Plant Circular RNA Database

Detail information of AT1G60550_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G60550_circ_g.2
					
						ID in PlantcircBase
						ath_circ_008152
					
						Alias
						At_ciR2125, Ath_circ_FC0832
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 22306274-22307278  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT1G60550						
					
						Parent gene annotation
						
							1,4-dihydroxy-2-naphthoyl-CoA synthase, peroxisomal
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G60550_circ_g.1 AT1G60550_circ_g.3 AT1G60550_circ_g.4 AT1G60550_circ_g.5 						
					
						Support reads
						4
					
						Tissues
						leaf
					
						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
						AT1G60550.1:6

General Information
CircRNA Name	AT1G60550_circ_g.2
ID in PlantcircBase	ath_circ_008152
Alias	At_ciR2125, Ath_circ_FC0832
Organism	Arabidpsis thaliana
Position	chr1: 22306274-22307278 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT1G60550
Parent gene annotation	1,4-dihydroxy-2-naphthoyl-CoA synthase, peroxisomal
Parent gene strand	-
Alternative splicing	AT1G60550_circ_g.1 AT1G60550_circ_g.3 AT1G60550_circ_g.4 AT1G60550_circ_g.5
Support reads	4
Tissues	leaf
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	AT1G60550.1:6

			
						 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  
						
							GAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCAGCATACCCGTCTTGTGTTCTCAA
AGCCTGATCACCACCACTGCAAAATGCTTTTGTTCCctgaaggccggcatggccatcatcaact
gcattaagtgctgccttaagtactcggattgcagttggactgttccgtaagatttctctgcacc
atttcaca

									
								

					

						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: 507
Transcript exons: 22306274-22306396,22306506-22306601,22306683-22306730,22
306840-22306938,22307042-22307080,22307177-22307278
CTGAAGGCCGGCATGGCCATCATCAACTGCATTAAGTGCTGCCTTAAGTACTCGGATTGCAGTT
GGACTGTTCCGTAAGATTTCTCTGCACCATTTCACAGTTTCTTTCTCCAAATCCTCTAGCGGTA
CAACTGTATTGATAAGTCCCATTTTCTCTGCTTCAGAAGCTGTGTAGAACCTCGTCATAAACCA
CATTTCTCGTGCCTTTTTAGGACCAACCAGACGAGACATGATGGAACTTCCATAACCAGCATCA
AAACTTCCAACCTTAGGACCCGTTTGACCAAAAATCGCATTATCAGCTGCAATTGTTAGATCGC
AGACCATGTGCAAAATGTGTCCTCCTCCAACAGCATAACCAGCTACCATTGCAATAACTGGCTT
TGGCAATCTGCGGATTTGAACCTGAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCA
GCATACCCGTCTTGTGTTCTCAAAGCCTGATCACCACCACTGCAAAATGCTTTTGTTCC
						
					

						Genomic sequence
						
							CTGAAGGCCGGCATGGCCATCATCAACTGCATTAAGTGCTGCCTTAAGTACTCGGATTGCAGTT
GGACTGTTCCGTAAGATTTCTCTGCACCATTTCACAGTTTCTTTCTCCAAATCCTCTAGCTGGA
ACAGAAAAATAGGTCTCAGTGAAGGAACAAAACAATTACCAACAAATAGACTGATTTTTTTGTG
TATCTGTGACAACACTATGGGGTTTACTGGTAAAATTTACCGGTACAACTGTATTGATAAGTCC
CATTTTCTCTGCTTCAGAAGCTGTGTAGAACCTCGTCATAAACCACATTTCTCGTGCCTTTTTA
GGACCAACCTGTATACATTCATACACTTTGATTAGCCTATGTTTGTTAGATTTTGGATATTGCA
TTGCAGTAATAGTGAGTTCAATTACCAGACGAGACATGATGGAACTTCCATAACCAGCATCAAA
ACTTCCAACCTGCAGACATCAAGTCAATCCACATAATCAGTGGGGATTAGTAATAACTCTAGTA
CTTACTTCACTTACACAGTCAATTCAAGGCTGAAACAGAAGCTAGAGGGAAAACCTTAGGACCC
GTTTGACCAAAAATCGCATTATCAGCTGCAATTGTTAGATCGCAGACCATGTGCAAAATGTGTC
CTCCTCCAACAGCATAACCAGCTACCTGACTCAGTCCAAAATCAAACAGATCAACCTCAGGAAC
TAGCTAATCCAGGATTAGTACAAAGATGCATACAGTAAACGAGCAGTTGTTTGAAGGTACTTAC
CATTGCAATAACTGGCTTTGGCAATCTGCGGATTTGAACCTGAGTAGAAACAGAAGAAGGAAGG
TGGAAAATACATGAGCCCGATAAGGATGAGGAAACCCAAACTTTTTATTGTCTTGTCCATCAAG
GACATACCTGAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCAGCATACCCGTCTTG
TGTTCTCAAAGCCTGATCACCACCACTGCAAAATGCTTTTGTTCC
						
					

