Plant Circular RNA Database

Detail information of Zm00001d010946_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d010946_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009699
					
						Alias
						zma_circ_0002828, GRMZM2G034043_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr8: 134634172-134636851  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d010946						
					
						Parent gene annotation
						
							Tetratricopeptide repeat (TPR)-like superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d010946_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  
						
							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
						Zm00001d010946_T004:9
Zm00001d010946_T002:9
Zm00001d010946_T003:9
Zm00001d010946_T005:9
Zm00001d010946_T001:9

General Information
CircRNA Name	Zm00001d010946_circ_g.2
ID in PlantcircBase	zma_circ_009699
Alias	zma_circ_0002828, GRMZM2G034043_C1
Organism	Zea mays
Position	chr8: 134634172-134636851 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d010946
Parent gene annotation	Tetratricopeptide repeat (TPR)-like superfamily protein
Parent gene strand	+
Alternative splicing	Zm00001d010946_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	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	Zm00001d010946_T004:9 Zm00001d010946_T002:9 Zm00001d010946_T003:9 Zm00001d010946_T005:9 Zm00001d010946_T001:9

			
						 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  
						
							AGGGATGCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGCTCGAGTTCCACGCTTCGACT
TGATAATCATGTGCCTTTCATCCATGCACAAATTTGgaatataaggcgagatctactggaactt
caggaacttcgtctaaaagtttccgtgatctgtacaatatgaagtactcgagctacttaaacga
cgaaccaa

									
								

					

						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: 1054
Transcript exons: 134634172-134634300,134634399-134634523,134634818-134634
939,134635038-134635120,134635360-134635458,134635536-13
4635649,134636305-134636493,134636575-134636669,13463675
4-134636851
GAATATAAGGCGAGATCTACTGGAACTTCAGGAACTTCGTCTAAAAGTTTCCGTGATCTGTACA
ATATGAAGTACTCGAGCTACTTAAACGACGAACCAATGCCGGATGCTACATCGGAAAAGGAGCA
GGGAAATGAGTATTTCAAACAGAAGAAGTTCACTGATGCTATTGAATGCTACTCCAGAAGTATT
GGGCTGTCTCCTACAGCAGTCACATTTGCAAATAGAGCTATGGCATATCTTAAACTAAGAAGAT
TCAAGGAGGCAGAGGACGATTGCACTGAAGCTCTGAATCTGGATGATCGCTATATTAAAGCATA
CTCACGCCGAATTACTGCACGAAAAGAACTTGGGAAGCTTAAGGAGGCAATGGATGATGCTGAA
TTTGCTATCAGTCTTGATCCAAACAATTCAGAGCTAAGGAAGCAGTATTCTGAGATAAAAGCTT
TGCACATGGAGAAAATGGCTAAAAAGGTTCCAGTGCCAGCTAAACGTGCAGTTTCTGGAATTGA
TAAAACTGCAGATGTCACTTCTCACCCACCGACTATCTCCCAGAAGGACACTATTATGGAAGTT
GATCTGCCTGTTAGAGATGCAATGAAGATCAAAGAGAGTGCAAGCGTCAAGTCTAACGGAGGAC
CTGGAGTAATCATCAATGGCAATAACGTGCAGCTCCAAGGTCGAGATGCCAACCAGAAGACTGG
GCCAGAAGTTTCAGTCCAAGATCTTGCAGCTCGTGCTGCTTCACGGTATATGGCCGGCACTGTG
AAAAGCATTAAGACACCCAAAACAGCTTATGACTTTGAGGTTTCTTGGAGAGCTCTTTCTGATG
ACACTGCCCAGCAAATACAGTTACTAAAGTCGATTCCACCAGCAAGCCTACCAGAGATTTTCAA
GAACGCACTTTCTGCACCTTTTCTTATTGACATCGTGAAGTGTGCAGCCTCAATTTTCCGGGAT
GCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGCTCGAGTTCCACGCTTCGACTTGATAA
TCATGTGCCTTTCATCCATGCACAAATTTG
						
					

