Plant Circular RNA Database

Detail information of AT2G23420_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G23420_circ_g.2
					
						ID in PlantcircBase
						ath_circ_014559
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 9972732-9974753  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT2G23420						
					
						Parent gene annotation
						
							Nicotinate phosphoribosyltransferase 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G23420_circ_g.3 AT2G23420_circ_g.4 AT2G23420_circ_g.5 AT2G23420_circ_g.6 AT2G23420_circ_g.7 AT2G23420_circ_g.8 AT2G23420_circ_g.9 AT2G23420_circ_g.10 						
					
						Support reads
						1
					
						Tissues
						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
						AT2G23420.2:10
AT2G23420.1:10

General Information
CircRNA Name	AT2G23420_circ_g.2
ID in PlantcircBase	ath_circ_014559
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 9972732-9974753 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT2G23420
Parent gene annotation	Nicotinate phosphoribosyltransferase 2
Parent gene strand	+
Alternative splicing	AT2G23420_circ_g.3 AT2G23420_circ_g.4 AT2G23420_circ_g.5 AT2G23420_circ_g.6 AT2G23420_circ_g.7 AT2G23420_circ_g.8 AT2G23420_circ_g.9 AT2G23420_circ_g.10
Support reads	1
Tissues	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	AT2G23420.2:10 AT2G23420.1:10

			
						 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  
						
							AGTATTACCGCCTTTGAAAGAGATAAGAGACCGTTGCATCAAACAGCTCGAAAACATGCGACCT
GATCATATGAGGAGATTAAACCCAACTCCTTATAAGggtccggatggtgcaataagcgcatcaa
aatattgctaccttggaggttttgatgcaacaaggcaagtcttgctttttgtttttgttgatct
ggaagtag

									
								

					

						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
						
							GGTCCGGATGGTGCAATAAGCGCATCAAAATATTGCTACCTTGGAGGTTTTGATGCAACAAGGC
AAGTCTTGCTTTTTGTTTTTGTTGATCTGGAAGTAGGTGAAAGGGAATGTGGAAATGATGTGTT
TTGTGTTGTTGGGTATTTTGCCAATGACAGTAATGTAGCAGCTGGAAAACTTTTTGGGATTCCT
CTTCGTGGAACACACTCTCATGCTTATGTTAGCTCATTCATGGTCAGTTCACTTCAGCCAAAAG
TTTCAATTTTTATGTGGAGGTTACATACTTGAGTTAGCTAGTAGAGACGATAACACAAAGTTTC
GTGAAAATAAGATATTCTTGTCAATGCCTTTGTTGCTATAACTTTATTAGCCATGGTTCTGATG
CACACTTAATATCCTCGCTCATAACAATATCACAAAAGCATTTTCGATATAATTAGTTAACTTT
GGATTGCAGAGTACTGATGAGATTGTTGACAAAGTACTTCGTAGTGCTGATGGGAAAACCACGT
GCGAGGATTTTGTTAGTCATGTTCAGACATGGTTAAAAAAGATTCAGGTTTGTTTATTGCACAT
TTTGCTCTTCCTCTTCCTGTTTTCTAGTCTCAGGACCATTGTTCTATTTCTGCTTCAACCCTTT
GCTTGAATCTTTGTCACAGTTTTTCTTATGTTTTGTTTCTTTGTGGATGACAGTATTCACCATC
TCTAAGTGGCATTTTCTCTGAGACAAATCAAAGCGAGCTAGCAGCTTTCACCTCATATGCACTG
GCATTCCCCAAAACTTTTCTTGCCCTCGTAGATACATACGATGTGAGCATTAAACACCATAGTA
GATAGCTCATTTGAGCCTTAGGATTTCTAATAAACTCTTATATTAGTGTTTTGCTGACTGTTTT
ACAGGTGATGAAGAGTGGAATCCCTAACTTCTGTGCAGTTGCTTTAGCACTCAATGACTTTGGG
TGTGTAAGAATCTCTTATCAATACCCGATCGTCTGACTTGACTTTGTACTTCTTCAGGATCATA
TGGAATTTGAGATGCAATTGATGTTTATTGTGCTGCGCAGATATAAAGCATTAGGTATTAGACT
GGATTCAGGTGATTTAGCTTATCTATCTAGAGAGGCCAGAAATTTCTTCTGCACGGTAGAGAGA
GAACTAAAAGTGCCTGGTTTTGGGAAGATGGTCGTCACTGCTAGTAATGATCTAAATGAAGAGA
CGATTGACGCTTTAAATAAACAGGTGACTCCCTAACCCACTCTCAAATGCCATGCCCCCGAAAG
ATTGATTATTATTAAGCAGTGTTTTTTCTTTCATCTCTATAGGGACATGAGGTGGATGCTTTTG
GCATCGGGACCTACTTGGTCACTTGCTATTCACAAGCGGCCTTAGGTTGCGTTTTCAAACTTGT
GGAGATAAACAATCAGCCTCGGATTAAACTTTCTGAAGATGTTACAAAGGTTAAAACTCTCTCT
CTCTCTCTTGGTGTTCTGAACATTCAATGTCACATTGCACTTAATCTGATTATCATTCTGATTC
GTTTAGGTATCAATACCGTGTAAAAAGCGAAGTTACAGATTATACGGCAAAGAAGGTTACCCTC
TGGTAGATATAATGACTGGAGAGAACGAACCACCTCCAAAGGTAAAACGAAAGATAACTCTCTC
AAAGATTTTAATCTCATTACCTTATTGCATTTTTACATAATATCTTTCTTGATATCAAAGGTTG
GTGAGCGTTTACTTTGTCGTCACCCATTCAACGAATCCAAAAGAGCATATGTAGTGCCACAACG
TGTCGAAGAGCTCCTCAAATGTTATTGGCGTGGAAGTGCAGGTAAAGATTTTCCGGTACCGTAG
AGTTATTAATGACAATGCTTTTCACTGATTATTGTTTCTCTATACCAATGAAGATGAAGCAAGA
GAAGTATTACCGCCTTTGAAAGAGATAAGAGACCGTTGCATCAAACAGCTCGAAAACATGCGAC
CTGATCATATGAGGAGATTAAACCCAACTCCTTATAAG
						
