Plant Circular RNA Database

Detail information of AT5G27120_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G27120_circ_g.1
					
						ID in PlantcircBase
						ath_circ_040702
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 9541275-9543231  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT5G27120						
					
						Parent gene annotation
						
							Probable nucleolar protein 5-1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							5_circ_ag.2 AT5G27120_circ_g.3 AT5G27120_circ_g.4 AT5G27120_circ_g.5 5_circ_ag.6 AT5G27120_circ_g.7 						
					
						Support reads
						65
					
						Tissues
						inflorescences
					
						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
						AT5G27120.1:7

General Information
CircRNA Name	AT5G27120_circ_g.1
ID in PlantcircBase	ath_circ_040702
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 9541275-9543231 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	KNIFE, PcircRNA_finder
Parent gene	AT5G27120
Parent gene annotation	Probable nucleolar protein 5-1
Parent gene strand	+
Alternative splicing	5_circ_ag.2 AT5G27120_circ_g.3 AT5G27120_circ_g.4 AT5G27120_circ_g.5 5_circ_ag.6 AT5G27120_circ_g.7
Support reads	65
Tissues	inflorescences
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	AT5G27120.1:7

			
						 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  
						
							TTTAGGACGTCTATCTGGCTCAGCTAAAGGCAAACCAAAGATTGAAGTATATGACAAAGATAAA
AAGAAAGGATCCGGAGGTCTGATCACTCCTGCTAAGgagcttgtaaaaatgctaatactgtttg
agacgccaggtggttttgccatcttcaaagtattaaacgaaggaaagctctctaatgttgaggt
tactaact

									
								

					

						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
						
							GAGCTTGTAAAAATGCTAATACTGTTTGAGACGCCAGGTGGTTTTGCCATCTTCAAAGTATTAA
ACGAAGGAAAGCTCTCTAATGTTGAGGTTACTAACTAAATCATTCTCCTTTGTTCATTTATCTT
AACCTTGTTTCTGTGTGTGGTTTGGTTTTTTAATTCTAAGTATGTCAAATTTGTGATTGTAGGA
TTTGGGTAATGAGTTCTCGACCGCAAAGTTAGCCCGAAAGGTGATTTATTTTGTTCTAGACATA
GTTCAAATTTTGTATCTGGCTAATAATATTTGTTTCTCATAGCAATTTTTGGTGTGTTGTTACA
GATGGTGAAGCTAGTAGCTTTTGACAAGTTTGACAACACAGCTGAAGCTCTTGAAGCAGTGGCT
AAATTGCTTGAGGGAACTCCAAGCAAGGGTCTACGCAAGTTTTTGAAAGCTAACTGTGTTGGTG
AAACATTAGCTGTTGCTGATTCTAAGCTTGGAAATATCATCAAGGAGAAACTGGTGTGTATTTT
GTTCCGATACGCTCTTTTATTTCTGAGTAAGGGTTGTTTCTTACGGTTTTGCTTCACTCGTGTA
GAAAATAGTCTGTGTTCACAACAATGCTGTTATGGAGCTGTTAAGAGGTATCAGAAGCCAGCTA
ACTGAACTTATATCTGGATTGGGTGATCAAGATCTAGGTCCAATGAGCTTGGGGTTGTCTCACA
GCCTTGCCAGATATAAACTAAAGTTCAGTTCCGACAAGGTAGTCATTTGATTTGTATTGGTTTT
TGGTTCTCTGAATTATTTGTTGAGTTAGCCAACTTTTGATAAATTATGGAACTTTTGGTATCCC
TTTTTTTACTCTTCCAACATTAGGTCTGAATTGCAATTGAGTTTGTCTATATATCCTGTGTTTG
TTTGACCCTTATGTTACTTCACCTTGTACTTGTATGTTAGGTGGATACCATGATAATCCAAGCT
ATTGGTCTGCTTGATGATCTTGACAAAGAGCTTAACACTTACGCTATGAGGGTTCGTGAATGGT
TTGGTTGGCATTTTCCTGAGCTTGCTAAGATCGTACAGGACAATATCTTATATGCCAAGGCTGT
TAAACTAATGGGGAATCGGATTAATGCTGCAAAGCTAGACTTCTCTGAGGTAAAGGCCTGTTTG
AGTATTTGACTTCCTTGTGCTTAACACTAGTTTTTTTTTTTTTGAAACATTGTTTCTGTGTCCT
CCTCTCAGATATTGGCTGATGAAATTGAAGCAGAACTGAAAGAGGCTGCTGTGATATCTATGGG
AACTGAAGTCAGTGACCTTGATTTATTGCACATCCGAGAACTCTGTGACCAGGTTCTTTCTCTT
GCCGAGTACAGAGCTCAGCTTTATGACTACTTGAAGAGCAGAATGAACACAATTGCACCAAATC
TAACTGCCCTTGTCGGGGAGCTAGTCGGTGCTCGCTTAATATCTCACGGTGGTAGTTTGTTGAA
CCTCGCAAAGCAACCTGGAAGCACGGTTCAGATTCTTGGAGCTGAAAAAGCCTTATTTAGAGCC
CTTAAGACCAAACACGCTACTCCAAAGTATGGTTTAATTTTCCATGCATCTGTTGTTGGCCAAG
CTGCACCGAAGAACAAGGGTAAAATTTCACGGTCACTAGCTGCAAAATCTGTTCTTGCTATCCG
TTGTGATGCTCTTGGTGACTCCCAAGACAACACTATGGGAGTTGAAAACCGTTTAAAGGTATCC
TTCAATTTTTTTTTTTCCGATCTTCCTCTCGATCTGATCTAAAAATACTCTACCTTGATTGATG
TTTACCATGCGGGCTATTTTCTTCTGACAGCTTGAAGCACGGTTGAGAACTCTCGAAGGAAAAG
ATTTAGGACGTCTATCTGGCTCAGCTAAAGGCAAACCAAAGATTGAAGTATATGACAAAGATAA
AAAGAAAGGATCCGGAGGTCTGATCACTCCTGCTAAG
						