						Genomic sequence
						
							GAATATAAGGCGAGATCTACTGGAACTTCAGGAACTTCGTCTAAAAGTTTCCGTGATCTGTACA
ATATGAAGTACTCGAGCTACTTAAACGACGAACCAATGCCGGATGCTACATCGGAAAAGGAGCA
GGTTGTAATACTCAGGCTATTTAGTCCCTGCTTTGTAGGCTGTTTCACAAGCAAGCTTTGGTTA
AGCTACACCTGTTGCTTCCTATGTTTTATTTCCAGGGAAATGAGTATTTCAAACAGAAGAAGTT
CACTGATGCTATTGAATGCTACTCCAGAAGTATTGGGCTGTCTCCTACAGCAGTCACATTTGCA
AATAGAGCTATGGCATATCTTAAACTAAGAAGGCAAGTTACTCTGGGACTGTATGCATCCACTT
CACCTTATGCAATATCTTCATTTGTTCTGCTTTTACTAGAAGTACCCCATCTCGATTTAATCTG
AAGCCATATATTTTTATTAGCTCCAGCAATTTGAGACTGTAGGATAAGGCATATTTTTTGTATT
CTTGGTTCTTGTTATCTGTGCTATTTATAATATATTTTTACCTACCTGCTGTGTCCTGTGGAAC
CTGGAAGTTCCGTTTCCAAGAGGTTTTTTTTCCTGCTGTAGTCTTATATTATAGATATGTAATT
CATCAGATTCAAGGAGGCAGAGGACGATTGCACTGAAGCTCTGAATCTGGATGATCGCTATATT
AAAGCATACTCACGCCGAATTACTGCACGAAAAGAACTTGGGAAGCTTAAGGAGGCAATGGATG
GTATTCCATGCTAAAATGCTTCTGTATTTTTCTTTTTTATAATCTTCTTTTTTACTTTCTGAAT
ATTGACCTGAATTATACACCGATTATGTGTATAGATGCTGAATTTGCTATCAGTCTTGATCCAA
ACAATTCAGAGCTAAGGAAGCAGTATTCTGAGATAAAAGCTTTGCACATGGAGGTGAGGAAACT
CAACTTCAAATTGTTTCACCTTACACCTGCTTAGATTTTAGCAATTTACTACTCTTTGGTTATA
AATTTCACTTTCGCTCATTTTAACTGGAATAATGACAAAACATGGGCTTTTGAGTTGCATGGCT
TATGTGTGATTCAGTGGCATAACCATGTGGATGATCTCTGCAGGGATTGTAAATGTTTTTATCA
GTCTCATTAGCACTGATGGGCTTATTAATTCTGCAGAAAATGGCTAAAAAGGTTCCAGTGCCAG
CTAAACGTGCAGTTTCTGGAATTGATAAAACTGCAGATGTCACTTCTCACCCACCGACTATCTC
CCAGAAGGTAGGTTCAGCTGCAGTTATACAATGCCATGTCATGACTTTGCCCTTTTCAACAGAT
GACCGATTTAAATTCTACAGGACACTATTATGGAAGTTGATCTGCCTGTTAGAGATGCAATGAA
GATCAAAGAGAGTGCAAGCGTCAAGTCTAACGGAGGACCTGGAGTAATCATCAATGGCAATAAC
GTGCAGGTTTTTTTTTTATTTCTGTAGCCTTTCTGACCATTATAATAACCACAATCTGTGGACT
GTGGTATCTGTGTTGGTACTAGTTGTCATATTATGGCAAGTAAAAGCACCTATATGTACAATAG
GAGGTACTCAGGATGTCGTTTGGGAAGTTTTTCTTGCAATATTTATGAGATACAATGTGTCTTA
TTTAATTTGCTTGAAAAAACTGAATCCTTTGGATAAGGGAATAACTTAACATGTATTATTATCA
CACACCAATCTGGAACCAAAATAAGTTTGAAATTGCGTACTTGTTAAAACAGGCTTTAACTAGC
TTTTAATAGATGGTTTCCCATTTTAATGAGAAAAGAGAAGACCTCTGGAACCTCTGAGCTATGT
GCTGTTCACATTGGAGTGGAGCGTGATTGTTTGGGTGATTGGAGATCCTGCCCCAACCCACTGC
AAGCTGTAAATACACAACTGAATTCTCTAAGGGTTCTGGATCATGTTTATAAGTTCATTGTTTG
ACTGACTTGTTCTGTATCAATTGTCATGTTTTCTGTTTAACATTTTAAGACATCACTGCAATTG
CAATGACACATATATGTCTATTTTTCACAATTTGTTGGAAGTATTTCTGTTTCTGTGTCACATG
TTTCAACACTTGATGCAGCAGCTCCAAGGTCGAGATGCCAACCAGAAGACTGGGCCAGAAGTTT
CAGTCCAAGATCTTGCAGCTCGTGCTGCTTCACGGTATATGGCCGGCACTGTGAAAAGCATTAA
GACACCCAAAACAGCTTATGACTTTGAGGTTTCTTGGAGAGCTCTTTCTGATGACACTGCCCAG
CAAATACAGTTACTAAAGGTTTATTTCCAGCTACCTGTTTTTTTTTTACTGGCACCATTGTTTT
TATGTGTAATTTCCTGCCTGTTTGTTTTCAAGCAGTCGATTCCACCAGCAAGCCTACCAGAGAT
TTTCAAGAACGCACTTTCTGCACCTTTTCTTATTGACATCGTGAAGTGTGCAGCCTCAATTTTC
CGGTACGCTCACTTGTTATTTGTCCTTTTGCCATATGCCAGACTGGGCCCATGGTTGTTATACG
TAACTGTTGTTTACATACTCAGGGATGCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGC
TCGAGTTCCACGCTTCGACTTGATAATCATGTGCCTTTCATCCATGCACAAATTTG
						
