Plant Circular RNA Database

Detail information of AT1G20380_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G20380_circ_g.1
					
						ID in PlantcircBase
						ath_circ_003557
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 7062436-7063062  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT1G20380						
					
						Parent gene annotation
						
							Prolyl oligopeptidase family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 AT1G20150_circ_g.1 AT1G20160_circ_g.1 AT1G20190_circ_g.1 AT1G20190_circ_g.2 AT1G20190_circ_g.3 AT1G20200_circ_g.1 AT1G20200_circ_g.2 AT1G20200_circ_g.3 AT1G20220_circ_g.1 AT1G20220_circ_g.2 AT1G20220_circ_g.3 AT1G20220_circ_g.4 AT1G20220_circ_g.5 AT1G20220_circ_g.6 AT1G20225_circ_g.1 AT1G20260_circ_g.1 AT1G20260_circ_g.2 AT1G20260_circ_g.3 AT1G20260_circ_g.4 AT1G20260_circ_g.5 AT1G20270_circ_g.1 AT1G20270_circ_g.2 AT1G20270_circ_g.3 AT1G20330_circ_g.1 AT1G20340_circ_g.1 AT1G20340_circ_g.2 AT1G20340_circ_g.3 AT1G20340_circ_g.4 AT1G20340_circ_g.5 AT1G20340_circ_g.6 AT1G20370_circ_g.1 AT1G20370_circ_g.2 AT1G20380_circ_g.2 AT1G20410_circ_g.1 AT1G20410_circ_g.2 AT1G20410_circ_g.3 AT1G20440_circ_g.1 AT1G20440_circ_g.2 AT1G20440_circ_g.3 AT1G20440_circ_g.4 AT1G20440_circ_g.5 AT1G20440_circ_g.6 AT1G20440_circ_g.7 AT1G20440_circ_g.8 AT1G20440_circ_g.9 AT1G20440_circ_g.10 AT1G20440_circ_g.11 AT1G20440_circ_g.12 AT1G20440_circ_g.13 AT1G20440_circ_g.14 AT1G20440_circ_g.15 AT1G20440_circ_g.16 1_circ_ag.17 AT1G20440_circ_g.18 AT1G20440_circ_g.19 AT1G20440_circ_g.20 AT1G20450_circ_g.1 AT1G20450_circ_g.2 AT1G20450_circ_g.3 AT1G20450_circ_g.4 AT1G20450_circ_g.5 AT1G20450_circ_g.6 AT1G20450_circ_g.7 AT1G20450_circ_g.8 AT1G20450_circ_g.9 AT1G20450_circ_g.10 AT1G20450_circ_g.11 AT1G20450_circ_g.12 AT1G20510_circ_g.1 AT1G20540_circ_g.1 AT1G20550_circ_g.1 AT1G20550_circ_g.2 AT1G20550_circ_g.3 AT1G20575_circ_g.1 AT1G20575_circ_g.2 AT1G20575_circ_g.3 AT1G20580_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G20610_circ_g.1 AT1G20610_circ_g.2 AT1G20610_circ_g.3 AT1G20620_circ_g.1 AT1G20620_circ_g.2 AT1G20620_circ_g.3 AT1G20620_circ_g.4 AT1G20620_circ_g.5 AT1G20620_circ_g.6 AT1G20620_circ_g.7 AT1G20620_circ_g.8 1_circ_ag.9 AT1G20620_circ_g.10 AT1G20620_circ_g.11 AT1G20620_circ_g.12 AT1G20620_circ_g.13 1_circ_ag.14 AT1G20620_circ_g.15 AT1G20620_circ_g.16 AT1G20620_circ_g.17 AT1G20620_circ_g.18 AT1G20620_circ_g.19 AT1G20620_circ_g.20 AT1G20620_circ_g.21 AT1G20620_circ_g.22 AT1G20620_circ_g.23 1_circ_ag.24 						
					
						Support reads
						1
					
						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  
						
							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
						AT1G20380.2:3
AT1G20380.1:3

