Plant Circular RNA Database

Detail information of Zm00001d021181_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d021181_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009391
					
						Alias
						zma_circ_0002577
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 145153431-145155162  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d021181						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d021181_circ_g.1 Zm00001d021181_circ_g.3 						
					
						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
						Zm00001d021181_T003:3
Zm00001d021181_T006:4
Zm00001d021181_T001:3
Zm00001d021181_T005:3
Zm00001d021181_T004:2
Zm00001d021181_T002:3

General Information
CircRNA Name	Zm00001d021181_circ_g.2
ID in PlantcircBase	zma_circ_009391
Alias	zma_circ_0002577
Organism	Zea mays
Position	chr7: 145153431-145155162 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d021181
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d021181_circ_g.1 Zm00001d021181_circ_g.3
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	Zm00001d021181_T003:3 Zm00001d021181_T006:4 Zm00001d021181_T001:3 Zm00001d021181_T005:3 Zm00001d021181_T004:2 Zm00001d021181_T002:3

			
						 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  
						
							TGTGGCAGGAGCTTCTTAAGTACAGGGAATCGGCACAAATAGCTGCTGCTGAAGCCATGCAAGA
AGCTTCCGCTGCAGAGAGCTTGCTCAGATGTTTGAGagtgatgcgcttaaggattcacgacaat
ggcttcattggtgcccggtgtcctcgtgaagctccttcagcatatgaacacggatgtaaaagtc
gccggcga

									
								

					

						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: 1333
Transcript exons: 145153431-145154404,145154686-145154952,145155071-145155
162
AGTGATGCGCTTAAGGATTCACGACAATGGCTTCATTGGTGCCCGGTGTCCTCGTGAAGCTCCT
TCAGCATATGAACACGGATGTAAAAGTCGCCGGCGAGCATCGCTCCTCGCTCCTTCAGGTTGTC
AGCATCGTCCCAGCGCTCGCCGGGAGCGATCTTTTCACCAACAAAGGCTTCTACCTCAAGGTGT
CGGATTCATCCCATGCGACCTACGTTTCCCTTCCAGAGGAACAGCATGATCTCATCTTGAGCGA
CAAGATTCAGCTGGGCCAGTTCATCCATGTAGACCGTCTAGAGGCTGCCACTCCTGTTCCCATC
CTTAGAGGAGTTCGCCCAGTTCCGGGTCGCCATGCTTGCGTTGGCACCCCTGAGGATCTTGTGG
TGACCAGCTCCTCCAGTTTTCATGGCAGCAAGAAAGCGCAACCATCAAATGGAACGAATGATGC
CAGCATCTTGTCGCTAGAAAAGGAAACGAGCAAATTGGAGAAAATAAATGCTTCACGTAAGCTT
ACCGGGACGGAAAATAAGAAGCCGATGCTCACCAAATCAAACTCTTCACTGTCAAGACAAGCTT
TGAATGTGATTGGTGATAAGAAGGAAGCGGTTAAATCAAAGGTGAAGCCAGCTATTACCAGGTC
TACACCTTCATCACCAACCAGTGTCTATTCTTTACCTGCGTCATTCGACAGATTCTCTAATGAT
CTGAAACAGAGGAACAGAGTAAAAGGAGCAGAGAAAGCTTCATCTTCTAGGCTTTCCTTGTTAG
AAAAGGCTGCTTCTGTTTTGAAGGCTACTAGTGCCGGGAGAAAGCCCTCTGCTGCCAATTCGAT
CAGTAGCTCTGTGTTAAGTATTGGATCAGGGCCAAAGGCCTTGAGAAGAAGCTGGGAAGGAAAC
ACGGATATTAAAGGAAAAGGCAATTCAGAATCAAAGACAGCCAAACCTGACAAGAAGTCTGATA
ACAAGATGCCAATGACTCCTAGACGAAAATCACCAGTGGACCAGAAGGTGCCACCTAAAGATGA
TAGCCAGAAAGCTGCTAGGAAGAGCACCGCAAGTGCTCCCTCAGATGACGCTGACAAAGCAGCC
AAGAAGCATATTCCTACTGTAAAGAGAACATCTGGGGTCTTAGGAAACTCGAATGTTACAAATC
TAGTGAAGATTCCTCCCAACCGCAAAAAACTAACAGATATTAGCACTTCATGGACATCACTCCC
TCCATCACTTGCCAAACTAGGAAAGGAGCTTCTTAAGTACAGGGAATCGGCACAAATAGCTGCT
GCTGAAGCCATGCAAGAAGCTTCCGCTGCAGAGAGCTTGCTCAGATGTTTGAG
						
					

