Plant Circular RNA Database

Detail information of AT4G30190_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT4G30190_circ_g.9
					
						ID in PlantcircBase
						ath_circ_033611
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 14773146-14774646  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT4G30190						
					
						Parent gene annotation
						
							Plasma membrane ATPase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G30190_circ_g.5 AT4G30190_circ_g.6 AT4G30190_circ_g.7 AT4G30190_circ_g.8 AT4G30190_circ_g.10 AT4G30190_circ_g.11 AT4G30190_circ_g.12 AT4G30190_circ_g.13 						
					
						Support reads
						176
					
						Tissues
						whole_plant
					
						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
						AT4G30190.1:4
AT4G30190.2:4

General Information
CircRNA Name	AT4G30190_circ_g.9
ID in PlantcircBase	ath_circ_033611
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 14773146-14774646 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT4G30190
Parent gene annotation	Plasma membrane ATPase
Parent gene strand	-
Alternative splicing	AT4G30190_circ_g.5 AT4G30190_circ_g.6 AT4G30190_circ_g.7 AT4G30190_circ_g.8 AT4G30190_circ_g.10 AT4G30190_circ_g.11 AT4G30190_circ_g.12 AT4G30190_circ_g.13
Support reads	176
Tissues	whole_plant
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	AT4G30190.1:4 AT4G30190.2:4

			
						 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  
						
							CATCACCGTTGGCCAAAGCAATGGCCATGATTGCAGCCATTTCCATGACCCATGAAAGTGGATT
CCACATAAACCCCAAAAACTTCAGAAGTTTGCTTTCctggcgagcaacagccaacgacctaaga
ccacgctcagcatacttgtcaataatggagagcaccttcttgctaagatcattgctggctttgg
caagttcg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTGGCGAGCAACAGCCAACGACCTAAGACCACGCTCAGCATACTTGTCAATAATGGAGAGCACC
TTCTTGCTAAGATCATTGCTGGCTTTGGCAAGTTCGAGGATCTGTTGGGAGAATCAAATCAGTA
TAAAAAAGAAAGGTAAGAAAAAAAAAGGATTAGCTTGTAAAATTAAGATCCATCACCTGCTCAG
GAGCACCTTTACTGACTCTGTGCCAGTTACCACTGCCGTCAATGTAAGTCAAAGCAGTTCTCTT
ATCCACAGGGTTGAATGGAAGGAAGTGAACTTCCCTGATTCCAGCTCTAGCCTGTGAAAATCCC
AATCAAACATCAGAACATGTTTCTTGGACGCTCAGTAAAACTACAAATAACATGTGAACCAAAA
AGGGTTATACCTCCTTTGGATCAGCAAGCATCCCAACCATGGCTGCATCAATGGCATCCTGGTT
CTCAACCCTGGAAGCCATAGCTGCAAATAATAGGACTTGATCTTTCTCCACACCCTTGCAGAAA
ACCTCGACCAAGTTTTTGTCCACACTCAATTTGTTGAGGGTTAGTGTCCCGGTTTTGTCACTGC
ACAGGACATCCATTCCTGCCATCTCTTCAATGGCAGTCATACGCTTGGTGATGGCACCTTGCTG
AGACAACCTGTGAGACCCAATAGCCATGGTCACGGACAAGACTGTAGGCATAGCAATGGGGATA
CCACCGATCAAGAGGACCAAAAGGTTGTCAATTCCATCTCTGTACTTTCGGCGTTGGATCGGAT
ACATGACGATGATCTCAATCACCATACCGATAGCAATGGAACAGATACAGAAGTTCCCAATGGC
TGTAAGAACCTTCTGGAAATGTCCAACTTGGTTAGTGCTGTCCACAAGGTGAGCAGCTTTACCG
AAGAAGGTATGAACCCCAGTGGCAATAACAACCGCCTCGATTTCTCCTTGTTTGCAGGTTGAAC
CAGAGAAAACTTCTTGACCCGGGTGCTTGGTTACAGGAAGGGACTCTCCAGTTAGAGCAGATTG
GTCAACCTTTAAAGGATCACCTTCAAGTAGACGGGCATCAGCTGGGATAATGTCTCCTAATTTA
ATGCTAACAATATCTCCTGGGACAAGAATAGCAGCTTCTTGTTCACTCCACTTTCCATCCCTAA
GAACCTGAAACAGAGAAACATCACAACAAGAACCAAAACATTAGCTCTAGGGAAAATTCAGAAA
GTTCTGTATAACAAATTCACACCATTCATTCTCTTATCATATATATACCTTGGTTTTAGGAGCA
AGACCAGCCATAAGAGCAGCAGCAGCATTACCAGCATTGTTTTCTTCGATAAAACTGATGGTAG
AGTTGATAACCAACAGACAGATAATACCAACAAAATCCTGCCAATCCGGAGGCCTACCATCACC
GTTGGCCAAAGCAATGGCCATGATTGCAGCCATTTCCATGACCCATGAAAGTGGATTCCACATA
AACCCCAAAAACTTCAGAAGTTTGCTTTC
						
