Plant Circular RNA Database

Detail information of Zm00001d051507_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d051507_circ_g.2
					

						ID in PlantcircBase
						zma_circ_008126
					

						Alias
						Zm04circ00061
					

						Organism
						
							Zea mays						
					

						Position
						
							chr4: 160687990-160699097  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							ue-circRNA							
									
								

					

						Identification method
						CIRI2
					

						Parent gene
						
							Zm00001d051507						
					

						Parent gene annotation
						
							Protein PHOTOPERIOD-INDEPENDENT EARLY FLOWERING 1
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d051507_circ_g.1 Zm00001d051507_circ_g.3 						
					

						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
						Zm00001d051507_T066:18
Zm00001d051507_T009:18
Zm00001d051507_T016:17
Zm00001d051507_T052:19
Zm00001d051507_T017:17
Zm00001d051507_T074:18
Zm00001d051507_T082:16
Zm00001d051507_T014:14
Zm00001d051507_T039:18
Zm00001d051507_T028:18
Zm00001d051507_T026:18
Zm00001d051507_T005:18
Zm00001d051507_T083:15
Zm00001d051507_T010:4
Zm00001d051507_T022:17
Zm00001d051507_T013:11
Zm00001d051507_T015:15
Zm00001d051507_T085:3
Zm00001d051507_T030:18
Zm00001d051507_T058:9
Zm00001d051507_T011:4
Zm00001d051507_T019:17
Zm00001d051507_T053:18
Zm00001d051507_T008:17
Zm00001d051507_T034:16
Zm00001d051507_T076:18
Zm00001d051507_T049:12
Zm00001d051507_T023:17
Zm00001d051507_T057:7
Zm00001d051507_T070:15
Zm00001d051507_T071:12
Zm00001d051507_T020:5
Zm00001d051507_T024:18
Zm00001d051507_T018:18
Zm00001d051507_T044:14
Zm00001d051507_T075:18
Zm00001d051507_T003:18
Zm00001d051507_T069:15
Zm00001d051507_T061:12
Zm00001d051507_T072:18
Zm00001d051507_T012:11
Zm00001d051507_T073:18
Zm00001d051507_T006:17
Zm00001d051507_T031:18
Zm00001d051507_T001:18
Zm00001d051507_T043:17
Zm00001d051507_T047:18
Zm00001d051507_T038:11
Zm00001d051507_T054:14
Zm00001d051507_T035:17
Zm00001d051507_T062:13
Zm00001d051507_T084:14
Zm00001d051507_T033:18
Zm00001d051507_T007:18
Zm00001d051507_T037:10
Zm00001d051507_T021:10
Zm00001d051507_T041:18
Zm00001d051507_T064:14
Zm00001d051507_T051:18

					

			
		

General Information
CircRNA Name	Zm00001d051507_circ_g.2
ID in PlantcircBase	zma_circ_008126
Alias	Zm04circ00061
Organism	Zea mays
Position	chr4: 160687990-160699097 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d051507
Parent gene annotation	Protein PHOTOPERIOD-INDEPENDENT EARLY FLOWERING 1
Parent gene strand	-
Alternative splicing	Zm00001d051507_circ_g.1 Zm00001d051507_circ_g.3
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	Zm00001d051507_T066:18 Zm00001d051507_T009:18 Zm00001d051507_T016:17 Zm00001d051507_T052:19 Zm00001d051507_T017:17 Zm00001d051507_T074:18 Zm00001d051507_T082:16 Zm00001d051507_T014:14 Zm00001d051507_T039:18 Zm00001d051507_T028:18 Zm00001d051507_T026:18 Zm00001d051507_T005:18 Zm00001d051507_T083:15 Zm00001d051507_T010:4 Zm00001d051507_T022:17 Zm00001d051507_T013:11 Zm00001d051507_T015:15 Zm00001d051507_T085:3 Zm00001d051507_T030:18 Zm00001d051507_T058:9 Zm00001d051507_T011:4 Zm00001d051507_T019:17 Zm00001d051507_T053:18 Zm00001d051507_T008:17 Zm00001d051507_T034:16 Zm00001d051507_T076:18 Zm00001d051507_T049:12 Zm00001d051507_T023:17 Zm00001d051507_T057:7 Zm00001d051507_T070:15 Zm00001d051507_T071:12 Zm00001d051507_T020:5 Zm00001d051507_T024:18 Zm00001d051507_T018:18 Zm00001d051507_T044:14 Zm00001d051507_T075:18 Zm00001d051507_T003:18 Zm00001d051507_T069:15 Zm00001d051507_T061:12 Zm00001d051507_T072:18 Zm00001d051507_T012:11 Zm00001d051507_T073:18 Zm00001d051507_T006:17 Zm00001d051507_T031:18 Zm00001d051507_T001:18 Zm00001d051507_T043:17 Zm00001d051507_T047:18 Zm00001d051507_T038:11 Zm00001d051507_T054:14 Zm00001d051507_T035:17 Zm00001d051507_T062:13 Zm00001d051507_T084:14 Zm00001d051507_T033:18 Zm00001d051507_T007:18 Zm00001d051507_T037:10 Zm00001d051507_T021:10 Zm00001d051507_T041:18 Zm00001d051507_T064:14 Zm00001d051507_T051:18