					

			
		

Sequences
Splice junction sequence	AGTATTACCGCCTTTGAAAGAGATAAGAGACCGTTGCATCAAACAGCTCGAAAACATGCGACCT GATCATATGAGGAGATTAAACCCAACTCCTTATAAGggtccggatggtgcaataagcgcatcaa aatattgctaccttggaggttttgatgcaacaaggcaagtcttgctttttgtttttgttgatct ggaagtag
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	GGTCCGGATGGTGCAATAAGCGCATCAAAATATTGCTACCTTGGAGGTTTTGATGCAACAAGGC AAGTCTTGCTTTTTGTTTTTGTTGATCTGGAAGTAGGTGAAAGGGAATGTGGAAATGATGTGTT TTGTGTTGTTGGGTATTTTGCCAATGACAGTAATGTAGCAGCTGGAAAACTTTTTGGGATTCCT CTTCGTGGAACACACTCTCATGCTTATGTTAGCTCATTCATGGTCAGTTCACTTCAGCCAAAAG TTTCAATTTTTATGTGGAGGTTACATACTTGAGTTAGCTAGTAGAGACGATAACACAAAGTTTC GTGAAAATAAGATATTCTTGTCAATGCCTTTGTTGCTATAACTTTATTAGCCATGGTTCTGATG CACACTTAATATCCTCGCTCATAACAATATCACAAAAGCATTTTCGATATAATTAGTTAACTTT GGATTGCAGAGTACTGATGAGATTGTTGACAAAGTACTTCGTAGTGCTGATGGGAAAACCACGT GCGAGGATTTTGTTAGTCATGTTCAGACATGGTTAAAAAAGATTCAGGTTTGTTTATTGCACAT TTTGCTCTTCCTCTTCCTGTTTTCTAGTCTCAGGACCATTGTTCTATTTCTGCTTCAACCCTTT GCTTGAATCTTTGTCACAGTTTTTCTTATGTTTTGTTTCTTTGTGGATGACAGTATTCACCATC TCTAAGTGGCATTTTCTCTGAGACAAATCAAAGCGAGCTAGCAGCTTTCACCTCATATGCACTG GCATTCCCCAAAACTTTTCTTGCCCTCGTAGATACATACGATGTGAGCATTAAACACCATAGTA GATAGCTCATTTGAGCCTTAGGATTTCTAATAAACTCTTATATTAGTGTTTTGCTGACTGTTTT ACAGGTGATGAAGAGTGGAATCCCTAACTTCTGTGCAGTTGCTTTAGCACTCAATGACTTTGGG TGTGTAAGAATCTCTTATCAATACCCGATCGTCTGACTTGACTTTGTACTTCTTCAGGATCATA TGGAATTTGAGATGCAATTGATGTTTATTGTGCTGCGCAGATATAAAGCATTAGGTATTAGACT GGATTCAGGTGATTTAGCTTATCTATCTAGAGAGGCCAGAAATTTCTTCTGCACGGTAGAGAGA GAACTAAAAGTGCCTGGTTTTGGGAAGATGGTCGTCACTGCTAGTAATGATCTAAATGAAGAGA CGATTGACGCTTTAAATAAACAGGTGACTCCCTAACCCACTCTCAAATGCCATGCCCCCGAAAG ATTGATTATTATTAAGCAGTGTTTTTTCTTTCATCTCTATAGGGACATGAGGTGGATGCTTTTG GCATCGGGACCTACTTGGTCACTTGCTATTCACAAGCGGCCTTAGGTTGCGTTTTCAAACTTGT GGAGATAAACAATCAGCCTCGGATTAAACTTTCTGAAGATGTTACAAAGGTTAAAACTCTCTCT CTCTCTCTTGGTGTTCTGAACATTCAATGTCACATTGCACTTAATCTGATTATCATTCTGATTC GTTTAGGTATCAATACCGTGTAAAAAGCGAAGTTACAGATTATACGGCAAAGAAGGTTACCCTC TGGTAGATATAATGACTGGAGAGAACGAACCACCTCCAAAGGTAAAACGAAAGATAACTCTCTC AAAGATTTTAATCTCATTACCTTATTGCATTTTTACATAATATCTTTCTTGATATCAAAGGTTG GTGAGCGTTTACTTTGTCGTCACCCATTCAACGAATCCAAAAGAGCATATGTAGTGCCACAACG TGTCGAAGAGCTCCTCAAATGTTATTGGCGTGGAAGTGCAGGTAAAGATTTTCCGGTACCGTAG AGTTATTAATGACAATGCTTTTCACTGATTATTGTTTCTCTATACCAATGAAGATGAAGCAAGA GAAGTATTACCGCCTTTGAAAGAGATAAGAGACCGTTGCATCAAACAGCTCGAAAACATGCGAC CTGATCATATGAGGAGATTAAACCCAACTCCTTATAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.165208565