					

			
		

Sequences
Splice junction sequence	CATCACCGTTGGCCAAAGCAATGGCCATGATTGCAGCCATTTCCATGACCCATGAAAGTGGATT CCACATAAACCCCAAAAACTTCAGAAGTTTGCTTTCctggcgagcaacagccaacgacctaaga ccacgctcagcatacttgtcaataatggagagcaccttcttgctaagatcattgctggctttgg caagttcg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTGGCGAGCAACAGCCAACGACCTAAGACCACGCTCAGCATACTTGTCAATAATGGAGAGCACC TTCTTGCTAAGATCATTGCTGGCTTTGGCAAGTTCGAGGATCTGTTGGGAGAATCAAATCAGTA TAAAAAAGAAAGGTAAGAAAAAAAAAGGATTAGCTTGTAAAATTAAGATCCATCACCTGCTCAG GAGCACCTTTACTGACTCTGTGCCAGTTACCACTGCCGTCAATGTAAGTCAAAGCAGTTCTCTT ATCCACAGGGTTGAATGGAAGGAAGTGAACTTCCCTGATTCCAGCTCTAGCCTGTGAAAATCCC AATCAAACATCAGAACATGTTTCTTGGACGCTCAGTAAAACTACAAATAACATGTGAACCAAAA AGGGTTATACCTCCTTTGGATCAGCAAGCATCCCAACCATGGCTGCATCAATGGCATCCTGGTT CTCAACCCTGGAAGCCATAGCTGCAAATAATAGGACTTGATCTTTCTCCACACCCTTGCAGAAA ACCTCGACCAAGTTTTTGTCCACACTCAATTTGTTGAGGGTTAGTGTCCCGGTTTTGTCACTGC ACAGGACATCCATTCCTGCCATCTCTTCAATGGCAGTCATACGCTTGGTGATGGCACCTTGCTG AGACAACCTGTGAGACCCAATAGCCATGGTCACGGACAAGACTGTAGGCATAGCAATGGGGATA CCACCGATCAAGAGGACCAAAAGGTTGTCAATTCCATCTCTGTACTTTCGGCGTTGGATCGGAT ACATGACGATGATCTCAATCACCATACCGATAGCAATGGAACAGATACAGAAGTTCCCAATGGC TGTAAGAACCTTCTGGAAATGTCCAACTTGGTTAGTGCTGTCCACAAGGTGAGCAGCTTTACCG AAGAAGGTATGAACCCCAGTGGCAATAACAACCGCCTCGATTTCTCCTTGTTTGCAGGTTGAAC CAGAGAAAACTTCTTGACCCGGGTGCTTGGTTACAGGAAGGGACTCTCCAGTTAGAGCAGATTG GTCAACCTTTAAAGGATCACCTTCAAGTAGACGGGCATCAGCTGGGATAATGTCTCCTAATTTA ATGCTAACAATATCTCCTGGGACAAGAATAGCAGCTTCTTGTTCACTCCACTTTCCATCCCTAA GAACCTGAAACAGAGAAACATCACAACAAGAACCAAAACATTAGCTCTAGGGAAAATTCAGAAA GTTCTGTATAACAAATTCACACCATTCATTCTCTTATCATATATATACCTTGGTTTTAGGAGCA AGACCAGCCATAAGAGCAGCAGCAGCATTACCAGCATTGTTTTCTTCGATAAAACTGATGGTAG AGTTGATAACCAACAGACAGATAATACCAACAAAATCCTGCCAATCCGGAGGCCTACCATCACC GTTGGCCAAAGCAATGGCCATGATTGCAGCCATTTCCATGACCCATGAAAGTGGATTCCACATA AACCCCAAAAACTTCAGAAGTTTGCTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.533885403

