Plant Circular RNA Database

Detail information of Zm00001d035960_circ_g.8

			
						 General Information
					
						CircRNA Name
						Zm00001d035960_circ_g.8
					
						ID in PlantcircBase
						zma_circ_008931
					
						Alias
						zma_circ_0002487
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 62652720-62672025  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d035960						
					
						Parent gene annotation
						
							DNA-directed RNA polymerase III subunit 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d035960_circ_g.1 Zm00001d035960_circ_g.2 Zm00001d035960_circ_g.3 Zm00001d035960_circ_g.4 Zm00001d035960_circ_g.5 Zm00001d035960_circ_g.6 Zm00001d035960_circ_g.7 Zm00001d035960_circ_g.9 Zm00001d035960_circ_g.10 Zm00001d035960_circ_g.11 						
					
						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
						Zm00001d035960_T004:29
Zm00001d035960_T006:28
Zm00001d035960_T015:27
Zm00001d035960_T008:23
Zm00001d035960_T007:28
Zm00001d035960_T028:16
Zm00001d035960_T001:28
Zm00001d035960_T003:28
Zm00001d035960_T005:28
Zm00001d035960_T002:27
Zm00001d035960_T025:7
Zm00001d035960_T009:28
Zm00001d035960_T021:28
Zm00001d035960_T026:23
Zm00001d035960_T024:27
Zm00001d035960_T029:10
Zm00001d035960_T019:28
Zm00001d035960_T023:5
Zm00001d035960_T018:29

General Information
CircRNA Name	Zm00001d035960_circ_g.8
ID in PlantcircBase	zma_circ_008931
Alias	zma_circ_0002487
Organism	Zea mays
Position	chr6: 62652720-62672025 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d035960
Parent gene annotation	DNA-directed RNA polymerase III subunit 2
Parent gene strand	+
Alternative splicing	Zm00001d035960_circ_g.1 Zm00001d035960_circ_g.2 Zm00001d035960_circ_g.3 Zm00001d035960_circ_g.4 Zm00001d035960_circ_g.5 Zm00001d035960_circ_g.6 Zm00001d035960_circ_g.7 Zm00001d035960_circ_g.9 Zm00001d035960_circ_g.10 Zm00001d035960_circ_g.11
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	Zm00001d035960_T004:29 Zm00001d035960_T006:28 Zm00001d035960_T015:27 Zm00001d035960_T008:23 Zm00001d035960_T007:28 Zm00001d035960_T028:16 Zm00001d035960_T001:28 Zm00001d035960_T003:28 Zm00001d035960_T005:28 Zm00001d035960_T002:27 Zm00001d035960_T025:7 Zm00001d035960_T009:28 Zm00001d035960_T021:28 Zm00001d035960_T026:23 Zm00001d035960_T024:27 Zm00001d035960_T029:10 Zm00001d035960_T019:28 Zm00001d035960_T023:5 Zm00001d035960_T018:29

			
						 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  
						
							CTACAATCACAAACTGAAGACTTCATACTGTTCAATGTGCAAGAATGGGGAAAACATGGCCAAG
ATGAGGCTGCCATACGCTTGCAAGCTTCTATTCCAGattcctattatagtggtgatgaaagcga
tgggaatggaaagtgatcaggagactgtacaaatggttggcagggacccaagatacggagatct
cttatttc

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	CTACAATCACAAACTGAAGACTTCATACTGTTCAATGTGCAAGAATGGGGAAAACATGGCCAAG ATGAGGCTGCCATACGCTTGCAAGCTTCTATTCCAGattcctattatagtggtgatgaaagcga tgggaatggaaagtgatcaggagactgtacaaatggttggcagggacccaagatacggagatct cttatttc
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	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
						0.160237738

Conservation Information
Conserved circRNAs	NA
PMCS	0.160237738

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							62652739-62652760(+)
62671961-62652760(+)
						
					

