Plant Circular RNA Database

Detail information of Zm00001d033726_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d033726_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006902
					
						Alias
						zma_circ_0000519, ZmciR45
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 272336044-272336583  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d033726						
					
						Parent gene annotation
						
							Probable serine/threonine protein kinase IREH1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d033726_circ_g.3 Zm00001d033726_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
						Zm00001d033726_T011:2
Zm00001d033726_T005:2
Zm00001d033726_T027:2
Zm00001d033726_T014:2
Zm00001d033726_T003:2
Zm00001d033726_T036:2
Zm00001d033726_T030:2
Zm00001d033726_T037:2
Zm00001d033726_T025:2
Zm00001d033726_T024:2
Zm00001d033726_T001:2
Zm00001d033726_T035:2
Zm00001d033726_T002:2
Zm00001d033726_T013:2
Zm00001d033726_T019:2
Zm00001d033726_T018:2
Zm00001d033726_T023:2
Zm00001d033726_T010:2
Zm00001d033726_T009:2
Zm00001d033726_T031:2
Zm00001d033726_T016:2
Zm00001d033726_T007:2

General Information
CircRNA Name	Zm00001d033726_circ_g.2
ID in PlantcircBase	zma_circ_006902
Alias	zma_circ_0000519, ZmciR45
Organism	Zea mays
Position	chr1: 272336044-272336583 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d033726
Parent gene annotation	Probable serine/threonine protein kinase IREH1
Parent gene strand	+
Alternative splicing	Zm00001d033726_circ_g.3 Zm00001d033726_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	Zm00001d033726_T011:2 Zm00001d033726_T005:2 Zm00001d033726_T027:2 Zm00001d033726_T014:2 Zm00001d033726_T003:2 Zm00001d033726_T036:2 Zm00001d033726_T030:2 Zm00001d033726_T037:2 Zm00001d033726_T025:2 Zm00001d033726_T024:2 Zm00001d033726_T001:2 Zm00001d033726_T035:2 Zm00001d033726_T002:2 Zm00001d033726_T013:2 Zm00001d033726_T019:2 Zm00001d033726_T018:2 Zm00001d033726_T023:2 Zm00001d033726_T010:2 Zm00001d033726_T009:2 Zm00001d033726_T031:2 Zm00001d033726_T016:2 Zm00001d033726_T007:2

			
						 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  
						
							AATTGATGACTTTGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCC
AAGAAAAGAACTACAGGAGATCTTTTTGCTATAAAGattgtcgaacttgctgatattgcacgat
gcatagcaaatacccctctggatgaagaaagcgcattatcccaaatggttacctgcatagaaga
tcttcaag

						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: 408
Transcript exons: 272336044-272336216,272336349-272336583
ATTGTCGAACTTGCTGATATTGCACGATGCATAGCAAATACCCCTCTGGATGAAGAAAGCGCAT
TATCCCAAATGGTTACCTGCATAGAAGATCTTCAAGAAATTGTCAACCGCAGGAAGCATGAGGC
CCTCACAGTCCAGACATTTGGAACACGCATAGAAAAACTACACAGGGAGAAGTATCTGCAGCTC
TGTGACTCAGTTGATATGGACAAGGTTGATTCAGCAAGCACCATAATGGATGAAGAAGATGATG
TTGTTCGTAGCTTGCGCGCAAGTCCTGTCCATCCAGTCAAGGATCGCACTTCAATTGATGACTT
TGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCCAAGAAAAGAACT
ACAGGAGATCTTTTTGCTATAAAG
						
						Genomic sequence
						
							ATTGTCGAACTTGCTGATATTGCACGATGCATAGCAAATACCCCTCTGGATGAAGAAAGCGCAT
TATCCCAAATGGTTACCTGCATAGAAGATCTTCAAGAAATTGTCAACCGCAGGAAGCATGAGGC
CCTCACAGTCCAGACATTTGGAACACGCATAGAAAAACTACACAGGTGAGATTTTTATTTGGAT
TTGGCCTTCTGTTTTCATTGATATCCTGACCACATAATAAAAATTATTCTTGTGGGCTACTTCA
TTTTAACTGCTCTAATTAATTCATCCTTCACATTTGTATAATCCTTCAGGGAGAAGTATCTGCA
GCTCTGTGACTCAGTTGATATGGACAAGGTTGATTCAGCAAGCACCATAATGGATGAAGAAGAT
GATGTTGTTCGTAGCTTGCGCGCAAGTCCTGTCCATCCAGTCAAGGATCGCACTTCAATTGATG
ACTTTGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCCAAGAAAAG
AACTACAGGAGATCTTTTTGCTATAAAG

