Plant Circular RNA Database

Detail information of Zm00001d047518_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d047518_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010044
					
						Alias
						zma_circ_0003080
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 133260744-133267028  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d047518						
					
						Parent gene annotation
						
							Nardilysin-like
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Zm00001d047518_T004:9
Zm00001d047518_T014:4
Zm00001d047518_T002:9
Zm00001d047518_T005:9
Zm00001d047518_T007:9
Zm00001d047518_T012:9
Zm00001d047518_T015:9
Zm00001d047518_T003:9
Zm00001d047518_T013:1
Zm00001d047518_T010:9

General Information
CircRNA Name	Zm00001d047518_circ_g.1
ID in PlantcircBase	zma_circ_010044
Alias	zma_circ_0003080
Organism	Zea mays
Position	chr9: 133260744-133267028 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d047518
Parent gene annotation	Nardilysin-like
Parent gene strand	-
Alternative splicing	NA
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	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	Zm00001d047518_T004:9 Zm00001d047518_T014:4 Zm00001d047518_T002:9 Zm00001d047518_T005:9 Zm00001d047518_T007:9 Zm00001d047518_T012:9 Zm00001d047518_T015:9 Zm00001d047518_T003:9 Zm00001d047518_T013:1 Zm00001d047518_T010:9

			
						 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  
						
							TGTATCCAATGTCCTGAAGTTCCTTGAATATCCATTCTTGTGGCTCAGACTGCTTAAGCAACTT
TATATATTGGTATACAGCACCAATGACCTCAAATACcttttatcagcgatctgagaccaataat
cactagtttggtagctaagtgaaggttccttttccagtttatcagctattaaaccacttctatg
gtgctcaa

									
								

					

						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: 1610
Transcript exons: 133260744-133260865,133261245-133261398,133261654-133261
760,133262158-133262361,133263076-133263258,133263890-13
3264039,133265576-133265952,133266635-133266790,13326687
2-133267028
CTTTTATCAGCGATCTGAGACCAATAATCACTAGTTTGGTAGCTAAGTGAAGGTTCCTTTTCCA
GTTTATCAGCTATTAAACCACTTCTATGGTGCTCAAAAGTCTCTTCATTGAGCTCGTCCAGCAG
AGCAGATAGACCATCAATGAAGTTATCAATCCGACTTTGCAGATAAATAGGACTGTATTTGGAG
GACATAACTCGAAAACAATAGGCCAGCATCCGGTAAGTCATCCTTGGGCTAGAGTCCACAGTAT
AACCAAGTTGCTCCTTGGTTCTTAGCTGATCAAAGCATGGTTCTTCAATAATGTTGCTAAAAAG
ATCTGTAATAGCTCTGAGCCTTGTTGCCTCCTTTCCAACGTCTTGTTCAATTGGGAAATAAACC
TCAACCACAGAATTTTCTTCAAGATCATTTTTCACGCGGACACTTCTAACCAAATTTGCACCAT
TAGGAATGCAAATAACTCTTTCCTCATGCCTTGCTTCCTCTGGCAGTGTCTGAGCAGAGAGAGT
ATTGAGAAATATTTTTGATATATTAATTGTCTCGTCTTCTGACAAGTTGCCATGACAAAGTCCC
TCAATGTGCAGCTGGGAAAGGATTTTCGGTACAAATGCTACTAGATCAGTAAATGTCAGTTTCA
TAAGTAGTTCTAGTTTTTTATCAACGTCCCAGAATATTTCACGCAAGACTTGTAGCCTTAAGTA
GGTAGAATGGCTCATAGGCTTCATGTTAGTGTTCTTGTAAGCTCTTTCCAAATCTTCTTTGATG
ACCTCGAATCTATCTGTTTTTGGAGAAAAGGATCGAACAGTAGACAAGATGTTGGACAGAAGAA
TGGGAAGCTTATCATTGTAACCATAAAGCTTTATCTCAAGTTTGCTAGCAACAACAGATGTTGA
AGTCTCCAATTTAGCCACATAAGCCTGATAAAGGACCTCATTAAGTTCATCTTTGAGAAGGTTT
GCAAAGAGATCTATCAGGACAGAGTTTTCAAGGCTACTATAGCCATCCTTGACATAAATCAAAA
AATAAGTGTTGGCACGAGGGACATTAAATGTCATGTCCATCTTGTACCAGAGTTTTATGAATGG
CTCATCCACTATGCAACGAGGGTTATCGTCGCTCGAGGATCCAGGAGAGTTGGCATTTCGCAGA
GTGAAGTCCCCTGGTATAAATTCATTCTTTCTAGGCAAATGCAAATTATCATCTACTTGAACAG
GATTTTTCCAACTTTCTATCAAAGATGATGGGATGTCCTCCTCAATGTAATGTGAACCAAACCA
TGGTTCACATTGAATAGCTTGGGACTGCTTATCAAATGATTTACTGAGTACATCAACTCTCATG
TTATCTGGATTGAAGAAGCTCAAAGCATGCTTCACTAATTCTGAATCCCAGTCCTCAAAAATAT
ACTCTCCACAAACAATGTGTTTTTCAGAATAAAATAGCATATTTTCTGCAAGATCAACTACATA
ATCATCTGGAGGTTGCTCTTCTGCGAACCTGAACTCCATGTATCCAATGTCCTGAAGTTCCTTG
AATATCCATTCTTGTGGCTCAGACTGCTTAAGCAACTTTATATATTGGTATACAGCACCAATGA
CCTCAAATAC
						