						Genomic sequence
						
							AGTGATGCGCTTAAGGATTCACGACAATGGCTTCATTGGTGCCCGGTGTCCTCGTGAAGCTCCT
TCAGCATATGAACACGGATGTAAAAGTCGCCGGCGAGCATCGCTCCTCGCTCCTTCAGGTTGTC
AGCATCGTCCCAGCGCTCGCCGGGAGCGATCTTTTCACCAACAAAGGCTTCTACCTCAAGGTGT
CGGATTCATCCCATGCGACCTACGTTTCCCTTCCAGAGGAACAGCATGATCTCATCTTGAGCGA
CAAGATTCAGCTGGGCCAGTTCATCCATGTAGACCGTCTAGAGGCTGCCACTCCTGTTCCCATC
CTTAGAGGAGTTCGCCCAGTTCCGGGTCGCCATGCTTGCGTTGGCACCCCTGAGGATCTTGTGG
TGACCAGCTCCTCCAGTTTTCATGGCAGCAAGAAAGCGCAACCATCAAATGGAACGAATGATGC
CAGCATCTTGTCGCTAGAAAAGGAAACGAGCAAATTGGAGAAAATAAATGCTTCACGTAAGCTT
ACCGGGACGGAAAATAAGAAGCCGATGCTCACCAAATCAAACTCTTCACTGTCAAGACAAGCTT
TGAATGTGATTGGTGATAAGAAGGAAGCGGTTAAATCAAAGGTGAAGCCAGCTATTACCAGGTC
TACACCTTCATCACCAACCAGTGTCTATTCTTTACCTGCGTCATTCGACAGATTCTCTAATGAT
CTGAAACAGAGGAACAGAGTAAAAGGAGCAGAGAAAGCTTCATCTTCTAGGCTTTCCTTGTTAG
AAAAGGCTGCTTCTGTTTTGAAGGCTACTAGTGCCGGGAGAAAGCCCTCTGCTGCCAATTCGAT
CAGTAGCTCTGTGTTAAGTATTGGATCAGGGCCAAAGGCCTTGAGAAGAAGCTGGGAAGGAAAC
ACGGATATTAAAGGAAAAGGCAATTCAGAATCAAAGACAGCCAAACCTGACAAGAAGTCTGATA
ACAAGATGCCAATGGTATGTAAAATGCTGACTCTCTCTATCATTGTATAGATAATGCATTTAGT
TTGTGTCACTAGTGACCACTGTGTTCAGCCACTTTCTTCAGGCTGGTTCAACGTTTAGAATTCC
CAGTGATAATGGATCATACAATCTCATAATATCTGTTTATTACTATCTTGTCGATAACATCATG
TGTGGCAACTGGCAAGGAAATGTGATGGCGTTGTTCTCATTTGCACTGACCATTTATTTTTACT
CAAAATTAAAAAGATAATATGAACATTCTTAATATGCAGACTCCTAGACGAAAATCACCAGTGG
ACCAGAAGGTGCCACCTAAAGATGATAGCCAGAAAGCTGCTAGGAAGAGCACCGCAAGTGCTCC
CTCAGATGACGCTGACAAAGCAGCCAAGAAGCATATTCCTACTGTAAAGAGAACATCTGGGGTC
TTAGGAAACTCGAATGTTACAAATCTAGTGAAGATTCCTCCCAACCGCAAAAAACTAACAGATA
TTAGCACTTCATGGACATCACTCCCTCCATCACTTGCCAAACTAGGAAAGGTATAGCTAAAATT
CATTGACACAGCTGATATGATTTTAAACTTTTTGCTTGCACAGTATTAAGCATTTCTGAGTATT
TGAAATTTTGAATTGCCATACCCTGTTGTCTCTGTGGCAGGAGCTTCTTAAGTACAGGGAATCG
GCACAAATAGCTGCTGCTGAAGCCATGCAAGAAGCTTCCGCTGCAGAGAGCTTGCTCAGATGTT
TGAG
						
					

			
		