						Potential amino acid sequence
						
							MKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASERIYTRQRALQYMDEKVTYPGATNQKEGR
SYSILRDVFIAHVPVCNGQDTSFWKDQWISDELLSSQLPSLHSHLLRGVSIEVMSSRLATQLKP
HLSRQNHSHCNINLRKKNVLDMNTCDICGLAGEDTNNIIFMCPFARAFWMRIGVNPNMIAAVQE
LWTSTAPLGVPMETLSTTLLLGTVWELWKHGDMDYVGNKRFELSGQLISLLFELIMQDSITFGL
ERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEKTRKTSGPRALQPSQWGML
CPCDTPEGEACGLTKNLALLSHVTTDQEEGPLIYLCYSLGVEDLLSLSSEEIHTPGSFLVMFNG
LILGKHKDPQRLVIDLRNLRRSNVIGEFVSIFINEKQLKWFGHVQRGPSEAPMRSAILRYHSNE
KRDRGRPKLTWKEIVKGDLHCVHIASDGGRVCRPLIIADMGISRIDETHMEKLRLVCHQHGTCG
FDDFLRDGLIEYLDVNEENNALCAMGKQAMGNIAYNQVGYDKLGAGQNATVAVMGYSGYDIEDA
IVMNKSSLDRGFGRCIALKKYTVLKDNYGDGVSDMIVEPQRDNGVLIKQNMRALDEDGIAGPGQ
IIRNHDIYVNKRTPKNTSKGIGRALRESDYKDSPALYKGVDGETTVVDRVMLCSDTNDKLSIKC
IIRHTRRPEVGDKFSSRHGQKGVCGWLTLIFLASRMTIGKMIELLGGKAGVSCGRFHYGSAFGE
PSGNADKVADISSTLIKHGFSYNGKDFLYSGILGQPLEAYIFMGPIYYQKLKHMVLDKMHARAS
GPRVLLTRQPTEGRSRDGGLRLGEMERDCLIAYGASMLIFERLLLSSDPYQVQKMWLVRLLQSQ
TEDFILFNVQEWGKHGQDEAAIRLQASIPDSYYSGDESDGNGK*(+)
MCKNGENMAKMRLPYACKLLFQIPIIVVMKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASE
RIYTRQRALQYMDEKVTYPGATNQKEGRSYSILRDVFIAHVPVCNGQDTSFWKDQWISDELLSS
QLPSLHSHLLRGVSIEVMSSRLATQLKPHLSRQNHSHCNINLRKKNVLDMNTCDICGLAGEDTN
NIIFMCPFARAFWMRIGVNPNMIAAVQELWTSTAPLGVPMETLSTTLLLGTVWELWKHGDMDYV
GNKRFELSGQLISLLFELIMQDSITFGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGY
MTRITPQFEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLSHVTTDQEEGPLIYLC
YSLGVEDLLSLSSEEIHTPGSFLVMFNGLILGKHKDPQRLVIDLRNLRRSNVIGEFVSIFINEK
QLKWFGHVQRGPSEAPMRSAILRYHSNEKRDRGRPKLTWKEIVKGDLHCVHIASDGGRVCRPLI
IADMGISRIDETHMEKLRLVCHQHGTCGFDDFLRDGLIEYLDVNEENNALCAMGKQAMGNIAYN
QVGYDKLGAGQNATVAVMGYSGYDIEDAIVMNKSSLDRGFGRCIALKKYTVLKDNYGDGVSDMI
VEPQRDNGVLIKQNMRALDEDGIAGPGQIIRNHDIYVNKRTPKNTSKGIGRALRESDYKDSPAL
YKGVDGETTVVDRVMLCSDTNDKLSIKCIIRHTRRPEVGDKFSSRHGQKGVCGWLTLIFLASRM
TIGKMIELLGGKAGVSCGRFHYGSAFGEPSGNADKVADISSTLIKHGFSYNGKDFLYSGILGQP
LEAYIFMGPIYYQKLKHMVLDKMHARASGPRVLLTRQPTEGRSRDGGLRLGEMERDCLIAYGAS
MLIFERLLLSSDPYQVQKMWLVRLLQSQTEDFILFNVQEWGKHGQDEAAIRLQASIPDSYYSGD
ESDGNGK*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	62652739-62652760(+) 62671961-62652760(+)