General Information
CircRNA Name	AT1G20380_circ_g.1
ID in PlantcircBase	ath_circ_003557
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 7062436-7063062 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	PcircRNA_finder
Parent gene	AT1G20380
Parent gene annotation	Prolyl oligopeptidase family protein
Parent gene strand	+
Alternative splicing	1_circ_ag.2 AT1G20150_circ_g.1 AT1G20160_circ_g.1 AT1G20190_circ_g.1 AT1G20190_circ_g.2 AT1G20190_circ_g.3 AT1G20200_circ_g.1 AT1G20200_circ_g.2 AT1G20200_circ_g.3 AT1G20220_circ_g.1 AT1G20220_circ_g.2 AT1G20220_circ_g.3 AT1G20220_circ_g.4 AT1G20220_circ_g.5 AT1G20220_circ_g.6 AT1G20225_circ_g.1 AT1G20260_circ_g.1 AT1G20260_circ_g.2 AT1G20260_circ_g.3 AT1G20260_circ_g.4 AT1G20260_circ_g.5 AT1G20270_circ_g.1 AT1G20270_circ_g.2 AT1G20270_circ_g.3 AT1G20330_circ_g.1 AT1G20340_circ_g.1 AT1G20340_circ_g.2 AT1G20340_circ_g.3 AT1G20340_circ_g.4 AT1G20340_circ_g.5 AT1G20340_circ_g.6 AT1G20370_circ_g.1 AT1G20370_circ_g.2 AT1G20380_circ_g.2 AT1G20410_circ_g.1 AT1G20410_circ_g.2 AT1G20410_circ_g.3 AT1G20440_circ_g.1 AT1G20440_circ_g.2 AT1G20440_circ_g.3 AT1G20440_circ_g.4 AT1G20440_circ_g.5 AT1G20440_circ_g.6 AT1G20440_circ_g.7 AT1G20440_circ_g.8 AT1G20440_circ_g.9 AT1G20440_circ_g.10 AT1G20440_circ_g.11 AT1G20440_circ_g.12 AT1G20440_circ_g.13 AT1G20440_circ_g.14 AT1G20440_circ_g.15 AT1G20440_circ_g.16 1_circ_ag.17 AT1G20440_circ_g.18 AT1G20440_circ_g.19 AT1G20440_circ_g.20 AT1G20450_circ_g.1 AT1G20450_circ_g.2 AT1G20450_circ_g.3 AT1G20450_circ_g.4 AT1G20450_circ_g.5 AT1G20450_circ_g.6 AT1G20450_circ_g.7 AT1G20450_circ_g.8 AT1G20450_circ_g.9 AT1G20450_circ_g.10 AT1G20450_circ_g.11 AT1G20450_circ_g.12 AT1G20510_circ_g.1 AT1G20540_circ_g.1 AT1G20550_circ_g.1 AT1G20550_circ_g.2 AT1G20550_circ_g.3 AT1G20575_circ_g.1 AT1G20575_circ_g.2 AT1G20575_circ_g.3 AT1G20580_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G20610_circ_g.1 AT1G20610_circ_g.2 AT1G20610_circ_g.3 AT1G20620_circ_g.1 AT1G20620_circ_g.2 AT1G20620_circ_g.3 AT1G20620_circ_g.4 AT1G20620_circ_g.5 AT1G20620_circ_g.6 AT1G20620_circ_g.7 AT1G20620_circ_g.8 1_circ_ag.9 AT1G20620_circ_g.10 AT1G20620_circ_g.11 AT1G20620_circ_g.12 AT1G20620_circ_g.13 1_circ_ag.14 AT1G20620_circ_g.15 AT1G20620_circ_g.16 AT1G20620_circ_g.17 AT1G20620_circ_g.18 AT1G20620_circ_g.19 AT1G20620_circ_g.20 AT1G20620_circ_g.21 AT1G20620_circ_g.22 AT1G20620_circ_g.23 1_circ_ag.24
Support reads	1
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	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	AT1G20380.2:3 AT1G20380.1:3

