Plant Circular RNA Database

Detail information of Zm00001d003713_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d003713_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007181
					
						Alias
						zma_circ_0001069
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 56083984-56089994  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d003713						
					
						Parent gene annotation
						
							Exocyst complex component SEC5A
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d003713_circ_g.2 Zm00001d003713_circ_g.3 Zm00001d003713_circ_g.4 						
					
						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
						Zm00001d003713_T003:15
Zm00001d003713_T010:8
Zm00001d003713_T005:14
Zm00001d003713_T013:3
Zm00001d003713_T011:5
Zm00001d003713_T004:14
Zm00001d003713_T009:9
Zm00001d003713_T001:15
Zm00001d003713_T012:4
Zm00001d003713_T007:11
Zm00001d003713_T006:14
Zm00001d003713_T008:8

General Information
CircRNA Name	Zm00001d003713_circ_g.1
ID in PlantcircBase	zma_circ_007181
Alias	zma_circ_0001069
Organism	Zea mays
Position	chr2: 56083984-56089994 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d003713
Parent gene annotation	Exocyst complex component SEC5A
Parent gene strand	+
Alternative splicing	Zm00001d003713_circ_g.2 Zm00001d003713_circ_g.3 Zm00001d003713_circ_g.4
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	Zm00001d003713_T003:15 Zm00001d003713_T010:8 Zm00001d003713_T005:14 Zm00001d003713_T013:3 Zm00001d003713_T011:5 Zm00001d003713_T004:14 Zm00001d003713_T009:9 Zm00001d003713_T001:15 Zm00001d003713_T012:4 Zm00001d003713_T007:11 Zm00001d003713_T006:14 Zm00001d003713_T008:8

			
						 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  
						
							TCATAGGAATAATGATGAGCGAAGTTCTGACATGCGAGATCTGATGACTTCTTTCTCTGCGCTT
GAAGAGAAAGTCCTGGACCAATATACTTTTGCAAAGcttgctcgtagggttcgagaaatgcgtg
aagcaaaggtggctcctaacattcaagaacttgatcagaaagcagcagcagcagctgctgctgc
tcgaaagg

						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	TCATAGGAATAATGATGAGCGAAGTTCTGACATGCGAGATCTGATGACTTCTTTCTCTGCGCTT GAAGAGAAAGTCCTGGACCAATATACTTTTGCAAAGcttgctcgtagggttcgagaaatgcgtg aagcaaaggtggctcctaacattcaagaacttgatcagaaagcagcagcagcagctgctgctgc tcgaaagg
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
						0.054912383

Conservation Information
Conserved circRNAs	NA
PMCS	0.054912383

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							56084006-56089991(+)
56084035-56089627(-)
						
					