					

			
		

Sequences
Splice junction sequence	AGGGATGCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGCTCGAGTTCCACGCTTCGACT TGATAATCATGTGCCTTTCATCCATGCACAAATTTGgaatataaggcgagatctactggaactt caggaacttcgtctaaaagtttccgtgatctgtacaatatgaagtactcgagctacttaaacga cgaaccaa
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: 1054 Transcript exons: 134634172-134634300,134634399-134634523,134634818-134634 939,134635038-134635120,134635360-134635458,134635536-13 4635649,134636305-134636493,134636575-134636669,13463675 4-134636851 GAATATAAGGCGAGATCTACTGGAACTTCAGGAACTTCGTCTAAAAGTTTCCGTGATCTGTACA ATATGAAGTACTCGAGCTACTTAAACGACGAACCAATGCCGGATGCTACATCGGAAAAGGAGCA GGGAAATGAGTATTTCAAACAGAAGAAGTTCACTGATGCTATTGAATGCTACTCCAGAAGTATT GGGCTGTCTCCTACAGCAGTCACATTTGCAAATAGAGCTATGGCATATCTTAAACTAAGAAGAT TCAAGGAGGCAGAGGACGATTGCACTGAAGCTCTGAATCTGGATGATCGCTATATTAAAGCATA CTCACGCCGAATTACTGCACGAAAAGAACTTGGGAAGCTTAAGGAGGCAATGGATGATGCTGAA TTTGCTATCAGTCTTGATCCAAACAATTCAGAGCTAAGGAAGCAGTATTCTGAGATAAAAGCTT TGCACATGGAGAAAATGGCTAAAAAGGTTCCAGTGCCAGCTAAACGTGCAGTTTCTGGAATTGA TAAAACTGCAGATGTCACTTCTCACCCACCGACTATCTCCCAGAAGGACACTATTATGGAAGTT GATCTGCCTGTTAGAGATGCAATGAAGATCAAAGAGAGTGCAAGCGTCAAGTCTAACGGAGGAC CTGGAGTAATCATCAATGGCAATAACGTGCAGCTCCAAGGTCGAGATGCCAACCAGAAGACTGG GCCAGAAGTTTCAGTCCAAGATCTTGCAGCTCGTGCTGCTTCACGGTATATGGCCGGCACTGTG AAAAGCATTAAGACACCCAAAACAGCTTATGACTTTGAGGTTTCTTGGAGAGCTCTTTCTGATG ACACTGCCCAGCAAATACAGTTACTAAAGTCGATTCCACCAGCAAGCCTACCAGAGATTTTCAA GAACGCACTTTCTGCACCTTTTCTTATTGACATCGTGAAGTGTGCAGCCTCAATTTTCCGGGAT GCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGCTCGAGTTCCACGCTTCGACTTGATAA TCATGTGCCTTTCATCCATGCACAAATTTG
Genomic sequence	GAATATAAGGCGAGATCTACTGGAACTTCAGGAACTTCGTCTAAAAGTTTCCGTGATCTGTACA ATATGAAGTACTCGAGCTACTTAAACGACGAACCAATGCCGGATGCTACATCGGAAAAGGAGCA GGTTGTAATACTCAGGCTATTTAGTCCCTGCTTTGTAGGCTGTTTCACAAGCAAGCTTTGGTTA AGCTACACCTGTTGCTTCCTATGTTTTATTTCCAGGGAAATGAGTATTTCAAACAGAAGAAGTT CACTGATGCTATTGAATGCTACTCCAGAAGTATTGGGCTGTCTCCTACAGCAGTCACATTTGCA AATAGAGCTATGGCATATCTTAAACTAAGAAGGCAAGTTACTCTGGGACTGTATGCATCCACTT CACCTTATGCAATATCTTCATTTGTTCTGCTTTTACTAGAAGTACCCCATCTCGATTTAATCTG AAGCCATATATTTTTATTAGCTCCAGCAATTTGAGACTGTAGGATAAGGCATATTTTTTGTATT CTTGGTTCTTGTTATCTGTGCTATTTATAATATATTTTTACCTACCTGCTGTGTCCTGTGGAAC