					

			
		

Sequences
Splice junction sequence	TTTAGGACGTCTATCTGGCTCAGCTAAAGGCAAACCAAAGATTGAAGTATATGACAAAGATAAA AAGAAAGGATCCGGAGGTCTGATCACTCCTGCTAAGgagcttgtaaaaatgctaatactgtttg agacgccaggtggttttgccatcttcaaagtattaaacgaaggaaagctctctaatgttgaggt tactaact
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	GAGCTTGTAAAAATGCTAATACTGTTTGAGACGCCAGGTGGTTTTGCCATCTTCAAAGTATTAA ACGAAGGAAAGCTCTCTAATGTTGAGGTTACTAACTAAATCATTCTCCTTTGTTCATTTATCTT AACCTTGTTTCTGTGTGTGGTTTGGTTTTTTAATTCTAAGTATGTCAAATTTGTGATTGTAGGA TTTGGGTAATGAGTTCTCGACCGCAAAGTTAGCCCGAAAGGTGATTTATTTTGTTCTAGACATA GTTCAAATTTTGTATCTGGCTAATAATATTTGTTTCTCATAGCAATTTTTGGTGTGTTGTTACA GATGGTGAAGCTAGTAGCTTTTGACAAGTTTGACAACACAGCTGAAGCTCTTGAAGCAGTGGCT AAATTGCTTGAGGGAACTCCAAGCAAGGGTCTACGCAAGTTTTTGAAAGCTAACTGTGTTGGTG AAACATTAGCTGTTGCTGATTCTAAGCTTGGAAATATCATCAAGGAGAAACTGGTGTGTATTTT GTTCCGATACGCTCTTTTATTTCTGAGTAAGGGTTGTTTCTTACGGTTTTGCTTCACTCGTGTA GAAAATAGTCTGTGTTCACAACAATGCTGTTATGGAGCTGTTAAGAGGTATCAGAAGCCAGCTA ACTGAACTTATATCTGGATTGGGTGATCAAGATCTAGGTCCAATGAGCTTGGGGTTGTCTCACA GCCTTGCCAGATATAAACTAAAGTTCAGTTCCGACAAGGTAGTCATTTGATTTGTATTGGTTTT TGGTTCTCTGAATTATTTGTTGAGTTAGCCAACTTTTGATAAATTATGGAACTTTTGGTATCCC TTTTTTTACTCTTCCAACATTAGGTCTGAATTGCAATTGAGTTTGTCTATATATCCTGTGTTTG TTTGACCCTTATGTTACTTCACCTTGTACTTGTATGTTAGGTGGATACCATGATAATCCAAGCT ATTGGTCTGCTTGATGATCTTGACAAAGAGCTTAACACTTACGCTATGAGGGTTCGTGAATGGT TTGGTTGGCATTTTCCTGAGCTTGCTAAGATCGTACAGGACAATATCTTATATGCCAAGGCTGT TAAACTAATGGGGAATCGGATTAATGCTGCAAAGCTAGACTTCTCTGAGGTAAAGGCCTGTTTG AGTATTTGACTTCCTTGTGCTTAACACTAGTTTTTTTTTTTTTGAAACATTGTTTCTGTGTCCT CCTCTCAGATATTGGCTGATGAAATTGAAGCAGAACTGAAAGAGGCTGCTGTGATATCTATGGG AACTGAAGTCAGTGACCTTGATTTATTGCACATCCGAGAACTCTGTGACCAGGTTCTTTCTCTT GCCGAGTACAGAGCTCAGCTTTATGACTACTTGAAGAGCAGAATGAACACAATTGCACCAAATC TAACTGCCCTTGTCGGGGAGCTAGTCGGTGCTCGCTTAATATCTCACGGTGGTAGTTTGTTGAA CCTCGCAAAGCAACCTGGAAGCACGGTTCAGATTCTTGGAGCTGAAAAAGCCTTATTTAGAGCC CTTAAGACCAAACACGCTACTCCAAAGTATGGTTTAATTTTCCATGCATCTGTTGTTGGCCAAG CTGCACCGAAGAACAAGGGTAAAATTTCACGGTCACTAGCTGCAAAATCTGTTCTTGCTATCCG TTGTGATGCTCTTGGTGACTCCCAAGACAACACTATGGGAGTTGAAAACCGTTTAAAGGTATCC TTCAATTTTTTTTTTTCCGATCTTCCTCTCGATCTGATCTAAAAATACTCTACCTTGATTGATG TTTACCATGCGGGCTATTTTCTTCTGACAGCTTGAAGCACGGTTGAGAACTCTCGAAGGAAAAG ATTTAGGACGTCTATCTGGCTCAGCTAAAGGCAAACCAAAGATTGAAGTATATGACAAAGATAA AAAGAAAGGATCCGGAGGTCTGATCACTCCTGCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.179839141

