Plant Circular RNA Database

Detail information of Zm00001d013798_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d013798_circ_g.5
					
						ID in PlantcircBase
						zma_circ_008419
					
						Alias
						Zm05circ00021, GRMZM2G156748_C9
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 20571212-20572217  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d013798						
					
						Parent gene annotation
						
							Cycloartenol synthase  
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d013798_circ_g.3 Zm00001d013798_circ_g.4 Zm00001d013798_circ_g.6 Zm00001d013798_circ_g.7 						
					
						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
						Zm00001d013798_T001:4

General Information
CircRNA Name	Zm00001d013798_circ_g.5
ID in PlantcircBase	zma_circ_008419
Alias	Zm05circ00021, GRMZM2G156748_C9
Organism	Zea mays
Position	chr5: 20571212-20572217 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	Zm00001d013798
Parent gene annotation	Cycloartenol synthase
Parent gene strand	-
Alternative splicing	Zm00001d013798_circ_g.3 Zm00001d013798_circ_g.4 Zm00001d013798_circ_g.6 Zm00001d013798_circ_g.7
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	Zm00001d013798_T001:4

			
						 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  
						
							TTTAAAATACCTGCATGTTATAAATGTAGCGACATATCTCACGTATATGCTCTATTGACAAAAC
TTCATCCATTGATCGTGTGACATGTAATGCAAATATcttggcacaagaattgcaagccttgttc
cagttgatcttattatatggtatattgtagagctcatttcttatttctaaaatagttgtagtga
taggccca

									
								

					

						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: 642
Transcript exons: 20571212-20571378,20571528-20571717,20571849-20572043,20
572128-20572217
CTTGGCACAAGAATTGCAAGCCTTGTTCCAGTTGATCTTATTATATGGTATATTGTAGAGCTCA
TTTCTTATTTCTAAAATAGTTGTAGTGATAGGCCCAACAAACTTTTTTCCATAAATGTAAGCCA
TTGGCATGTAAACCATCCGACAAAAGCACCAAAACCTTCCAGGATGAATTGGGAGAAAATGTGG
AAGCATCCATAACTCAGGAATGATTGCATTGTTCCCAGCCCAATCGTATACACCTATCATCTTT
TGTTGAAAGCAACAATGGATTGCATTAATTTCACTCCACAACCATATATTTACAATGCCAAAGA
TGTTCATCGCAAGAATATTTTGCTTATCTAGTGAGAACGAGAGATATATCTTTGCCCATTGTGG
TGCTGCAGTTGCACTTCCATGAGACAAAATCCAAGAACGCCCTTTGGATAATGCATCATTTTCT
CCATCAAGCACCTCTCCTAGAATCCTTAAGGTTGCATAGTTTACACATGTGCCAAACATGGAGC
TTGGTCCCAAGGTATGTGTTCCCCAGCCTCCATCCTCATTCTGCATGTTATAAATGTAGCGACA
TATCTCACGTATATGCTCTATTGACAAAACTTCATCCATTGATCGTGTGACATGTAATGCAAAT
AT
						
					

						Genomic sequence
						
							CTTGGCACAAGAATTGCAAGCCTTGTTCCAGTTGATCTTATTATATGGTATATTGTAGAGCTCA
TTTCTTATTTCTAAAATAGTTGTAGTGATAGGCCCAACAAACTTTTTTCCATAAATGTAAGCCA
TTGGCATGTAAACCATCCGACAAAAGCACCAAAACCTTCCTAGAAACAATTATGTTAAGCACAA
ATTAAAGGGCGTAAGTGCATTCAAATATTTGTTTGATTAATTTGCACTATAATGAAACAAAAGT
TGGAACAAATATGCTTATGAACACATATGAGCTGAGAAATGTGGGATGAGGATAAAATACCAGG
ATGAATTGGGAGAAAATGTGGAAGCATCCATAACTCAGGAATGATTGCATTGTTCCCAGCCCAA
TCGTATACACCTATCATCTTTTGTTGAAAGCAACAATGGATTGCATTAATTTCACTCCACAACC
ATATATTTACAATGCCAAAGATGTTCATCGCAAGAATATTTTGCTTATCTAGTGAGAACTTACA
TTGTATTGCAAACTAATAAGAATAAAACTATGATAAGATGTCCATTCCATCTCTATTCAAGATC
TATTAATATTAAAGTTTAAACTATTTTTGTATTTATAAATTTTAATGACTTATTTGCATACCGA
GAGATATATCTTTGCCCATTGTGGTGCTGCAGTTGCACTTCCATGAGACAAAATCCAAGAACGC
CCTTTGGATAATGCATCATTTTCTCCATCAAGCACCTCTCCTAGAATCCTTAAGGTTGCATAGT
TTACACATGTGCCAAACATGGAGCTTGGTCCCAAGGTATGTGTTCCCCAGCCTCCATCCTCATT
CTGTACATATTATATTTCATAACATTTGTAAAGACATATTTTATGTATTCATTGTGTGGAAATT
TTAAGCAGACTTTAAAATACCTGCATGTTATAAATGTAGCGACATATCTCACGTATATGCTCTA
TTGACAAAACTTCATCCATTGATCGTGTGACATGTAATGCAAATAT
						
					

			
		

