Plant Circular RNA Database

Detail information of Zm00001d050023_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d050023_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008030
					
						Alias
						zma_circ_0001799, GRMZM2G549512_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr4: 60703617-60704511  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d050023						
					
						Parent gene annotation
						
							Probable WRKY transcription factor 32
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d050023_circ_g.1 						
					
						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
						Zm00001d050023_T001:2

General Information
CircRNA Name	Zm00001d050023_circ_g.2
ID in PlantcircBase	zma_circ_008030
Alias	zma_circ_0001799, GRMZM2G549512_C1
Organism	Zea mays
Position	chr4: 60703617-60704511 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d050023
Parent gene annotation	Probable WRKY transcription factor 32
Parent gene strand	-
Alternative splicing	Zm00001d050023_circ_g.1
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	Zm00001d050023_T001:2

			
						 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  
						
							GCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAAGTGCATTTGTGCCTGTGCTGTAACACT
TGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCCctggggtttggatttcccttcacaattt
tctgtccatacttacgccatctgtatccatcactcatctttccagcctgcacaataatcttttg
ctctctaa

									
								

					

						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: 806
Transcript exons: 60703617-60703763,60703853-60704511
CTGGGGTTTGGATTTCCCTTCACAATTTTCTGTCCATACTTACGCCATCTGTATCCATCACTCA
TCTTTCCAGCCTGCACAATAATCTTTTGCTCTCTAACAGTTCTGCGAACCGGCGTTAAATTTGG
TGCTGTAGCCTCAAGTGTTCTTCGCTTTGGCAGGGCTTCCGCGCTAGGATGTTCATCTTCAGAT
TTGTTACCAGCATCCCCTTCGCAGTCACTTGAGCAAAAGAGATGCTGCTCAGAAGTTTCTGAGA
TGGCACTCCGTTCCAATTCACAGGTAGGCGTGCTAGATTCTACAATTTCTGTGTTCACAAGCCT
CAAGGTTTCGCCTCCAGAGGGAACACTAATAGGAGTCACTCTTTCCTTTGCAAATCTGGTCTTC
TGTGGTGGTTCATGATTATGGGCTCCTCTGTAAATGATTTCCACAACGCGGCCATCAGGGAAAT
GCTCAACCTTCTTTTTAGCGAGACAACCAGAGTTTGTGCATCTATAGTAGCTCCTGGAATTATC
ACTACTCTTCACCTGCTTCTGACCATATTTCCTCCAGTTGAAGCCATCAGCTACCATATTTACA
ACATGGTGTGATTTTGAATCAGATGAAAATGACTTGTCAGCAATTGGTGTACAAATATTTCCTT
CAGTTACTGATGGTGAATGCTGCAATGGCACTAGAGATCTTGGTGTCATATAAAATGGACTTGA
TGGCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAAGTGCATTTGTGCCTGTGCTGTAACA
CTTGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCC
						
					

						Genomic sequence
						
							CTGGGGTTTGGATTTCCCTTCACAATTTTCTGTCCATACTTACGCCATCTGTATCCATCACTCA
TCTTTCCAGCCTGCACAATAATCTTTTGCTCTCTAACAGTTCTGCGAACCGGCGTTAAATTTGG
TGCTGTAGCCTCAAGTGTTCTGTTCAAAGAACAATAGAGGATACAAAAGGTAAGAACAACAAAT
CAACATAGACATGAATGAATCAAATAGTCCAACAGTACAATGACCTTCGCTTTGGCAGGGCTTC
CGCGCTAGGATGTTCATCTTCAGATTTGTTACCAGCATCCCCTTCGCAGTCACTTGAGCAAAAG
AGATGCTGCTCAGAAGTTTCTGAGATGGCACTCCGTTCCAATTCACAGGTAGGCGTGCTAGATT
CTACAATTTCTGTGTTCACAAGCCTCAAGGTTTCGCCTCCAGAGGGAACACTAATAGGAGTCAC
TCTTTCCTTTGCAAATCTGGTCTTCTGTGGTGGTTCATGATTATGGGCTCCTCTGTAAATGATT
TCCACAACGCGGCCATCAGGGAAATGCTCAACCTTCTTTTTAGCGAGACAACCAGAGTTTGTGC
ATCTATAGTAGCTCCTGGAATTATCACTACTCTTCACCTGCTTCTGACCATATTTCCTCCAGTT
GAAGCCATCAGCTACCATATTTACAACATGGTGTGATTTTGAATCAGATGAAAATGACTTGTCA
GCAATTGGTGTACAAATATTTCCTTCAGTTACTGATGGTGAATGCTGCAATGGCACTAGAGATC
TTGGTGTCATATAAAATGGACTTGATGGCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAA
GTGCATTTGTGCCTGTGCTGTAACACTTGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCC
						
					

			
		