Sequences
Splice junction sequence	AATTGATGACTTTGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCC AAGAAAAGAACTACAGGAGATCTTTTTGCTATAAAGattgtcgaacttgctgatattgcacgat gcatagcaaatacccctctggatgaagaaagcgcattatcccaaatggttacctgcatagaaga tcttcaag
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: 408 Transcript exons: 272336044-272336216,272336349-272336583 ATTGTCGAACTTGCTGATATTGCACGATGCATAGCAAATACCCCTCTGGATGAAGAAAGCGCAT TATCCCAAATGGTTACCTGCATAGAAGATCTTCAAGAAATTGTCAACCGCAGGAAGCATGAGGC CCTCACAGTCCAGACATTTGGAACACGCATAGAAAAACTACACAGGGAGAAGTATCTGCAGCTC TGTGACTCAGTTGATATGGACAAGGTTGATTCAGCAAGCACCATAATGGATGAAGAAGATGATG TTGTTCGTAGCTTGCGCGCAAGTCCTGTCCATCCAGTCAAGGATCGCACTTCAATTGATGACTT TGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCCAAGAAAAGAACT ACAGGAGATCTTTTTGCTATAAAG
Genomic sequence	ATTGTCGAACTTGCTGATATTGCACGATGCATAGCAAATACCCCTCTGGATGAAGAAAGCGCAT TATCCCAAATGGTTACCTGCATAGAAGATCTTCAAGAAATTGTCAACCGCAGGAAGCATGAGGC CCTCACAGTCCAGACATTTGGAACACGCATAGAAAAACTACACAGGTGAGATTTTTATTTGGAT TTGGCCTTCTGTTTTCATTGATATCCTGACCACATAATAAAAATTATTCTTGTGGGCTACTTCA TTTTAACTGCTCTAATTAATTCATCCTTCACATTTGTATAATCCTTCAGGGAGAAGTATCTGCA GCTCTGTGACTCAGTTGATATGGACAAGGTTGATTCAGCAAGCACCATAATGGATGAAGAAGAT GATGTTGTTCGTAGCTTGCGCGCAAGTCCTGTCCATCCAGTCAAGGATCGCACTTCAATTGATG ACTTTGAAATCATGAAACCTATTAGCCGTGGAGCATTTGGACGTGTTTTCTTGGCCAAGAAAAG AACTACAGGAGATCTTTTTGCTATAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_021247 osi_circ_005059 osi_circ_013503 						
					
						PMCS
						0.327291406

Conservation Information
Conserved circRNAs	osa_circ_021247 osi_circ_005059 osi_circ_013503
PMCS	0.327291406

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							272336117-272336580(+)
272336131-272336141(-)
272336109-272336578(-)
						
						Potential amino acid sequence
						
							MVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDKVDSASTIMDEEDDVVR
SLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIKIVELADIARCIANTPL
DEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDKVDSASTIM
DEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIKIVELADIA
RCIANTPLDEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDK
VDSASTIMDEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIK
IVELADIARCIANTPLDEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQL
CDSVDMDKVDSASTIMDEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRT
TGDLFAIK(+)
MQVTIWDNALSSSRGVFAMHRAISASSTIFIAKRSPVVLFLAKKTRPNAPRLIGFMISKSSIEV
RSLTGWTGLARKLRTTSSSSSIMVLAESTLSISTESQSCRYFSLCSFSMRVPNVWTVRASCFLR
LTIS*(-)
MRFLHPEGYLLCIVQYQQVRQSL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	272336117-272336580(+) 272336131-272336141(-) 272336109-272336578(-)
Potential amino acid sequence	MVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDKVDSASTIMDEEDDVVR SLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIKIVELADIARCIANTPL DEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDKVDSASTIM DEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIKIVELADIA RCIANTPLDEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQLCDSVDMDK VDSASTIMDEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRTTGDLFAIK IVELADIARCIANTPLDEESALSQMVTCIEDLQEIVNRRKHEALTVQTFGTRIEKLHREKYLQL CDSVDMDKVDSASTIMDEEDDVVRSLRASPVHPVKDRTSIDDFEIMKPISRGAFGRVFLAKKRT TGDLFAIK(+) MQVTIWDNALSSSRGVFAMHRAISASSTIFIAKRSPVVLFLAKKTRPNAPRLIGFMISKSSIEV RSLTGWTGLARKLRTTSSSSSIMVLAESTLSISTESQSCRYFSLCSFSMRVPNVWTVRASCFLR LTIS(-) MRFLHPEGYLLCIVQYQQVRQSL(-)
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 Zm00001d033726_circ_g.2

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