Sequences
Splice junction sequence	TGTGGCAGGAGCTTCTTAAGTACAGGGAATCGGCACAAATAGCTGCTGCTGAAGCCATGCAAGA AGCTTCCGCTGCAGAGAGCTTGCTCAGATGTTTGAGagtgatgcgcttaaggattcacgacaat ggcttcattggtgcccggtgtcctcgtgaagctccttcagcatatgaacacggatgtaaaagtc gccggcga
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: 1333 Transcript exons: 145153431-145154404,145154686-145154952,145155071-145155 162 AGTGATGCGCTTAAGGATTCACGACAATGGCTTCATTGGTGCCCGGTGTCCTCGTGAAGCTCCT TCAGCATATGAACACGGATGTAAAAGTCGCCGGCGAGCATCGCTCCTCGCTCCTTCAGGTTGTC AGCATCGTCCCAGCGCTCGCCGGGAGCGATCTTTTCACCAACAAAGGCTTCTACCTCAAGGTGT CGGATTCATCCCATGCGACCTACGTTTCCCTTCCAGAGGAACAGCATGATCTCATCTTGAGCGA CAAGATTCAGCTGGGCCAGTTCATCCATGTAGACCGTCTAGAGGCTGCCACTCCTGTTCCCATC CTTAGAGGAGTTCGCCCAGTTCCGGGTCGCCATGCTTGCGTTGGCACCCCTGAGGATCTTGTGG TGACCAGCTCCTCCAGTTTTCATGGCAGCAAGAAAGCGCAACCATCAAATGGAACGAATGATGC CAGCATCTTGTCGCTAGAAAAGGAAACGAGCAAATTGGAGAAAATAAATGCTTCACGTAAGCTT ACCGGGACGGAAAATAAGAAGCCGATGCTCACCAAATCAAACTCTTCACTGTCAAGACAAGCTT TGAATGTGATTGGTGATAAGAAGGAAGCGGTTAAATCAAAGGTGAAGCCAGCTATTACCAGGTC TACACCTTCATCACCAACCAGTGTCTATTCTTTACCTGCGTCATTCGACAGATTCTCTAATGAT CTGAAACAGAGGAACAGAGTAAAAGGAGCAGAGAAAGCTTCATCTTCTAGGCTTTCCTTGTTAG AAAAGGCTGCTTCTGTTTTGAAGGCTACTAGTGCCGGGAGAAAGCCCTCTGCTGCCAATTCGAT CAGTAGCTCTGTGTTAAGTATTGGATCAGGGCCAAAGGCCTTGAGAAGAAGCTGGGAAGGAAAC ACGGATATTAAAGGAAAAGGCAATTCAGAATCAAAGACAGCCAAACCTGACAAGAAGTCTGATA ACAAGATGCCAATGACTCCTAGACGAAAATCACCAGTGGACCAGAAGGTGCCACCTAAAGATGA TAGCCAGAAAGCTGCTAGGAAGAGCACCGCAAGTGCTCCCTCAGATGACGCTGACAAAGCAGCC AAGAAGCATATTCCTACTGTAAAGAGAACATCTGGGGTCTTAGGAAACTCGAATGTTACAAATC TAGTGAAGATTCCTCCCAACCGCAAAAAACTAACAGATATTAGCACTTCATGGACATCACTCCC TCCATCACTTGCCAAACTAGGAAAGGAGCTTCTTAAGTACAGGGAATCGGCACAAATAGCTGCT GCTGAAGCCATGCAAGAAGCTTCCGCTGCAGAGAGCTTGCTCAGATGTTTGAG
Genomic sequence	AGTGATGCGCTTAAGGATTCACGACAATGGCTTCATTGGTGCCCGGTGTCCTCGTGAAGCTCCT TCAGCATATGAACACGGATGTAAAAGTCGCCGGCGAGCATCGCTCCTCGCTCCTTCAGGTTGTC AGCATCGTCCCAGCGCTCGCCGGGAGCGATCTTTTCACCAACAAAGGCTTCTACCTCAAGGTGT CGGATTCATCCCATGCGACCTACGTTTCCCTTCCAGAGGAACAGCATGATCTCATCTTGAGCGA CAAGATTCAGCTGGGCCAGTTCATCCATGTAGACCGTCTAGAGGCTGCCACTCCTGTTCCCATC CTTAGAGGAGTTCGCCCAGTTCCGGGTCGCCATGCTTGCGTTGGCACCCCTGAGGATCTTGTGG TGACCAGCTCCTCCAGTTTTCATGGCAGCAAGAAAGCGCAACCATCAAATGGAACGAATGATGC CAGCATCTTGTCGCTAGAAAAGGAAACGAGCAAATTGGAGAAAATAAATGCTTCACGTAAGCTT ACCGGGACGGAAAATAAGAAGCCGATGCTCACCAAATCAAACTCTTCACTGTCAAGACAAGCTT TGAATGTGATTGGTGATAAGAAGGAAGCGGTTAAATCAAAGGTGAAGCCAGCTATTACCAGGTC TACACCTTCATCACCAACCAGTGTCTATTCTTTACCTGCGTCATTCGACAGATTCTCTAATGAT CTGAAACAGAGGAACAGAGTAAAAGGAGCAGAGAAAGCTTCATCTTCTAGGCTTTCCTTGTTAG AAAAGGCTGCTTCTGTTTTGAAGGCTACTAGTGCCGGGAGAAAGCCCTCTGCTGCCAATTCGAT CAGTAGCTCTGTGTTAAGTATTGGATCAGGGCCAAAGGCCTTGAGAAGAAGCTGGGAAGGAAAC ACGGATATTAAAGGAAAAGGCAATTCAGAATCAAAGACAGCCAAACCTGACAAGAAGTCTGATA ACAAGATGCCAATGGTATGTAAAATGCTGACTCTCTCTATCATTGTATAGATAATGCATTTAGT TTGTGTCACTAGTGACCACTGTGTTCAGCCACTTTCTTCAGGCTGGTTCAACGTTTAGAATTCC CAGTGATAATGGATCATACAATCTCATAATATCTGTTTATTACTATCTTGTCGATAACATCATG TGTGGCAACTGGCAAGGAAATGTGATGGCGTTGTTCTCATTTGCACTGACCATTTATTTTTACT CAAAATTAAAAAGATAATATGAACATTCTTAATATGCAGACTCCTAGACGAAAATCACCAGTGG ACCAGAAGGTGCCACCTAAAGATGATAGCCAGAAAGCTGCTAGGAAGAGCACCGCAAGTGCTCC CTCAGATGACGCTGACAAAGCAGCCAAGAAGCATATTCCTACTGTAAAGAGAACATCTGGGGTC TTAGGAAACTCGAATGTTACAAATCTAGTGAAGATTCCTCCCAACCGCAAAAAACTAACAGATA TTAGCACTTCATGGACATCACTCCCTCCATCACTTGCCAAACTAGGAAAGGTATAGCTAAAATT CATTGACACAGCTGATATGATTTTAAACTTTTTGCTTGCACAGTATTAAGCATTTCTGAGTATT TGAAATTTTGAATTGCCATACCCTGTTGTCTCTGTGGCAGGAGCTTCTTAAGTACAGGGAATCG GCACAAATAGCTGCTGCTGAAGCCATGCAAGAAGCTTCCGCTGCAGAGAGCTTGCTCAGATGTT TGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239765717