CTGGAAGTTCCGTTTCCAAGAGGTTTTTTTTCCTGCTGTAGTCTTATATTATAGATATGTAATT CATCAGATTCAAGGAGGCAGAGGACGATTGCACTGAAGCTCTGAATCTGGATGATCGCTATATT AAAGCATACTCACGCCGAATTACTGCACGAAAAGAACTTGGGAAGCTTAAGGAGGCAATGGATG GTATTCCATGCTAAAATGCTTCTGTATTTTTCTTTTTTATAATCTTCTTTTTTACTTTCTGAAT ATTGACCTGAATTATACACCGATTATGTGTATAGATGCTGAATTTGCTATCAGTCTTGATCCAA ACAATTCAGAGCTAAGGAAGCAGTATTCTGAGATAAAAGCTTTGCACATGGAGGTGAGGAAACT CAACTTCAAATTGTTTCACCTTACACCTGCTTAGATTTTAGCAATTTACTACTCTTTGGTTATA AATTTCACTTTCGCTCATTTTAACTGGAATAATGACAAAACATGGGCTTTTGAGTTGCATGGCT TATGTGTGATTCAGTGGCATAACCATGTGGATGATCTCTGCAGGGATTGTAAATGTTTTTATCA GTCTCATTAGCACTGATGGGCTTATTAATTCTGCAGAAAATGGCTAAAAAGGTTCCAGTGCCAG CTAAACGTGCAGTTTCTGGAATTGATAAAACTGCAGATGTCACTTCTCACCCACCGACTATCTC CCAGAAGGTAGGTTCAGCTGCAGTTATACAATGCCATGTCATGACTTTGCCCTTTTCAACAGAT GACCGATTTAAATTCTACAGGACACTATTATGGAAGTTGATCTGCCTGTTAGAGATGCAATGAA GATCAAAGAGAGTGCAAGCGTCAAGTCTAACGGAGGACCTGGAGTAATCATCAATGGCAATAAC GTGCAGGTTTTTTTTTTATTTCTGTAGCCTTTCTGACCATTATAATAACCACAATCTGTGGACT GTGGTATCTGTGTTGGTACTAGTTGTCATATTATGGCAAGTAAAAGCACCTATATGTACAATAG GAGGTACTCAGGATGTCGTTTGGGAAGTTTTTCTTGCAATATTTATGAGATACAATGTGTCTTA TTTAATTTGCTTGAAAAAACTGAATCCTTTGGATAAGGGAATAACTTAACATGTATTATTATCA CACACCAATCTGGAACCAAAATAAGTTTGAAATTGCGTACTTGTTAAAACAGGCTTTAACTAGC TTTTAATAGATGGTTTCCCATTTTAATGAGAAAAGAGAAGACCTCTGGAACCTCTGAGCTATGT GCTGTTCACATTGGAGTGGAGCGTGATTGTTTGGGTGATTGGAGATCCTGCCCCAACCCACTGC AAGCTGTAAATACACAACTGAATTCTCTAAGGGTTCTGGATCATGTTTATAAGTTCATTGTTTG ACTGACTTGTTCTGTATCAATTGTCATGTTTTCTGTTTAACATTTTAAGACATCACTGCAATTG CAATGACACATATATGTCTATTTTTCACAATTTGTTGGAAGTATTTCTGTTTCTGTGTCACATG TTTCAACACTTGATGCAGCAGCTCCAAGGTCGAGATGCCAACCAGAAGACTGGGCCAGAAGTTT CAGTCCAAGATCTTGCAGCTCGTGCTGCTTCACGGTATATGGCCGGCACTGTGAAAAGCATTAA GACACCCAAAACAGCTTATGACTTTGAGGTTTCTTGGAGAGCTCTTTCTGATGACACTGCCCAG CAAATACAGTTACTAAAGGTTTATTTCCAGCTACCTGTTTTTTTTTTACTGGCACCATTGTTTT TATGTGTAATTTCCTGCCTGTTTGTTTTCAAGCAGTCGATTCCACCAGCAAGCCTACCAGAGAT TTTCAAGAACGCACTTTCTGCACCTTTTCTTATTGACATCGTGAAGTGTGCAGCCTCAATTTTC CGGTACGCTCACTTGTTATTTGTCCTTTTGCCATATGCCAGACTGGGCCCATGGTTGTTATACG TAACTGTTGTTTACATACTCAGGGATGCGGAGGCATTAGCTGTCAGTATTTTGGATAATTTGGC TCGAGTTCCACGCTTCGACTTGATAATCATGTGCCTTTCATCCATGCACAAATTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.148654432