Conservation Information
Conserved circRNAs	NA
PMCS	0.533885403

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							14774617-14773148(-)
						
					

						Potential amino acid sequence
						
							MWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNAGNAAAALMAGL
APKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSALTGESLPVTKHP
GQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGNFCICSIAIGMV
IEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGAITKRMTAIEEM
AGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDAIDAAMVGMLAD
PKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASNDLSKKVLSIID
KYAERGLRSLAVARQESKLLKFLGFMWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLL
VINSTISFIEENNAGNAAAALMAGLAPKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADAR
LLEGDPLKVDQSALTGESLPVTKHPGQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTN
QVGHFQKVLTAIGNFCICSIAIGMVIEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSV
TMAIGSHRLSQQGAITKRMTAIEEMAGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVL
LFAAMASRVENQDAIDAAMVGMLADPKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSK
GAPEQILELAKASNDLSKKVLSIIDKYAERGLRSLAVARQESKLLKFLGFMWNPLSWVMEMAAI
MAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNAGNAAAALMAGLAPKTKVLRDGKWSE
QEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSALTGESLPVTKHPGQEVFSGSTCKQGE
IEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGNFCICSIAIGMVIEIIVMYPIQRRKY
RDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGAITKRMTAIEEMAGMDVLCSDKTGTL
TLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDAIDAAMVGMLADPKEARAGIREVHFL
PFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASNDLSKKVLSIIDKYAERGLRSLAVAR
QESKLLKFLGFMWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNA
GNAAAALMAGLAPKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSAL
TGESLPVTKHPGQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGN
FCICSIAIGMVIEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGA
ITKRMTAIEEMAGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDA
IDAAMVGMLADPKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASN
DLSKKVLSIIDKYAERGLRSLAVARQ(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	14774617-14773148(-)
Potential amino acid sequence	MWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNAGNAAAALMAGL APKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSALTGESLPVTKHP GQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGNFCICSIAIGMV IEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGAITKRMTAIEEM AGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDAIDAAMVGMLAD PKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASNDLSKKVLSIID KYAERGLRSLAVARQESKLLKFLGFMWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLL VINSTISFIEENNAGNAAAALMAGLAPKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADAR LLEGDPLKVDQSALTGESLPVTKHPGQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTN QVGHFQKVLTAIGNFCICSIAIGMVIEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSV TMAIGSHRLSQQGAITKRMTAIEEMAGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVL LFAAMASRVENQDAIDAAMVGMLADPKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSK GAPEQILELAKASNDLSKKVLSIIDKYAERGLRSLAVARQESKLLKFLGFMWNPLSWVMEMAAI MAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNAGNAAAALMAGLAPKTKVLRDGKWSE QEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSALTGESLPVTKHPGQEVFSGSTCKQGE IEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGNFCICSIAIGMVIEIIVMYPIQRRKY RDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGAITKRMTAIEEMAGMDVLCSDKTGTL TLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDAIDAAMVGMLADPKEARAGIREVHFL PFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASNDLSKKVLSIIDKYAERGLRSLAVAR QESKLLKFLGFMWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLLVINSTISFIEENNA GNAAAALMAGLAPKTKVLRDGKWSEQEAAILVPGDIVSIKLGDIIPADARLLEGDPLKVDQSAL TGESLPVTKHPGQEVFSGSTCKQGEIEAVVIATGVHTFFGKAAHLVDSTNQVGHFQKVLTAIGN FCICSIAIGMVIEIIVMYPIQRRKYRDGIDNLLVLLIGGIPIAMPTVLSVTMAIGSHRLSQQGA ITKRMTAIEEMAGMDVLCSDKTGTLTLNKLSVDKNLVEVFCKGVEKDQVLLFAAMASRVENQDA IDAAMVGMLADPKEARAGIREVHFLPFNPVDKRTALTYIDGSGNWHRVSKGAPEQILELAKASN DLSKKVLSIIDKYAERGLRSLAVARQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT4G30190_circ_g.9

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