Plant Circular RNA Database

Detail information of AT2G21520_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT2G21520_circ_g.3
					
						ID in PlantcircBase
						ath_circ_014234
					
						Alias
						Ath_circ_FC1290, Ath_circ_FC1292
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 9216208-9218228  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT2G21520						
					
						Parent gene annotation
						
							Sec14p-like phosphatidylinositol transfer family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G21520_circ_g.1 AT2G21520_circ_g.2 AT2G21520_circ_g.4 AT2G21520_circ_g.5 AT2G21520_circ_g.6 AT2G21520_circ_g.7 AT2G21520_circ_g.8 AT2G21520_circ_g.9 AT2G21520_circ_g.10 						
					
						Support reads
						14
					
						Tissues
						aerial
					
						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
						AT2G21520.3:9
AT2G21520.1:9
AT2G21520.2:9

General Information
CircRNA Name	AT2G21520_circ_g.3
ID in PlantcircBase	ath_circ_014234
Alias	Ath_circ_FC1290, Ath_circ_FC1292
Organism	Arabidpsis thaliana
Position	chr2: 9216208-9218228 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT2G21520
Parent gene annotation	Sec14p-like phosphatidylinositol transfer family protein
Parent gene strand	+
Alternative splicing	AT2G21520_circ_g.1 AT2G21520_circ_g.2 AT2G21520_circ_g.4 AT2G21520_circ_g.5 AT2G21520_circ_g.6 AT2G21520_circ_g.7 AT2G21520_circ_g.8 AT2G21520_circ_g.9 AT2G21520_circ_g.10
Support reads	14
Tissues	aerial
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	AT2G21520.3:9 AT2G21520.1:9 AT2G21520.2:9

			
						 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  
						
							GGTAGTTTTCCGGGTTATGACGAGTATGTACCTATGGTGGACAAAGCCGTTGACGCCACCTGGA
AGGTGAAACCCGCCATCCAGAGAGTTGCCTCAAGAGctttcactacaggttttgagggattctt
gagcagtgatgagaaaaaggaaagaaagtcagattttgagaattcagaggatgagaggagaaca
agaatcgg

									
								

					

						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
						
							CTTTCACTACAGGTTTTGAGGGATTCTTGAGCAGTGATGAGAAAAAGGAAAGAAAGTCAGATTT
TGAGAATTCAGAGGATGAGAGGAGAACAAGAATCGGTTCCTTGAAAAAGAAAGCCATTAATGCC
TCTACTAAGTTCAAGCATTCTCTTAAGAAAAAGAGCGGAAGAAGAAAAAGTGATGGTCGAGTGA
GTTCTGTATCCATTGAGGATGTGAGGGATGTCGAGGAGCTACAAGCTGTTGATGCGTTTCGACA
GTCGTTGTTAATGGACGAGTTGCTTCCTGATAGACACGATGATTATCATATGATGTTGAGGTTC
TTGAAAGCGAGGAAATTTGATGTTGAGAAAGCTAAACAAATGTGGGCTGATATGATTCAATGGA
GGAAAGAGTTTGGTACTGACACTATTATTCAGGTATGCTATTAAATAGAAGATAGTAGTTTAAA
CCATTGTTGTCTGTTTTTGTAACGTTTTATTTCTCTCGTTAGGATTTTGATTTCGAAGAGATTA
ATGAAGTTTTGAAACATTACCCACAATGTTATCACGGTGTTGACAAAGAAGGTAGACCTATTTA
CATTGAAAGGCTAGGGAAAGTTGATCCTAACAGACTCATGCAAGTTACAAGCATGGATCGATAT
GTAAGATATCATGTAAAGGAGTTTGAGAGGAGCTTTATGATCAAGTTTCCTTCCTGCACTATTT
CTGCAAAGAGGCATATTGATTCAAGTACAACTATTCTTGATGTTCAAGGAGTGGTAAGTATTTT
CTACAGTTCATGATATTAGTTGTGAAATGAGTTTTTTTCTCATGTGTTTATATAACTTCATATT
CAGGGATTGAAAAACTTTAACAAGTCTGCTCGAGATCTTATCACACGATTACAAAAGATTGATG
GAGACAATTATCCTGAGGTATTAGTTAATTGGAGCTTCTAATACTTGATCTCAGGTATCAAATG
CTAATCTTGGCTTTGTGGTATTTCATGCAGACTCTCCACCAAATGTTTATTATCAATGCAGGGC
CTGGATTTAGGCTACTCTGGAACACTGTCAAGAGCTTTCTTGACCCTAAGACATCTGCTAAAAT
TCATGTATGAGAGATCTAAGTTATATCTCTATTTAAAAGTCTTGTCTTTGATTATATAGAATTC
AATATGGACTATTCTATTGTTTATGTAGGTACTCGGATACAAGTATCTAAGCAAATTGCTTGAA
GTCATTGATGTCAAGTATGTGAACCTTGACCCACCCTTATTTGATCTGTTCTATCGAAAGCTGC
ACGTTTTTTTGTTTTTGCTTATGTTCAAAATGGTCTGCACTTTTTTATAGCGAGTTGCCTGAGT
TCTTGGGAGGTGCATGTACTTGCGCAGATCAAGGCGGTTGCATGCTTTCTGACAAGGGACCTTG
GAAAAACCCGGAAATTGTGAAGGTCATTTACTTAGACTAATCTCTTTTTGGATTCTATTTGTAT
CATCCAAGTTGGAATCTGAGACATTTGGTTTTCTTCTCATTATTTCAGATGGTGCTTCATGGAG
GAGCACATCGAGCGAGGCAGGTGGTGAAAGTGTTGAACAGCGAAGGGAAAGTCATTGCTTATGC
AAAACCTTCATATACATGGGTACGTAGTTATTAAATCCTATAACTAGTCAATCTTTAACTTGTG
GCTGACCATATTGTGCCTAAACTCTGCTCTGTCATAAACATAGATAAAGGGAAGTGACACATCC
ACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTC
ATCTCCGCTTGACACCTGTTCGTGAGGAGGTAACTTTTTTCTCTTTCTTTCTATCTTCTAGTTG
GGGAAGTAGTAGATGTTTATCCTGAGGCTTTGCAGGCAAAGATAGCTGGTGAAACAAGCTTGGC
TGGTAGTTTTCCGGGTTATGACGAGTATGTACCTATGGTGGACAAAGCCGTTGACGCCACCTGG
AAGGTGAAACCCGCCATCCAGAGAGTTGCCTCAAGAG
						