Conservation Information
Conserved circRNAs	NA
PMCS	0.179839141

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							9541287-9543228(+)
						
					

						Potential amino acid sequence
						
							MLILFETPGGFAIFKVLNEGKLSNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLL
EGTPSKGLRKFLKANCVGETLAVADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGL
GDQDLGPMSLGLSHSLARYKLKFSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPEL
AKIVQDNILYAKAVKLMGNRINAAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELC
DQVLSLAEYRAQLYDYLKSRMNTIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAE
KALFRALKTKHATPKYGLIFHASVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVE
NRLKLEARLRTLEGKDLGRLSGSAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGF
AIFKVLNEGKLSNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKF
LKANCVGETLAVADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLG
LSHSLARYKLKFSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYA
KAVKLMGNRINAAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRA
QLYDYLKSRMNTIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKH
ATPKYGLIFHASVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRT
LEGKDLGRLSGSAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGFAIFKVLNEGKL
SNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKFLKANCVGETLA
VADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLGLSHSLARYKLK
FSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYAKAVKLMGNRIN
AAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRAQLYDYLKSRMN
TIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIFHA
SVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRTLEGKDLGRLSG
SAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGFAIFKVLNEGKLSNVEDLGNEFS
TAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKFLKANCVGETLAVADSKLGNIIK
EKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLGLSHSLARYKLKFSSDKVDTMII
QAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYAKAVKLMGNRINAAKLDFSEILA
DEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRAQLYDYLKSRMNTIAPNLTALVG
ELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIFHASVVGQAAPKNK
GKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRTLEGKDLGRLSGSAKGKPKIEVY
DKDKKKGSGGLITPAK(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	9541287-9543228(+)
Potential amino acid sequence	MLILFETPGGFAIFKVLNEGKLSNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLL EGTPSKGLRKFLKANCVGETLAVADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGL GDQDLGPMSLGLSHSLARYKLKFSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPEL AKIVQDNILYAKAVKLMGNRINAAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELC DQVLSLAEYRAQLYDYLKSRMNTIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAE KALFRALKTKHATPKYGLIFHASVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVE NRLKLEARLRTLEGKDLGRLSGSAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGF AIFKVLNEGKLSNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKF LKANCVGETLAVADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLG LSHSLARYKLKFSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYA KAVKLMGNRINAAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRA QLYDYLKSRMNTIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKH ATPKYGLIFHASVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRT LEGKDLGRLSGSAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGFAIFKVLNEGKL SNVEDLGNEFSTAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKFLKANCVGETLA VADSKLGNIIKEKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLGLSHSLARYKLK FSSDKVDTMIIQAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYAKAVKLMGNRIN AAKLDFSEILADEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRAQLYDYLKSRMN TIAPNLTALVGELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIFHA SVVGQAAPKNKGKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRTLEGKDLGRLSG SAKGKPKIEVYDKDKKKGSGGLITPAKELVKMLILFETPGGFAIFKVLNEGKLSNVEDLGNEFS TAKLARKMVKLVAFDKFDNTAEALEAVAKLLEGTPSKGLRKFLKANCVGETLAVADSKLGNIIK EKLKIVCVHNNAVMELLRGIRSQLTELISGLGDQDLGPMSLGLSHSLARYKLKFSSDKVDTMII QAIGLLDDLDKELNTYAMRVREWFGWHFPELAKIVQDNILYAKAVKLMGNRINAAKLDFSEILA DEIEAELKEAAVISMGTEVSDLDLLHIRELCDQVLSLAEYRAQLYDYLKSRMNTIAPNLTALVG ELVGARLISHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKYGLIFHASVVGQAAPKNK GKISRSLAAKSVLAIRCDALGDSQDNTMGVENRLKLEARLRTLEGKDLGRLSGSAKGKPKIEVY DKDKKKGSGGLITPAK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G27120_circ_g.1

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