Sequences
Splice junction sequence	TTTAAAATACCTGCATGTTATAAATGTAGCGACATATCTCACGTATATGCTCTATTGACAAAAC TTCATCCATTGATCGTGTGACATGTAATGCAAATATcttggcacaagaattgcaagccttgttc cagttgatcttattatatggtatattgtagagctcatttcttatttctaaaatagttgtagtga taggccca
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: 642 Transcript exons: 20571212-20571378,20571528-20571717,20571849-20572043,20 572128-20572217 CTTGGCACAAGAATTGCAAGCCTTGTTCCAGTTGATCTTATTATATGGTATATTGTAGAGCTCA TTTCTTATTTCTAAAATAGTTGTAGTGATAGGCCCAACAAACTTTTTTCCATAAATGTAAGCCA TTGGCATGTAAACCATCCGACAAAAGCACCAAAACCTTCCAGGATGAATTGGGAGAAAATGTGG AAGCATCCATAACTCAGGAATGATTGCATTGTTCCCAGCCCAATCGTATACACCTATCATCTTT TGTTGAAAGCAACAATGGATTGCATTAATTTCACTCCACAACCATATATTTACAATGCCAAAGA TGTTCATCGCAAGAATATTTTGCTTATCTAGTGAGAACGAGAGATATATCTTTGCCCATTGTGG TGCTGCAGTTGCACTTCCATGAGACAAAATCCAAGAACGCCCTTTGGATAATGCATCATTTTCT CCATCAAGCACCTCTCCTAGAATCCTTAAGGTTGCATAGTTTACACATGTGCCAAACATGGAGC TTGGTCCCAAGGTATGTGTTCCCCAGCCTCCATCCTCATTCTGCATGTTATAAATGTAGCGACA TATCTCACGTATATGCTCTATTGACAAAACTTCATCCATTGATCGTGTGACATGTAATGCAAAT AT
Genomic sequence	CTTGGCACAAGAATTGCAAGCCTTGTTCCAGTTGATCTTATTATATGGTATATTGTAGAGCTCA TTTCTTATTTCTAAAATAGTTGTAGTGATAGGCCCAACAAACTTTTTTCCATAAATGTAAGCCA TTGGCATGTAAACCATCCGACAAAAGCACCAAAACCTTCCTAGAAACAATTATGTTAAGCACAA ATTAAAGGGCGTAAGTGCATTCAAATATTTGTTTGATTAATTTGCACTATAATGAAACAAAAGT TGGAACAAATATGCTTATGAACACATATGAGCTGAGAAATGTGGGATGAGGATAAAATACCAGG ATGAATTGGGAGAAAATGTGGAAGCATCCATAACTCAGGAATGATTGCATTGTTCCCAGCCCAA TCGTATACACCTATCATCTTTTGTTGAAAGCAACAATGGATTGCATTAATTTCACTCCACAACC ATATATTTACAATGCCAAAGATGTTCATCGCAAGAATATTTTGCTTATCTAGTGAGAACTTACA TTGTATTGCAAACTAATAAGAATAAAACTATGATAAGATGTCCATTCCATCTCTATTCAAGATC TATTAATATTAAAGTTTAAACTATTTTTGTATTTATAAATTTTAATGACTTATTTGCATACCGA GAGATATATCTTTGCCCATTGTGGTGCTGCAGTTGCACTTCCATGAGACAAAATCCAAGAACGC CCTTTGGATAATGCATCATTTTCTCCATCAAGCACCTCTCCTAGAATCCTTAAGGTTGCATAGT TTACACATGTGCCAAACATGGAGCTTGGTCCCAAGGTATGTGTTCCCCAGCCTCCATCCTCATT CTGTACATATTATATTTCATAACATTTGTAAAGACATATTTTATGTATTCATTGTGTGGAAATT TTAAGCAGACTTTAAAATACCTGCATGTTATAAATGTAGCGACATATCTCACGTATATGCTCTA TTGACAAAACTTCATCCATTGATCGTGTGACATGTAATGCAAATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106273208

Conservation Information
Conserved circRNAs	NA
PMCS	0.106273208

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20572192-20571214(-)
20571278-20572171(-)
						
						Potential amino acid sequence
						
							MDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALSKG
RSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVYDW
AGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIPYN
KINWNKACNSCAKIFALHVTRSMDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCV
NYATLRILGEVLDGENDALSKGRSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIW
LWSEINAIHCCFQQKMIGVYDWAGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKK
FVGPITTTILEIRNELYNIPYNKINWNKACNSCAKIFALHVTRSMDEVLSIEHIREICRYIYNM
QNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALSKGRSWILSHGSATAAPQWAKIY
LSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVYDWAGNNAIIPELWMLPHFLPIH
PGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIPYNKINWNKACNSCAKIFALHVT
RSMDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALS
KGRSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVY
DWAGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIP
YNKINWNKACNSCAK(-)
MSSTIYHIIRSTGTRLAILVPRYLHYMSHDQWMKFCQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	20572192-20571214(-) 20571278-20572171(-)
Potential amino acid sequence	MDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALSKG RSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVYDW AGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIPYN KINWNKACNSCAKIFALHVTRSMDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCV NYATLRILGEVLDGENDALSKGRSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIW LWSEINAIHCCFQQKMIGVYDWAGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKK FVGPITTTILEIRNELYNIPYNKINWNKACNSCAKIFALHVTRSMDEVLSIEHIREICRYIYNM QNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALSKGRSWILSHGSATAAPQWAKIY LSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVYDWAGNNAIIPELWMLPHFLPIH PGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIPYNKINWNKACNSCAKIFALHVT RSMDEVLSIEHIREICRYIYNMQNEDGGWGTHTLGPSSMFGTCVNYATLRILGEVLDGENDALS KGRSWILSHGSATAAPQWAKIYLSFSLDKQNILAMNIFGIVNIWLWSEINAIHCCFQQKMIGVY DWAGNNAIIPELWMLPHFLPIHPGRFWCFCRMVYMPMAYIYGKKFVGPITTTILEIRNELYNIP YNKINWNKACNSCAK(-) MSSTIYHIIRSTGTRLAILVPRYLHYMSHDQWMKFCQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d013798_circ_g.5

Address

Any questions?

Supported by