			
						 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  
						
							CCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGACCAAGATAATCCCAAA
CATATGTTCGGATCCAAAGTCACTGATGATGGGAAGgatgatttggagtctgaagcagagatct
tgcttgatcctaatactcttagtgatgatggaacagtttctttaaacactttatctattagtga
ggatgcta

						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: 435
Transcript exons: 7062436-7062636,7062717-7062787,7062900-7063062
GATGATTTGGAGTCTGAAGCAGAGATCTTGCTTGATCCTAATACTCTTAGTGATGATGGAACAG
TTTCTTTAAACACTTTATCTATTAGTGAGGATGCTAAGTATTTGGCTTATGGCCTTAGCTCTAG
TGGTAGTGATTGGGTTACTATTAAAGTGATGAAGATTGAAGATAAGAAAGTGGAACCTGATTCT
TTATCTTGGGTTAAGTTTAGTGGGATCACATGGACACATGATGGGAAAGGTTTTTTCTACAGTC
GCTATCCAGCTCCACGAGAGGGAGAGAAGATAGATGCTGGTACAGAGACTAATTCTAACCTTTA
CCATGAGTTATACTACCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGAC
CAAGATAATCCCAAACATATGTTCGGATCCAAAGTCACTGATGATGGGAAG
						
						Genomic sequence
						
							GATGATTTGGAGTCTGAAGCAGAGATCTTGCTTGATCCTAATACTCTTAGTGATGATGGAACAG
TTTCTTTAAACACTTTATCTATTAGTGAGGATGCTAAGTATTTGGCTTATGGCCTTAGCTCTAG
TGGTAGTGATTGGGTTACTATTAAAGTGATGAAGATTGAAGATAAGAAAGTGGAACCTGATTCT
TTATCTTGGGTAAGGCGTCTTCAAGTTGAATTACTCGTTAGTTTGAAGTTTCATTATTGACATT
GACATGAAACTTGTTCTGAAATCAGGTTAAGTTTAGTGGGATCACATGGACACATGATGGGAAA
GGTTTTTTCTACAGTCGCTATCCAGCTCCACGGTGAGTCTTTGGTTTAACTAACTGTGAAACTT
TTTGGTGTAAAAGCTGAGGAATTTGTTTCAAAAGTTTGAGTTTTTATTACTGTTTTCTGATTTT
GGTTTTGTTTCTGTAGAGAGGGAGAGAAGATAGATGCTGGTACAGAGACTAATTCTAACCTTTA
CCATGAGTTATACTACCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGAC
CAAGATAATCCCAAACATATGTTCGGATCCAAAGTCACTGATGATGGGAAG