					

			
		

Sequences
Splice junction sequence	GGTAGTTTTCCGGGTTATGACGAGTATGTACCTATGGTGGACAAAGCCGTTGACGCCACCTGGA AGGTGAAACCCGCCATCCAGAGAGTTGCCTCAAGAGctttcactacaggttttgagggattctt gagcagtgatgagaaaaaggaaagaaagtcagattttgagaattcagaggatgagaggagaaca agaatcgg
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	CTTTCACTACAGGTTTTGAGGGATTCTTGAGCAGTGATGAGAAAAAGGAAAGAAAGTCAGATTT TGAGAATTCAGAGGATGAGAGGAGAACAAGAATCGGTTCCTTGAAAAAGAAAGCCATTAATGCC TCTACTAAGTTCAAGCATTCTCTTAAGAAAAAGAGCGGAAGAAGAAAAAGTGATGGTCGAGTGA GTTCTGTATCCATTGAGGATGTGAGGGATGTCGAGGAGCTACAAGCTGTTGATGCGTTTCGACA GTCGTTGTTAATGGACGAGTTGCTTCCTGATAGACACGATGATTATCATATGATGTTGAGGTTC TTGAAAGCGAGGAAATTTGATGTTGAGAAAGCTAAACAAATGTGGGCTGATATGATTCAATGGA GGAAAGAGTTTGGTACTGACACTATTATTCAGGTATGCTATTAAATAGAAGATAGTAGTTTAAA CCATTGTTGTCTGTTTTTGTAACGTTTTATTTCTCTCGTTAGGATTTTGATTTCGAAGAGATTA ATGAAGTTTTGAAACATTACCCACAATGTTATCACGGTGTTGACAAAGAAGGTAGACCTATTTA CATTGAAAGGCTAGGGAAAGTTGATCCTAACAGACTCATGCAAGTTACAAGCATGGATCGATAT GTAAGATATCATGTAAAGGAGTTTGAGAGGAGCTTTATGATCAAGTTTCCTTCCTGCACTATTT CTGCAAAGAGGCATATTGATTCAAGTACAACTATTCTTGATGTTCAAGGAGTGGTAAGTATTTT CTACAGTTCATGATATTAGTTGTGAAATGAGTTTTTTTCTCATGTGTTTATATAACTTCATATT CAGGGATTGAAAAACTTTAACAAGTCTGCTCGAGATCTTATCACACGATTACAAAAGATTGATG GAGACAATTATCCTGAGGTATTAGTTAATTGGAGCTTCTAATACTTGATCTCAGGTATCAAATG CTAATCTTGGCTTTGTGGTATTTCATGCAGACTCTCCACCAAATGTTTATTATCAATGCAGGGC CTGGATTTAGGCTACTCTGGAACACTGTCAAGAGCTTTCTTGACCCTAAGACATCTGCTAAAAT TCATGTATGAGAGATCTAAGTTATATCTCTATTTAAAAGTCTTGTCTTTGATTATATAGAATTC AATATGGACTATTCTATTGTTTATGTAGGTACTCGGATACAAGTATCTAAGCAAATTGCTTGAA GTCATTGATGTCAAGTATGTGAACCTTGACCCACCCTTATTTGATCTGTTCTATCGAAAGCTGC ACGTTTTTTTGTTTTTGCTTATGTTCAAAATGGTCTGCACTTTTTTATAGCGAGTTGCCTGAGT TCTTGGGAGGTGCATGTACTTGCGCAGATCAAGGCGGTTGCATGCTTTCTGACAAGGGACCTTG GAAAAACCCGGAAATTGTGAAGGTCATTTACTTAGACTAATCTCTTTTTGGATTCTATTTGTAT CATCCAAGTTGGAATCTGAGACATTTGGTTTTCTTCTCATTATTTCAGATGGTGCTTCATGGAG GAGCACATCGAGCGAGGCAGGTGGTGAAAGTGTTGAACAGCGAAGGGAAAGTCATTGCTTATGC AAAACCTTCATATACATGGGTACGTAGTTATTAAATCCTATAACTAGTCAATCTTTAACTTGTG GCTGACCATATTGTGCCTAAACTCTGCTCTGTCATAAACATAGATAAAGGGAAGTGACACATCC ACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTC ATCTCCGCTTGACACCTGTTCGTGAGGAGGTAACTTTTTTCTCTTTCTTTCTATCTTCTAGTTG GGGAAGTAGTAGATGTTTATCCTGAGGCTTTGCAGGCAAAGATAGCTGGTGAAACAAGCTTGGC TGGTAGTTTTCCGGGTTATGACGAGTATGTACCTATGGTGGACAAAGCCGTTGACGCCACCTGG AAGGTGAAACCCGCCATCCAGAGAGTTGCCTCAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.191053237

