTTCATGGTACTTTTGGTAACCAAC
ACTGGAAAATTATTCATCAACAAAATTAGGATAGGGATCACAGGGATAGAGTACCAGAACAATT
CCATGCCAAAAAATGCTATTAATTAATGCTTGTGTATTTATGTTTTTAGGGTTTTATAAGTTTT
CATAATGAATCTTTTTGTTGGCTACAGATCCCAAATTAACATGGCTAGTGATTAGCTATGGCAG
ACCCTCAAATTAGTTCCCATAGTGCAATAAGTAGTTTACCAGCAATTCCAACGCCACCACCCTG
GCTGACTCAACCTCTCAACCTTGTTTAGTTTCCCCAGTCATGCAAACACATTGATAGCAGCATA
CAGAAAAATTGGCCTATGGGGGTAAGATAGTCCCCAGGTGCAAATAGGTCGAGAAAGCCCTTGA
AATCCTGTCTCACCTTTACACAGTGGTACTGGCGTACTGCAGCCAATGTGAGAAACCATGACTG
GGTCTGGACCTTAAACCTGTGCTTTGGCGTGTGACAGACGCGAGAATTTTTTAACCCTGGTCTG
AAATTTGCTCCCACTGGAATGAGTACTACTCAGACCACCTAACCAACTAAGTGAGAGACCTTTT
CGCCAGTGATAGTGGCATAGCACGACAGCATGACCTTTATTGGGAGGCTGACTTGTTTCTATAA
GATACATACCAGAAATGGTGTAAGCTTTGCTGACTTTCACCCTTAAAAGCAGTTTTTGCAAAAG
CTGCATAGAACCTGCCCAGGTAACATGGTCAATACAAGACAAATGATATTAAAACTTTAAAAGA
CATGCAAAACTATTTGTTGACACTAACATTCCCAGTGTCATGACAGTCAAAACACCAGAGACCT
CCAGTGAGTCTTGTGCCTGATACAAACGAACATTAGCAAAAGCAAAGTCTCTCAAAAAATAGAG
GGATGTAAGGACTTACAGTGAAGAAAGCTATATAACTGACAGCAAGAGTAAGTGCAATCTCTAT
GATTGTATCGTTAAAAATAAAGCCCAGCCACAGTATTGACATGATTCCAAATGCAAGGCCCAGA
GCAACACTGGTCAAAGAAGGTACTGATTAGCGTTATACACACATCCATATAGTTCATTTTGAAT
GTAACAAAGAAATTCCACATACGCTCCAAGTGAAACTTCAGACAAGAACTTTATTATTGAGCCA
GCATCAAAGGTTCTTCCAAGCACCATTCGATAGAATAGCTGATAGGCAACAATAGCGGTC
						
					

			
		

Sequences
Splice junction sequence	TCCAAGTGAAACTTCAGACAAGAACTTTATTATTGAGCCAGCATCAAAGGTTCTTCCAAGCACC ATTCGATAGAATAGCTGATAGGCAACAATAGCGGTCcgtgcctctcaaagtggccattattttg tagaacaccatctgcaataacaaccccactgaagggaattcacatatgagaaactttacaactg tcattatg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CGTGCCTCTCAAAGTGGCCATTATTTTGTAGAACACCATCTGCAATAACAACCCCACTGAAGGG AATTCACATATGAGAAACTTTACAACTGTCATTATGAAGTATAAGATCAAAGCAACTAGTAGTC CAAACCAGTTGGACAAGTGGACATAAACAGCAAAACCAAAGAAATTTTTTTCCCATGTGTACAG AAGAGCTGTCAATACCTCAGTATAAAAATAAGTGTATTTGCAATGTAAGCAACCATTTCCCTGA GTACATGAATAAGAGCAAAGCAAACATGAAACTCAGATCAGATGAATACTCATATATCAGAAGA GTAAAGAACATGTACATAAACTACAGAAAAAAAGAAGTCAATAATTTGATGTGTTCGTAGTAAT ACCCAGATTAGGGTACCTTAATTCAGTGTCAACTGAAGATTTCATGGTACTTTTGGTAACCAAC ACTGGAAAATTATTCATCAACAAAATTAGGATAGGGATCACAGGGATAGAGTACCAGAACAATT CCATGCCAAAAAATGCTATTAATTAATGCTTGTGTATTTATGTTTTTAGGGTTTTATAAGTTTT CATAATGAATCTTTTTGTTGGCTACAGATCCCAAATTAACATGGCTAGTGATTAGCTATGGCAG ACCCTCAAATTAGTTCCCATAGTGCAATAAGTAGTTTACCAGCAATTCCAACGCCACCACCCTG GCTGACTCAACCTCTCAACCTTGTTTAGTTTCCCCAGTCATGCAAACACATTGATAGCAGCATA CAGAAAAATTGGCCTATGGGGGTAAGATAGTCCCCAGGTGCAAATAGGTCGAGAAAGCCCTTGA AATCCTGTCTCACCTTTACACAGTGGTACTGGCGTACTGCAGCCAATGTGAGAAACCATGACTG GGTCTGGACCTTAAACCTGTGCTTTGGCGTGTGACAGACGCGAGAATTTTTTAACCCTGGTCTG AAATTTGCTCCCACTGGAATGAGTACTACTCAGACCACCTAACCAACTAAGTGAGAGACCTTTT CGCCAGTGATAGTGGCATAGCACGACAGCATGACCTTTATTGGGAGGCTGACTTGTTTCTATAA GATACATACCAGAAATGGTGTAAGCTTTGCTGACTTTCACCCTTAAAAGCAGTTTTTGCAAAAG CTGCATAGAACCTGCCCAGGTAACATGGTCAATACAAGACAAATGATATTAAAACTTTAAAAGA CATGCAAAACTATTTGTTGACACTAACATTCCCAGTGTCATGACAGTCAAAACACCAGAGACCT CCAGTGAGTCTTGTGCCTGATACAAACGAACATTAGCAAAAGCAAAGTCTCTCAAAAAATAGAG GGATGTAAGGACTTACAGTGAAGAAAGCTATATAACTGACAGCAAGAGTAAGTGCAATCTCTAT GATTGTATCGTTAAAAATAAAGCCCAGCCACAGTATTGACATGATTCCAAATGCAAGGCCCAGA GCAACACTGGTCAAAGAAGGTACTGATTAGCGTTATACACACATCCATATAGTTCATTTTGAAT GTAACAAAGAAATTCCACATACGCTCCAAGTGAAACTTCAGACAAGAACTTTATTATTGAGCCA GCATCAAAGGTTCTTCCAAGCACCATTCGATAGAATAGCTGATAGGCAACAATAGCGGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.057692224

Conservation Information
Conserved circRNAs	NA
PMCS	0.057692224

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							182936937-182938279(-)
182936728-182938293(-)
						
						Potential amino acid sequence
						
							MVAYIANTLIFILSGVVIADGVLQNNGHFERHGPLLLPISYSIEWCLEEPLMLAQ*(-)
MVFYKIMATLRGTDRYCCLSAILSNGAWKNL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	182936937-182938279(-) 182936728-182938293(-)
Potential amino acid sequence	MVAYIANTLIFILSGVVIADGVLQNNGHFERHGPLLLPISYSIEWCLEEPLMLAQ(-) MVFYKIMATLRGTDRYCCLSAILSNGAWKNL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d031232_circ_g.3

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