Sequences
Splice junction sequence	GCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAAGTGCATTTGTGCCTGTGCTGTAACACT TGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCCctggggtttggatttcccttcacaattt tctgtccatacttacgccatctgtatccatcactcatctttccagcctgcacaataatcttttg ctctctaa
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: 806 Transcript exons: 60703617-60703763,60703853-60704511 CTGGGGTTTGGATTTCCCTTCACAATTTTCTGTCCATACTTACGCCATCTGTATCCATCACTCA TCTTTCCAGCCTGCACAATAATCTTTTGCTCTCTAACAGTTCTGCGAACCGGCGTTAAATTTGG TGCTGTAGCCTCAAGTGTTCTTCGCTTTGGCAGGGCTTCCGCGCTAGGATGTTCATCTTCAGAT TTGTTACCAGCATCCCCTTCGCAGTCACTTGAGCAAAAGAGATGCTGCTCAGAAGTTTCTGAGA TGGCACTCCGTTCCAATTCACAGGTAGGCGTGCTAGATTCTACAATTTCTGTGTTCACAAGCCT CAAGGTTTCGCCTCCAGAGGGAACACTAATAGGAGTCACTCTTTCCTTTGCAAATCTGGTCTTC TGTGGTGGTTCATGATTATGGGCTCCTCTGTAAATGATTTCCACAACGCGGCCATCAGGGAAAT GCTCAACCTTCTTTTTAGCGAGACAACCAGAGTTTGTGCATCTATAGTAGCTCCTGGAATTATC ACTACTCTTCACCTGCTTCTGACCATATTTCCTCCAGTTGAAGCCATCAGCTACCATATTTACA ACATGGTGTGATTTTGAATCAGATGAAAATGACTTGTCAGCAATTGGTGTACAAATATTTCCTT CAGTTACTGATGGTGAATGCTGCAATGGCACTAGAGATCTTGGTGTCATATAAAATGGACTTGA TGGCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAAGTGCATTTGTGCCTGTGCTGTAACA CTTGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCC
Genomic sequence	CTGGGGTTTGGATTTCCCTTCACAATTTTCTGTCCATACTTACGCCATCTGTATCCATCACTCA TCTTTCCAGCCTGCACAATAATCTTTTGCTCTCTAACAGTTCTGCGAACCGGCGTTAAATTTGG TGCTGTAGCCTCAAGTGTTCTGTTCAAAGAACAATAGAGGATACAAAAGGTAAGAACAACAAAT CAACATAGACATGAATGAATCAAATAGTCCAACAGTACAATGACCTTCGCTTTGGCAGGGCTTC CGCGCTAGGATGTTCATCTTCAGATTTGTTACCAGCATCCCCTTCGCAGTCACTTGAGCAAAAG AGATGCTGCTCAGAAGTTTCTGAGATGGCACTCCGTTCCAATTCACAGGTAGGCGTGCTAGATT CTACAATTTCTGTGTTCACAAGCCTCAAGGTTTCGCCTCCAGAGGGAACACTAATAGGAGTCAC TCTTTCCTTTGCAAATCTGGTCTTCTGTGGTGGTTCATGATTATGGGCTCCTCTGTAAATGATT TCCACAACGCGGCCATCAGGGAAATGCTCAACCTTCTTTTTAGCGAGACAACCAGAGTTTGTGC ATCTATAGTAGCTCCTGGAATTATCACTACTCTTCACCTGCTTCTGACCATATTTCCTCCAGTT GAAGCCATCAGCTACCATATTTACAACATGGTGTGATTTTGAATCAGATGAAAATGACTTGTCA GCAATTGGTGTACAAATATTTCCTTCAGTTACTGATGGTGAATGCTGCAATGGCACTAGAGATC TTGGTGTCATATAAAATGGACTTGATGGCACTTCCGAACATGCAGATGGAGTTGGTGACTGCAA GTGCATTTGTGCCTGTGCTGTAACACTTGCCAAAGCTGCTTGATGAGTCATTGCAAACTGGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.166909343

Conservation Information
Conserved circRNAs	NA
PMCS	0.166909343

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							60704492-60704101(+)
60704501-60704498(-)
						
						Potential amino acid sequence
						
							MSHCKLALGFGFPFTIFCPYLRHLYPSLIFPACTIIFCSLTVLRTGVKFGAVASSVLRFGRASA
LGCSSSDLLPASPSQSLEQKRCCSEVSEMALRSNSQVGVLDSTISVFTSLKVSPPEGTLIGVTL
SFANLVFCGGS*(+)
MTHQAALASVTAQAQMHLQSPTPSACSEVPSSPFYMTPRSLVPLQHSPSVTEGNICTPIADKSF
SSDSKSHHVVNMVADGFNWRKYGQKQVKSSDNSRSYYRCTNSGCLAKKKVEHFPDGRVVEIIYR
GAHNHEPPQKTRFAKERVTPISVPSGGETLRLVNTEIVESSTPTCELERSAISETSEQHLFCSS
DCEGDAGNKSEDEHPSAEALPKRRTLEATAPNLTPVRRTVREQKIIVQAGKMSDGYRWRKYGQK
IVKGNPNPRASLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	60704492-60704101(+) 60704501-60704498(-)
Potential amino acid sequence	MSHCKLALGFGFPFTIFCPYLRHLYPSLIFPACTIIFCSLTVLRTGVKFGAVASSVLRFGRASA LGCSSSDLLPASPSQSLEQKRCCSEVSEMALRSNSQVGVLDSTISVFTSLKVSPPEGTLIGVTL SFANLVFCGGS(+) MTHQAALASVTAQAQMHLQSPTPSACSEVPSSPFYMTPRSLVPLQHSPSVTEGNICTPIADKSF SSDSKSHHVVNMVADGFNWRKYGQKQVKSSDNSRSYYRCTNSGCLAKKKVEHFPDGRVVEIIYR GAHNHEPPQKTRFAKERVTPISVPSGGETLRLVNTEIVESSTPTCELERSAISETSEQHLFCSS DCEGDAGNKSEDEHPSAEALPKRRTLEATAPNLTPVRRTVREQKIIVQAGKMSDGYRWRKYGQK IVKGNPNPRASLQ(-)
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 Zm00001d050023_circ_g.2

Address

Any questions?

Supported by