Potential amino acid sequence	MKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASERIYTRQRALQYMDEKVTYPGATNQKEGR SYSILRDVFIAHVPVCNGQDTSFWKDQWISDELLSSQLPSLHSHLLRGVSIEVMSSRLATQLKP HLSRQNHSHCNINLRKKNVLDMNTCDICGLAGEDTNNIIFMCPFARAFWMRIGVNPNMIAAVQE LWTSTAPLGVPMETLSTTLLLGTVWELWKHGDMDYVGNKRFELSGQLISLLFELIMQDSITFGL ERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEKTRKTSGPRALQPSQWGML CPCDTPEGEACGLTKNLALLSHVTTDQEEGPLIYLCYSLGVEDLLSLSSEEIHTPGSFLVMFNG LILGKHKDPQRLVIDLRNLRRSNVIGEFVSIFINEKQLKWFGHVQRGPSEAPMRSAILRYHSNE KRDRGRPKLTWKEIVKGDLHCVHIASDGGRVCRPLIIADMGISRIDETHMEKLRLVCHQHGTCG FDDFLRDGLIEYLDVNEENNALCAMGKQAMGNIAYNQVGYDKLGAGQNATVAVMGYSGYDIEDA IVMNKSSLDRGFGRCIALKKYTVLKDNYGDGVSDMIVEPQRDNGVLIKQNMRALDEDGIAGPGQ IIRNHDIYVNKRTPKNTSKGIGRALRESDYKDSPALYKGVDGETTVVDRVMLCSDTNDKLSIKC IIRHTRRPEVGDKFSSRHGQKGVCGWLTLIFLASRMTIGKMIELLGGKAGVSCGRFHYGSAFGE PSGNADKVADISSTLIKHGFSYNGKDFLYSGILGQPLEAYIFMGPIYYQKLKHMVLDKMHARAS GPRVLLTRQPTEGRSRDGGLRLGEMERDCLIAYGASMLIFERLLLSSDPYQVQKMWLVRLLQSQ TEDFILFNVQEWGKHGQDEAAIRLQASIPDSYYSGDESDGNGK(+) MCKNGENMAKMRLPYACKLLFQIPIIVVMKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASE RIYTRQRALQYMDEKVTYPGATNQKEGRSYSILRDVFIAHVPVCNGQDTSFWKDQWISDELLSS QLPSLHSHLLRGVSIEVMSSRLATQLKPHLSRQNHSHCNINLRKKNVLDMNTCDICGLAGEDTN NIIFMCPFARAFWMRIGVNPNMIAAVQELWTSTAPLGVPMETLSTTLLLGTVWELWKHGDMDYV GNKRFELSGQLISLLFELIMQDSITFGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGY MTRITPQFEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLSHVTTDQEEGPLIYLC YSLGVEDLLSLSSEEIHTPGSFLVMFNGLILGKHKDPQRLVIDLRNLRRSNVIGEFVSIFINEK QLKWFGHVQRGPSEAPMRSAILRYHSNEKRDRGRPKLTWKEIVKGDLHCVHIASDGGRVCRPLI IADMGISRIDETHMEKLRLVCHQHGTCGFDDFLRDGLIEYLDVNEENNALCAMGKQAMGNIAYN QVGYDKLGAGQNATVAVMGYSGYDIEDAIVMNKSSLDRGFGRCIALKKYTVLKDNYGDGVSDMI VEPQRDNGVLIKQNMRALDEDGIAGPGQIIRNHDIYVNKRTPKNTSKGIGRALRESDYKDSPAL YKGVDGETTVVDRVMLCSDTNDKLSIKCIIRHTRRPEVGDKFSSRHGQKGVCGWLTLIFLASRM TIGKMIELLGGKAGVSCGRFHYGSAFGEPSGNADKVADISSTLIKHGFSYNGKDFLYSGILGQP LEAYIFMGPIYYQKLKHMVLDKMHARASGPRVLLTRQPTEGRSRDGGLRLGEMERDCLIAYGAS MLIFERLLLSSDPYQVQKMWLVRLLQSQTEDFILFNVQEWGKHGQDEAAIRLQASIPDSYYSGD ESDGNGK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d035960_circ_g.8

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