						Potential amino acid sequence
						
							MREAKVAPNIQELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSS
PISREKSQGLDPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQL
VKENFDCFVSCKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEK
IRSVQGMLQRFRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQ
EFRGMLYKSMEDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRME
VLQNKIREKVLSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTS
VLIQHVPAFWRLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASM
VRDTISAFDTKVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMT
KLYVLRLCSWMRATTKEISKDDTWVILSTLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNL
MSETAKSYDISQPLQEINESVRLAFLNSFLDFAGYLERFGGELTENRPNNENNYVQNGYINGTR
ETSANTDGDLHKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALE
EKVLDQYTFAKLARRVREMREAKVAPNIQELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGL
GVIDNKSLRLITDASVSSPISREKSQGLDPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAG
ALTLKTDLKGRTQQKKQLVKENFDCFVSCKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISG
VANRAFEPLFERQAQAEKIRSVQGMLQRFRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLP
SHVGILKRVLEEVEKVMQEFRGMLYKSMEDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNS
RIHGLFEKCTQDHELRMEVLQNKIREKVLSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNF
MAEEADSLRATYTRRLTSVLIQHVPAFWRLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDD
KGGDVKYTNHTLDEVASMVRDTISAFDTKVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGK
DSSPTAVKLLRTLHFQMTKLYVLRLCSWMRATTKEISKDDTWVILSTLERNKSPYAISCMPLEF
RDIIISAMDRIDTMILNLMSETAKSYDISQPLQEINESVRLAFLNSFLDFAGYLERFGGELTEN
RPNNENNYVQNGYINGTRETSANTDGDLHKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNN
DERSSDMRDLMTSFSALEEKVLDQYTFAKLARRVREMREAKVAPNIQELDQKAAAAAAAARKAL
TSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSSPISREKSQGLDPNMRDKVIYSSPSFDPK
VFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQLVKENFDCFVSCKTTIDDIESKLRQIEED
PEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEKIRSVQGMLQRFRTLFNLPSAIRGNIRKG
EYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQEFRGMLYKSMEDPHLDFAELENIVRLLL
ELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRMEVLQNKIREKVLSDSKWRQLQQDSNKSLE
VDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTSVLIQHVPAFWRLALSVFSGKFAKTASGN
VVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASMVRDTISAFDTKVQSTFRDFEECNILCPY
MSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMTKLYVLRLCSWMRATTKEISKDDTWVILS
TLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNLMSETAKSYDISQPLQEINESVRLAFLNS
FLDFAGYLERFGGELTENRPNNENNYVQNGYINGTRETSANTDGDLHKKLLVVLSNIGYCKAEL
SEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALEEKVLDQYTFAKLARRVREMREAKVAPNI
QELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSSPISREKSQGL
DPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQLVKENFDCFVS
CKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEKIRSVQGMLQR
FRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQEFRGMLYKSM
EDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRMEVLQNKIREKV
LSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTSVLIQHVPAFW
RLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASMVRDTISAFDT
KVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMTKLYVLRLCSW
MRATTKEISKDDTWVILSTLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNLMSETAKSYDI
SQPLQEINESVRLAFLNSFLDFAGYLERFGGELTENRPNNENNYVQNGYINGTRETSANTDGDL
HKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALEEKVLDQYTFA
K(+)
MLGATFASRISRTLRASFAKVYWSRTFSSSAEKEVIRSRMSELRSSLFLTGDQMCLYVVYSSSE
SSALQYPMLLKTTSSFLCKSPSVLADVSLVPFMYPF*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	56084006-56089991(+) 56084035-56089627(-)
Potential amino acid sequence	MREAKVAPNIQELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSS PISREKSQGLDPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQL VKENFDCFVSCKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEK IRSVQGMLQRFRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQ EFRGMLYKSMEDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRME VLQNKIREKVLSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTS VLIQHVPAFWRLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASM VRDTISAFDTKVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMT KLYVLRLCSWMRATTKEISKDDTWVILSTLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNL MSETAKSYDISQPLQEINESVRLAFLNSFLDFAGYLERFGGELTENRPNNENNYVQNGYINGTR ETSANTDGDLHKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALE EKVLDQYTFAKLARRVREMREAKVAPNIQELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGL GVIDNKSLRLITDASVSSPISREKSQGLDPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAG ALTLKTDLKGRTQQKKQLVKENFDCFVSCKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISG VANRAFEPLFERQAQAEKIRSVQGMLQRFRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLP SHVGILKRVLEEVEKVMQEFRGMLYKSMEDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNS RIHGLFEKCTQDHELRMEVLQNKIREKVLSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNF MAEEADSLRATYTRRLTSVLIQHVPAFWRLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDD KGGDVKYTNHTLDEVASMVRDTISAFDTKVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGK DSSPTAVKLLRTLHFQMTKLYVLRLCSWMRATTKEISKDDTWVILSTLERNKSPYAISCMPLEF RDIIISAMDRIDTMILNLMSETAKSYDISQPLQEINESVRLAFLNSFLDFAGYLERFGGELTEN RPNNENNYVQNGYINGTRETSANTDGDLHKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNN DERSSDMRDLMTSFSALEEKVLDQYTFAKLARRVREMREAKVAPNIQELDQKAAAAAAAARKAL TSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSSPISREKSQGLDPNMRDKVIYSSPSFDPK VFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQLVKENFDCFVSCKTTIDDIESKLRQIEED PEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEKIRSVQGMLQRFRTLFNLPSAIRGNIRKG EYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQEFRGMLYKSMEDPHLDFAELENIVRLLL ELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRMEVLQNKIREKVLSDSKWRQLQQDSNKSLE VDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTSVLIQHVPAFWRLALSVFSGKFAKTASGN VVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASMVRDTISAFDTKVQSTFRDFEECNILCPY MSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMTKLYVLRLCSWMRATTKEISKDDTWVILS TLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNLMSETAKSYDISQPLQEINESVRLAFLNS FLDFAGYLERFGGELTENRPNNENNYVQNGYINGTRETSANTDGDLHKKLLVVLSNIGYCKAEL SEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALEEKVLDQYTFAKLARRVREMREAKVAPNI QELDQKAAAAAAAARKALTSVQTLPKGVEVLDPLGLGVIDNKSLRLITDASVSSPISREKSQGL DPNMRDKVIYSSPSFDPKVFLSWVHKDTSAADLEAGALTLKTDLKGRTQQKKQLVKENFDCFVS CKTTIDDIESKLRQIEEDPEGAGTAHLYSVTQKISGVANRAFEPLFERQAQAEKIRSVQGMLQR FRTLFNLPSAIRGNIRKGEYDLAVREYQKAKSIVLPSHVGILKRVLEEVEKVMQEFRGMLYKSM EDPHLDFAELENIVRLLLELEPETDPVWHYLNIQNSRIHGLFEKCTQDHELRMEVLQNKIREKV LSDSKWRQLQQDSNKSLEVDSAICDSPRADQLSTNFMAEEADSLRATYTRRLTSVLIQHVPAFW RLALSVFSGKFAKTASGNVVSDSDMNAKPSANKNDDKGGDVKYTNHTLDEVASMVRDTISAFDT KVQSTFRDFEECNILCPYMSDTIKEIAKACQTLEGKDSSPTAVKLLRTLHFQMTKLYVLRLCSW MRATTKEISKDDTWVILSTLERNKSPYAISCMPLEFRDIIISAMDRIDTMILNLMSETAKSYDI SQPLQEINESVRLAFLNSFLDFAGYLERFGGELTENRPNNENNYVQNGYINGTRETSANTDGDL HKKLLVVLSNIGYCKAELSEELYTTYRHIWSPVRNNDERSSDMRDLMTSFSALEEKVLDQYTFA K(+) MLGATFASRISRTLRASFAKVYWSRTFSSSAEKEVIRSRMSELRSSLFLTGDQMCLYVVYSSSE SSALQYPMLLKTTSSFLCKSPSVLADVSLVPFMYPF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d003713_circ_g.1

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