Sequences
Splice junction sequence	CCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGACCAAGATAATCCCAAA CATATGTTCGGATCCAAAGTCACTGATGATGGGAAGgatgatttggagtctgaagcagagatct tgcttgatcctaatactcttagtgatgatggaacagtttctttaaacactttatctattagtga ggatgcta
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: 435 Transcript exons: 7062436-7062636,7062717-7062787,7062900-7063062 GATGATTTGGAGTCTGAAGCAGAGATCTTGCTTGATCCTAATACTCTTAGTGATGATGGAACAG TTTCTTTAAACACTTTATCTATTAGTGAGGATGCTAAGTATTTGGCTTATGGCCTTAGCTCTAG TGGTAGTGATTGGGTTACTATTAAAGTGATGAAGATTGAAGATAAGAAAGTGGAACCTGATTCT TTATCTTGGGTTAAGTTTAGTGGGATCACATGGACACATGATGGGAAAGGTTTTTTCTACAGTC GCTATCCAGCTCCACGAGAGGGAGAGAAGATAGATGCTGGTACAGAGACTAATTCTAACCTTTA CCATGAGTTATACTACCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGAC CAAGATAATCCCAAACATATGTTCGGATCCAAAGTCACTGATGATGGGAAG
Genomic sequence	GATGATTTGGAGTCTGAAGCAGAGATCTTGCTTGATCCTAATACTCTTAGTGATGATGGAACAG TTTCTTTAAACACTTTATCTATTAGTGAGGATGCTAAGTATTTGGCTTATGGCCTTAGCTCTAG TGGTAGTGATTGGGTTACTATTAAAGTGATGAAGATTGAAGATAAGAAAGTGGAACCTGATTCT TTATCTTGGGTAAGGCGTCTTCAAGTTGAATTACTCGTTAGTTTGAAGTTTCATTATTGACATT GACATGAAACTTGTTCTGAAATCAGGTTAAGTTTAGTGGGATCACATGGACACATGATGGGAAA GGTTTTTTCTACAGTCGCTATCCAGCTCCACGGTGAGTCTTTGGTTTAACTAACTGTGAAACTT TTTGGTGTAAAAGCTGAGGAATTTGTTTCAAAAGTTTGAGTTTTTATTACTGTTTTCTGATTTT GGTTTTGTTTCTGTAGAGAGGGAGAGAAGATAGATGCTGGTACAGAGACTAATTCTAACCTTTA CCATGAGTTATACTACCATTTCCTTGGGACTGATCAATCCGAAGATGTTTTGTGTTGGAGAGAC CAAGATAATCCCAAACATATGTTCGGATCCAAAGTCACTGATGATGGGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.26105467

Conservation Information
Conserved circRNAs	NA
PMCS	0.26105467

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7062592-7063059(+)
						
						Potential amino acid sequence
						
							MKIEDKKVEPDSLSWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAGTETNSNLYHELYYHFLG
TDQSEDVLCWRDQDNPKHMFGSKVTDDGKDDLESEAEILLDPNTLSDDGTVSLNTLSISEDAKY
LAYGLSSSGSDWVTIKVMKIEDKKVEPDSLSWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAG
TETNSNLYHELYYHFLGTDQSEDVLCWRDQDNPKHMFGSKVTDDGKDDLESEAEILLDPNTLSD
DGTVSLNTLSISEDAKYLAYGLSSSGSDWVTIKVMKIEDKKVEPDSLSWVKFSGITWTHDGKGF
FYSRYPAPREGEKIDAGTETNSNLYHELYYHFLGTDQSEDVLCWRDQDNPKHMFGSKVTDDGKD
DLESEAEILLDPNTLSDDGTVSLNTLSISEDAKYLAYGLSSSGSDWVTIKVMKIEDKKVEPDSL
SWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAGTETNSNLYHELYYHFLGTDQSEDVLCWRDQ
DNPKHMFGSKVTDDGK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7062592-7063059(+)
Potential amino acid sequence	MKIEDKKVEPDSLSWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAGTETNSNLYHELYYHFLG TDQSEDVLCWRDQDNPKHMFGSKVTDDGKDDLESEAEILLDPNTLSDDGTVSLNTLSISEDAKY LAYGLSSSGSDWVTIKVMKIEDKKVEPDSLSWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAG TETNSNLYHELYYHFLGTDQSEDVLCWRDQDNPKHMFGSKVTDDGKDDLESEAEILLDPNTLSD DGTVSLNTLSISEDAKYLAYGLSSSGSDWVTIKVMKIEDKKVEPDSLSWVKFSGITWTHDGKGF FYSRYPAPREGEKIDAGTETNSNLYHELYYHFLGTDQSEDVLCWRDQDNPKHMFGSKVTDDGKD DLESEAEILLDPNTLSDDGTVSLNTLSISEDAKYLAYGLSSSGSDWVTIKVMKIEDKKVEPDSL SWVKFSGITWTHDGKGFFYSRYPAPREGEKIDAGTETNSNLYHELYYHFLGTDQSEDVLCWRDQ DNPKHMFGSKVTDDGK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G20380_circ_g.1

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