Conservation Information
Conserved circRNAs	NA
PMCS	0.165208565

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9972963-9974750(+)
						
						Potential amino acid sequence
						
							MSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLSGIFSETNQSELAAFTSYALAFPK
TFLALVDTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSGDLAYLSREARNFFCTVERELKVP
GFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCYSQAALGCVFKLVEINNQPRIKLS
EDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGERLLCRHPFNESKRAYVVPQRVEE
LLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRRLNPTPYKGPDGAISASKYCYLGG
FDATSNVAAGKLFGIPLRGTHSHAYVSSFMSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQ
YSPSLSGIFSETNQSELAAFTSYALAFPKTFLALVDTYDVMKSGIPNFCAVALALNDFGYKALG
IRLDSGDLAYLSREARNFFCTVERELKVPGFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGT
YLVTCYSQAALGCVFKLVEINNQPRIKLSEDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEP
PPKVGERLLCRHPFNESKRAYVVPQRVEELLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMR
PDHMRRLNPTPYKGPDGAISASKYCYLGGFDATSNVAAGKLFGIPLRGTHSHAYVSSFMSTDEI
VDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLSGIFSETNQSELAAFTSYALAFPKTFLALV
DTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSGDLAYLSREARNFFCTVERELKVPGFGKMV
VTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCYSQAALGCVFKLVEINNQPRIKLSEDVTKV
SIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGERLLCRHPFNESKRAYVVPQRVEELLKCYW
RGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRRLNPTPYKGPDGAISASKYCYLGGFDATSN
VAAGKLFGIPLRGTHSHAYVSSFMSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLS
GIFSETNQSELAAFTSYALAFPKTFLALVDTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSG
DLAYLSREARNFFCTVERELKVPGFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCY
SQAALGCVFKLVEINNQPRIKLSEDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGE
RLLCRHPFNESKRAYVVPQRVEELLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRR
LNPTPYK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9972963-9974750(+)
Potential amino acid sequence	MSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLSGIFSETNQSELAAFTSYALAFPK TFLALVDTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSGDLAYLSREARNFFCTVERELKVP GFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCYSQAALGCVFKLVEINNQPRIKLS EDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGERLLCRHPFNESKRAYVVPQRVEE LLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRRLNPTPYKGPDGAISASKYCYLGG FDATSNVAAGKLFGIPLRGTHSHAYVSSFMSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQ YSPSLSGIFSETNQSELAAFTSYALAFPKTFLALVDTYDVMKSGIPNFCAVALALNDFGYKALG IRLDSGDLAYLSREARNFFCTVERELKVPGFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGT YLVTCYSQAALGCVFKLVEINNQPRIKLSEDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEP PPKVGERLLCRHPFNESKRAYVVPQRVEELLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMR PDHMRRLNPTPYKGPDGAISASKYCYLGGFDATSNVAAGKLFGIPLRGTHSHAYVSSFMSTDEI VDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLSGIFSETNQSELAAFTSYALAFPKTFLALV DTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSGDLAYLSREARNFFCTVERELKVPGFGKMV VTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCYSQAALGCVFKLVEINNQPRIKLSEDVTKV SIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGERLLCRHPFNESKRAYVVPQRVEELLKCYW RGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRRLNPTPYKGPDGAISASKYCYLGGFDATSN VAAGKLFGIPLRGTHSHAYVSSFMSTDEIVDKVLRSADGKTTCEDFVSHVQTWLKKIQYSPSLS GIFSETNQSELAAFTSYALAFPKTFLALVDTYDVMKSGIPNFCAVALALNDFGYKALGIRLDSG DLAYLSREARNFFCTVERELKVPGFGKMVVTASNDLNEETIDALNKQGHEVDAFGIGTYLVTCY SQAALGCVFKLVEINNQPRIKLSEDVTKVSIPCKKRSYRLYGKEGYPLVDIMTGENEPPPKVGE RLLCRHPFNESKRAYVVPQRVEELLKCYWRGSADEAREVLPPLKEIRDRCIKQLENMRPDHMRR LNPTPYK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT2G23420_circ_g.2

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