Conservation Information
Conserved circRNAs	NA
PMCS	0.239765717

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							145155155-145153484(+)
145153458-145153668(+)
						
						Potential amino acid sequence
						
							MFESDALKDSRQWLHWCPVSS*(+)
MASLVPGVLVKLLQHMNTDVKVAGEHRSSLLQVVSIVPALAGSDLFTNKGFYLKVSDSSHATYV
SLPEEQHDLILSDKIQLGQFIHVDRLEAATPVPILRGVRPVPGRHACVGTPEDLVVTSSSSFHG
SKKAQPSNGTNDASILSLEKETSKLEKINASRKLTGTENKKPMLTKSNSSLSRQALNVIGDKKE
AVKSKVKPAITRSTPSSPTSVYSLPASFDRFSNDLKQRNRVKGAEKASSSRLSLLEKAASVLKA
TSAGRKPSAANSISSSVLSIGSGPKALRRSWEGNTDIKGKGNSESKTAKPDKKSDNKMPMTPRR
KSPVDQKVPPKDDSQKAARKSTASAPSDDADKAAKKHIPTVKRTSGVLGNSNVTNLVKIPPNRK
KLTDISTSWTSLPPSLAKLGKELLKYRESAQIAAAEAMQEASAAESLLRCLRVMRLRIHDNGFI
GARCPREAPSAYEHGCKSRRRASLLAPSGCQHRPSARRERSFHQQRLLPQGVGFIPCDLRFPSR
GTA*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	145155155-145153484(+) 145153458-145153668(+)
Potential amino acid sequence	MFESDALKDSRQWLHWCPVSS(+) MASLVPGVLVKLLQHMNTDVKVAGEHRSSLLQVVSIVPALAGSDLFTNKGFYLKVSDSSHATYV SLPEEQHDLILSDKIQLGQFIHVDRLEAATPVPILRGVRPVPGRHACVGTPEDLVVTSSSSFHG SKKAQPSNGTNDASILSLEKETSKLEKINASRKLTGTENKKPMLTKSNSSLSRQALNVIGDKKE AVKSKVKPAITRSTPSSPTSVYSLPASFDRFSNDLKQRNRVKGAEKASSSRLSLLEKAASVLKA TSAGRKPSAANSISSSVLSIGSGPKALRRSWEGNTDIKGKGNSESKTAKPDKKSDNKMPMTPRR KSPVDQKVPPKDDSQKAARKSTASAPSDDADKAAKKHIPTVKRTSGVLGNSNVTNLVKIPPNRK KLTDISTSWTSLPPSLAKLGKELLKYRESAQIAAAEAMQEASAAESLLRCLRVMRLRIHDNGFI GARCPREAPSAYEHGCKSRRRASLLAPSGCQHRPSARRERSFHQQRLLPQGVGFIPCDLRFPSR GTA(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d021181_circ_g.2

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