Conservation Information
Conserved circRNAs	NA
PMCS	0.191053237

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							9216474-9218225(+)
						
					

						Potential amino acid sequence
						
							MDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEEINEVLKHY
PQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCTISAKRHID
SSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDP
KTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIVKMVLHGGA
HRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHLRLTPVREE
AKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSDEKKERKSD
FENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEELQAVDAFR
QSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEEINEV
LKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCTISAK
RHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKS
FLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIVKMVL
HGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHLRLTP
VREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSDEKKE
RKSDFENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEELQAV
DAFRQSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEE
INEVLKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCT
ISAKRHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWN
TVKSFLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIV
KMVLHGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHL
RLTPVREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSD
EKKERKSDFENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEE
LQAVDAFRQSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDF
DFEEINEVLKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKF
PSCTISAKRHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFR
LLWNTVKSFLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKN
PEIVKMVLHGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKS
FSHLRLTPVREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASR(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	9216474-9218225(+)
Potential amino acid sequence	MDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEEINEVLKHY PQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCTISAKRHID SSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDP KTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIVKMVLHGGA HRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHLRLTPVREE AKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSDEKKERKSD FENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEELQAVDAFR QSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEEINEV LKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCTISAK RHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKS FLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIVKMVL HGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHLRLTP VREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSDEKKE RKSDFENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEELQAV DAFRQSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDFDFEE INEVLKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKFPSCT ISAKRHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFRLLWN TVKSFLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKNPEIV KMVLHGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKSFSHL RLTPVREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASRAFTTGFEGFLSSD EKKERKSDFENSEDERRTRIGSLKKKAINASTKFKHSLKKKSGRRKSDGRVSSVSIEDVRDVEE LQAVDAFRQSLLMDELLPDRHDDYHMMLRFLKARKFDVEKAKQMWADMIQWRKEFGTDTIIQDF DFEEINEVLKHYPQCYHGVDKEGRPIYIERLGKVDPNRLMQVTSMDRYVRYHVKEFERSFMIKF PSCTISAKRHIDSSTTILDVQGVGLKNFNKSARDLITRLQKIDGDNYPETLHQMFIINAGPGFR LLWNTVKSFLDPKTSAKIHVLGYKYLSKLLEVIDVNELPEFLGGACTCADQGGCMLSDKGPWKN PEIVKMVLHGGAHRARQVVKVLNSEGKVIAYAKPSYTWIKGSDTSTAESGSDAEDIGSPKAIKS FSHLRLTPVREEAKIAGETSLAGSFPGYDEYVPMVDKAVDATWKVKPAIQRVASR(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT2G21520_circ_g.3

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