Conservation Information
Conserved circRNAs	NA
PMCS	0.148654432

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							134634239-134634176(+)
						
						Potential amino acid sequence
						
							MKYSSYLNDEPMPDATSEKEQGNEYFKQKKFTDAIECYSRSIGLSPTAVTFANRAMAYLKLRRF
KEAEDDCTEALNLDDRYIKAYSRRITARKELGKLKEAMDDAEFAISLDPNNSELRKQYSEIKAL
HMEKMAKKVPVPAKRAVSGIDKTADVTSHPPTISQKDTIMEVDLPVRDAMKIKESASVKSNGGP
GVIINGNNVQLQGRDANQKTGPEVSVQDLAARAASRYMAGTVKSIKTPKTAYDFEVSWRALSDD
TAQQIQLLKSIPPASLPEIFKNALSAPFLIDIVKCAASIFRDAEALAVSILDNLARVPRFDLII
MCLSSMHKFGI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	134634239-134634176(+)
Potential amino acid sequence	MKYSSYLNDEPMPDATSEKEQGNEYFKQKKFTDAIECYSRSIGLSPTAVTFANRAMAYLKLRRF KEAEDDCTEALNLDDRYIKAYSRRITARKELGKLKEAMDDAEFAISLDPNNSELRKQYSEIKAL HMEKMAKKVPVPAKRAVSGIDKTADVTSHPPTISQKDTIMEVDLPVRDAMKIKESASVKSNGGP GVIINGNNVQLQGRDANQKTGPEVSVQDLAARAASRYMAGTVKSIKTPKTAYDFEVSWRALSDD TAQQIQLLKSIPPASLPEIFKNALSAPFLIDIVKCAASIFRDAEALAVSILDNLARVPRFDLII MCLSSMHKFGI*(+)
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 Zm00001d010946_circ_g.2

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