					

						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	TGTATCCAATGTCCTGAAGTTCCTTGAATATCCATTCTTGTGGCTCAGACTGCTTAAGCAACTT TATATATTGGTATACAGCACCAATGACCTCAAATACcttttatcagcgatctgagaccaataat cactagtttggtagctaagtgaaggttccttttccagtttatcagctattaaaccacttctatg gtgctcaa
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: 1610 Transcript exons: 133260744-133260865,133261245-133261398,133261654-133261 760,133262158-133262361,133263076-133263258,133263890-13 3264039,133265576-133265952,133266635-133266790,13326687 2-133267028 CTTTTATCAGCGATCTGAGACCAATAATCACTAGTTTGGTAGCTAAGTGAAGGTTCCTTTTCCA GTTTATCAGCTATTAAACCACTTCTATGGTGCTCAAAAGTCTCTTCATTGAGCTCGTCCAGCAG AGCAGATAGACCATCAATGAAGTTATCAATCCGACTTTGCAGATAAATAGGACTGTATTTGGAG GACATAACTCGAAAACAATAGGCCAGCATCCGGTAAGTCATCCTTGGGCTAGAGTCCACAGTAT AACCAAGTTGCTCCTTGGTTCTTAGCTGATCAAAGCATGGTTCTTCAATAATGTTGCTAAAAAG ATCTGTAATAGCTCTGAGCCTTGTTGCCTCCTTTCCAACGTCTTGTTCAATTGGGAAATAAACC TCAACCACAGAATTTTCTTCAAGATCATTTTTCACGCGGACACTTCTAACCAAATTTGCACCAT TAGGAATGCAAATAACTCTTTCCTCATGCCTTGCTTCCTCTGGCAGTGTCTGAGCAGAGAGAGT ATTGAGAAATATTTTTGATATATTAATTGTCTCGTCTTCTGACAAGTTGCCATGACAAAGTCCC TCAATGTGCAGCTGGGAAAGGATTTTCGGTACAAATGCTACTAGATCAGTAAATGTCAGTTTCA TAAGTAGTTCTAGTTTTTTATCAACGTCCCAGAATATTTCACGCAAGACTTGTAGCCTTAAGTA GGTAGAATGGCTCATAGGCTTCATGTTAGTGTTCTTGTAAGCTCTTTCCAAATCTTCTTTGATG ACCTCGAATCTATCTGTTTTTGGAGAAAAGGATCGAACAGTAGACAAGATGTTGGACAGAAGAA TGGGAAGCTTATCATTGTAACCATAAAGCTTTATCTCAAGTTTGCTAGCAACAACAGATGTTGA AGTCTCCAATTTAGCCACATAAGCCTGATAAAGGACCTCATTAAGTTCATCTTTGAGAAGGTTT GCAAAGAGATCTATCAGGACAGAGTTTTCAAGGCTACTATAGCCATCCTTGACATAAATCAAAA AATAAGTGTTGGCACGAGGGACATTAAATGTCATGTCCATCTTGTACCAGAGTTTTATGAATGG CTCATCCACTATGCAACGAGGGTTATCGTCGCTCGAGGATCCAGGAGAGTTGGCATTTCGCAGA GTGAAGTCCCCTGGTATAAATTCATTCTTTCTAGGCAAATGCAAATTATCATCTACTTGAACAG GATTTTTCCAACTTTCTATCAAAGATGATGGGATGTCCTCCTCAATGTAATGTGAACCAAACCA TGGTTCACATTGAATAGCTTGGGACTGCTTATCAAATGATTTACTGAGTACATCAACTCTCATG TTATCTGGATTGAAGAAGCTCAAAGCATGCTTCACTAATTCTGAATCCCAGTCCTCAAAAATAT ACTCTCCACAAACAATGTGTTTTTCAGAATAAAATAGCATATTTTCTGCAAGATCAACTACATA ATCATCTGGAGGTTGCTCTTCTGCGAACCTGAACTCCATGTATCCAATGTCCTGAAGTTCCTTG AATATCCATTCTTGTGGCTCAGACTGCTTAAGCAACTTTATATATTGGTATACAGCACCAATGA CCTCAAATAC
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
						0.104146249