			
						 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  
						
							CGCCTAGCTCTTGTCTCATGGTCTAACTTTGACCGGGGACCTTTTGACGCCATCTTTCCAATCC
TATATCATATCTTAGAGCATGAGCACCGAACTGGTActcagacactctaagtatagcctttcca
gtcccagaaggaaccttttcactgttagaattatctgttgctgacattccatgtttgcagaaca
gttctctg

						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	CGCCTAGCTCTTGTCTCATGGTCTAACTTTGACCGGGGACCTTTTGACGCCATCTTTCCAATCC TATATCATATCTTAGAGCATGAGCACCGAACTGGTActcagacactctaagtatagcctttcca gtcccagaaggaaccttttcactgttagaattatctgttgctgacattccatgtttgcagaaca gttctctg
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
						0.180746439

Conservation Information
Conserved circRNAs	NA
PMCS	0.180746439

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							160699081-160688058(+)
160688224-160699075(-)
160699052-160699022(-)
						
					

						Potential amino acid sequence
						
							MSTELVLRHSKYSLSSPRRNLFTVRIICC*(+)
MQFFVELFMSMVHFGNWQVIFFIFCQAVPCIGEDIIILCIAVRDTENCSANMECQQQIILTVKR
FLLGLERLYLECLSTSSVLML*(-)
MASKGPRSKLDHETRARRQKALEAPREPRRPKVHWDHVLAEMMWLSKEFDSERKWKLSMAKKIA
QRANKSIVDQATKGERKQKEKEHRMRKVALNISKDVKKFWIKIEKLVVYKHQLELEERKKKALD
KQLDFLLGQTERYSTMLAENLVDMPYPENLENRTSQINQRSHQEEVPEKNLNATISDDFDNMEV
DDDYESSLDEEPEDDEHTIDEDEAQITEAERNEELAALEAEADLPLDVILKMYTKTKVSREGSP
DSKDMLSNLGSKILIVDSLKQANGRDHEPAHSSSEDGNSSEEVDDGHSYAEFVKKNHGKSNGNI
SSINDQEDKDYIATEEVKDDEATLSEEEELAKKEDPDYLEEVKLLQKESEIPLEELLARYREDG
CADHETAELKNSPHFVEEVNTDMSLDDQSVSILEAKSDLFVDHQSRDVLETEDTAPRSEIASEP
CAKQNFDEENNLTDVKTVNGDKSDDVKSDDVIADAAAAARSAQPTGNTFLTTKVRTKFPFLLKH
SLREYQHIGLDWLVAMYEKRLNGILADEMGLGKTIMTISLLAHLACEKGIWGPHLIVVPTSVML
NWETEFLKWCPAFKILTYFGSAKERKQKRQGWMKPNFFHVCITTYRLVIQDSKVFKRKKWKYLI
LDEAHLIKNWKSQRWQTLLNFNSKRRILLTGTPLQNDLMELWSLMHFLMPHVFQSHQEFKDWFC
NPISGMVEGQDKVNKEIIDRLHNVLRPFILRRLKRDVEKQLPKKQEHVIYCRLSRRQRNLYEDF
IASSETQATLASGNYFGMISIIMQLRKVCNHPDLFEGRPIISSFDMAGINMQLSYSVCMLLDKS
PFSQVGLSDMNLVFTQNEFSMSSWEADEVISAFPLSTTSWNHDLDTFCSNKDRQGSNLTNIFED
IQKALQEERIKESRERAASIAWWNRVRCQKRPVYGTNMIHVLTVKHHVSNILDKRNNPLCHMDY
SSSLADLVLPSVERFQKMLDIVESFTFAIPAARAPPPVCWYSKGNSPVFIDPAYREKCMNEFSP
ILSPIRSAIVRRQVYFPDRRLIQFDCGKLQELAILLRRLKSEGHRALIFTQMTKMLDVLEEFIN
LYGYTYLRLDGSTPPEERQTLMQRFNTNPKFFLFILSTRSGGVGINLVGADTVIFYDSDWNPAM
DQQAQDRCHRIGQTREVHIYRLISESTIEENILKKANQKRALDDLVIQRGSYNTEFFKKLDPME
FFSGHTSLHAEDQEKNCSTTSGVSNDVDLALSIADVEAAIRQAEDEADYMALKKLEEEEAVDNQ
EFSEEAAGRQEEDELVNEENGKPDEHINEEQKYNSSDVEKEKHITLSTNRLNKEKALTLAVGDE
DTDMLADVKQMAAAAAAAGQASSSFENQLRPIDRYAMRFMELWDPVIDKAALNHQVNVEEEEWE
LDRIEKFKEDLEAEIDEDQEPLSYESWDVDFATTAYRQHVEALTQKQLLEEQERQAQEATKELE
EKNDNMSSHHRKSKKNKKKTGKLKPLKRVRLSPESEVILEETSVDNAPSPELTSDESPHHYCNK
RKKITVATEENSNSRSLKKLKKTTKSSFISEALSPRLKEDLNDSDSKSVGRTKSDGRFFIPCMP
VKRVIVIKPERLKRKGIWSRDCASDSWSSEEDAVLCGTVHEYGPLWELASDFLHFLPGGSLYRG
RYHHPVHCCERYRELFCKHGMSATDNSNSEKVPSGTGKAILRVSEYQFGAHALRYDIGLERWRQ
KVPGQS*(-)
						
					

						Sponge-miRNAs
						
							zma-miR394b-3p 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	160699081-160688058(+) 160688224-160699075(-) 160699052-160699022(-)
Potential amino acid sequence	MSTELVLRHSKYSLSSPRRNLFTVRIICC(+) MQFFVELFMSMVHFGNWQVIFFIFCQAVPCIGEDIIILCIAVRDTENCSANMECQQQIILTVKR FLLGLERLYLECLSTSSVLML(-) MASKGPRSKLDHETRARRQKALEAPREPRRPKVHWDHVLAEMMWLSKEFDSERKWKLSMAKKIA QRANKSIVDQATKGERKQKEKEHRMRKVALNISKDVKKFWIKIEKLVVYKHQLELEERKKKALD KQLDFLLGQTERYSTMLAENLVDMPYPENLENRTSQINQRSHQEEVPEKNLNATISDDFDNMEV DDDYESSLDEEPEDDEHTIDEDEAQITEAERNEELAALEAEADLPLDVILKMYTKTKVSREGSP DSKDMLSNLGSKILIVDSLKQANGRDHEPAHSSSEDGNSSEEVDDGHSYAEFVKKNHGKSNGNI SSINDQEDKDYIATEEVKDDEATLSEEEELAKKEDPDYLEEVKLLQKESEIPLEELLARYREDG CADHETAELKNSPHFVEEVNTDMSLDDQSVSILEAKSDLFVDHQSRDVLETEDTAPRSEIASEP CAKQNFDEENNLTDVKTVNGDKSDDVKSDDVIADAAAAARSAQPTGNTFLTTKVRTKFPFLLKH SLREYQHIGLDWLVAMYEKRLNGILADEMGLGKTIMTISLLAHLACEKGIWGPHLIVVPTSVML NWETEFLKWCPAFKILTYFGSAKERKQKRQGWMKPNFFHVCITTYRLVIQDSKVFKRKKWKYLI LDEAHLIKNWKSQRWQTLLNFNSKRRILLTGTPLQNDLMELWSLMHFLMPHVFQSHQEFKDWFC NPISGMVEGQDKVNKEIIDRLHNVLRPFILRRLKRDVEKQLPKKQEHVIYCRLSRRQRNLYEDF IASSETQATLASGNYFGMISIIMQLRKVCNHPDLFEGRPIISSFDMAGINMQLSYSVCMLLDKS PFSQVGLSDMNLVFTQNEFSMSSWEADEVISAFPLSTTSWNHDLDTFCSNKDRQGSNLTNIFED IQKALQEERIKESRERAASIAWWNRVRCQKRPVYGTNMIHVLTVKHHVSNILDKRNNPLCHMDY SSSLADLVLPSVERFQKMLDIVESFTFAIPAARAPPPVCWYSKGNSPVFIDPAYREKCMNEFSP ILSPIRSAIVRRQVYFPDRRLIQFDCGKLQELAILLRRLKSEGHRALIFTQMTKMLDVLEEFIN LYGYTYLRLDGSTPPEERQTLMQRFNTNPKFFLFILSTRSGGVGINLVGADTVIFYDSDWNPAM DQQAQDRCHRIGQTREVHIYRLISESTIEENILKKANQKRALDDLVIQRGSYNTEFFKKLDPME FFSGHTSLHAEDQEKNCSTTSGVSNDVDLALSIADVEAAIRQAEDEADYMALKKLEEEEAVDNQ EFSEEAAGRQEEDELVNEENGKPDEHINEEQKYNSSDVEKEKHITLSTNRLNKEKALTLAVGDE DTDMLADVKQMAAAAAAAGQASSSFENQLRPIDRYAMRFMELWDPVIDKAALNHQVNVEEEEWE LDRIEKFKEDLEAEIDEDQEPLSYESWDVDFATTAYRQHVEALTQKQLLEEQERQAQEATKELE EKNDNMSSHHRKSKKNKKKTGKLKPLKRVRLSPESEVILEETSVDNAPSPELTSDESPHHYCNK RKKITVATEENSNSRSLKKLKKTTKSSFISEALSPRLKEDLNDSDSKSVGRTKSDGRFFIPCMP VKRVIVIKPERLKRKGIWSRDCASDSWSSEEDAVLCGTVHEYGPLWELASDFLHFLPGGSLYRG RYHHPVHCCERYRELFCKHGMSATDNSNSEKVPSGTGKAILRVSEYQFGAHALRYDIGLERWRQ KVPGQS*(-)
Sponge-miRNAs	zma-miR394b-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d051507_circ_g.2

Address

Any questions?

Supported by