Conservation Information
Conserved circRNAs	NA
PMCS	0.104146249

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							133266931-133266994(-)
						
						Potential amino acid sequence
						
							MEFRFAEEQPPDDYVVDLAENMLFYSEKHIVCGEYIFEDWDSELVKHALSFFNPDNMRVDVLSK
SFDKQSQAIQCEPWFGSHYIEEDIPSSLIESWKNPVQVDDNLHLPRKNEFIPGDFTLRNANSPG
SSSDDNPRCIVDEPFIKLWYKMDMTFNVPRANTYFLIYVKDGYSSLENSVLIDLFANLLKDELN
EVLYQAYVAKLETSTSVVASKLEIKLYGYNDKLPILLSNILSTVRSFSPKTDRFEVIKEDLERA
YKNTNMKPMSHSTYLRLQVLREIFWDVDKKLELLMKLTFTDLVAFVPKILSQLHIEGLCHGNLS
EDETINISKIFLNTLSAQTLPEEARHEERVICIPNGANLVRSVRVKNDLEENSVVEVYFPIEQD
VGKEATRLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRMLAYCFRVMSSKYSPIYL
QSRIDNFIDGLSALLDELNEETFEHHRSGLIADKLEKEPSLSYQTSDYWSQIADKRYLRSLVLY
TNI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	133266931-133266994(-)
Potential amino acid sequence	MEFRFAEEQPPDDYVVDLAENMLFYSEKHIVCGEYIFEDWDSELVKHALSFFNPDNMRVDVLSK SFDKQSQAIQCEPWFGSHYIEEDIPSSLIESWKNPVQVDDNLHLPRKNEFIPGDFTLRNANSPG SSSDDNPRCIVDEPFIKLWYKMDMTFNVPRANTYFLIYVKDGYSSLENSVLIDLFANLLKDELN EVLYQAYVAKLETSTSVVASKLEIKLYGYNDKLPILLSNILSTVRSFSPKTDRFEVIKEDLERA YKNTNMKPMSHSTYLRLQVLREIFWDVDKKLELLMKLTFTDLVAFVPKILSQLHIEGLCHGNLS EDETINISKIFLNTLSAQTLPEEARHEERVICIPNGANLVRSVRVKNDLEENSVVEVYFPIEQD VGKEATRLRAITDLFSNIIEEPCFDQLRTKEQLGYTVDSSPRMTYRMLAYCFRVMSSKYSPIYL QSRIDNFIDGLSALLDELNEETFEHHRSGLIADKLEKEPSLSYQTSDYWSQIADKRYLRSLVLY TNI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d047518_circ_g.1

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