			
		

Sequences
Splice junction sequence	GAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCAGCATACCCGTCTTGTGTTCTCAA AGCCTGATCACCACCACTGCAAAATGCTTTTGTTCCctgaaggccggcatggccatcatcaact gcattaagtgctgccttaagtactcggattgcagttggactgttccgtaagatttctctgcacc atttcaca
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: 507 Transcript exons: 22306274-22306396,22306506-22306601,22306683-22306730,22 306840-22306938,22307042-22307080,22307177-22307278 CTGAAGGCCGGCATGGCCATCATCAACTGCATTAAGTGCTGCCTTAAGTACTCGGATTGCAGTT GGACTGTTCCGTAAGATTTCTCTGCACCATTTCACAGTTTCTTTCTCCAAATCCTCTAGCGGTA CAACTGTATTGATAAGTCCCATTTTCTCTGCTTCAGAAGCTGTGTAGAACCTCGTCATAAACCA CATTTCTCGTGCCTTTTTAGGACCAACCAGACGAGACATGATGGAACTTCCATAACCAGCATCA AAACTTCCAACCTTAGGACCCGTTTGACCAAAAATCGCATTATCAGCTGCAATTGTTAGATCGC AGACCATGTGCAAAATGTGTCCTCCTCCAACAGCATAACCAGCTACCATTGCAATAACTGGCTT TGGCAATCTGCGGATTTGAACCTGAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCA GCATACCCGTCTTGTGTTCTCAAAGCCTGATCACCACCACTGCAAAATGCTTTTGTTCC
Genomic sequence	CTGAAGGCCGGCATGGCCATCATCAACTGCATTAAGTGCTGCCTTAAGTACTCGGATTGCAGTT GGACTGTTCCGTAAGATTTCTCTGCACCATTTCACAGTTTCTTTCTCCAAATCCTCTAGCTGGA ACAGAAAAATAGGTCTCAGTGAAGGAACAAAACAATTACCAACAAATAGACTGATTTTTTTGTG TATCTGTGACAACACTATGGGGTTTACTGGTAAAATTTACCGGTACAACTGTATTGATAAGTCC CATTTTCTCTGCTTCAGAAGCTGTGTAGAACCTCGTCATAAACCACATTTCTCGTGCCTTTTTA GGACCAACCTGTATACATTCATACACTTTGATTAGCCTATGTTTGTTAGATTTTGGATATTGCA TTGCAGTAATAGTGAGTTCAATTACCAGACGAGACATGATGGAACTTCCATAACCAGCATCAAA ACTTCCAACCTGCAGACATCAAGTCAATCCACATAATCAGTGGGGATTAGTAATAACTCTAGTA CTTACTTCACTTACACAGTCAATTCAAGGCTGAAACAGAAGCTAGAGGGAAAACCTTAGGACCC GTTTGACCAAAAATCGCATTATCAGCTGCAATTGTTAGATCGCAGACCATGTGCAAAATGTGTC CTCCTCCAACAGCATAACCAGCTACCTGACTCAGTCCAAAATCAAACAGATCAACCTCAGGAAC TAGCTAATCCAGGATTAGTACAAAGATGCATACAGTAAACGAGCAGTTGTTTGAAGGTACTTAC CATTGCAATAACTGGCTTTGGCAATCTGCGGATTTGAACCTGAGTAGAAACAGAAGAAGGAAGG TGGAAAATACATGAGCCCGATAAGGATGAGGAAACCCAAACTTTTTATTGTCTTGTCCATCAAG GACATACCTGAAGATCAAGAACATTAAGGCGGCCAACGTCATTGGGATCAGCATACCCGTCTTG TGTTCTCAAAGCCTGATCACCACCACTGCAAAATGCTTTTGTTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.280966598

Conservation Information
Conserved circRNAs	NA
PMCS	0.280966598

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22307045-22306276(-)
						
						Potential amino acid sequence
						
							MVAGYAVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTR
FYTASEAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQGTKAF
CSGGDQALRTQDGYADPNDVGRLNVLDLQVQIRRLPKPVIAMVAGYAVGGGHILHMVCDLTIAA
DNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTRFYTASEAEKMGLINTVVPLEDLE
KETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQGTKAFCSGGDQALRTQDGYADPNDVGRL
NVLDLQVQIRRLPKPVIAMVAGYAVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSI
MSRLVGPKKAREMWFMTRFYTASEAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKA
ALNAVDDGHAGLQGTKAFCSGGDQALRTQDGYADPNDVGRLNVLDLQVQIRRLPKPVIAMVAGY
AVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTRFYTAS
EAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQ(-)
						
						Sponge-miRNAs
						
							ath-miR319c 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22307045-22306276(-)
Potential amino acid sequence	MVAGYAVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTR FYTASEAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQGTKAF CSGGDQALRTQDGYADPNDVGRLNVLDLQVQIRRLPKPVIAMVAGYAVGGGHILHMVCDLTIAA DNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTRFYTASEAEKMGLINTVVPLEDLE KETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQGTKAFCSGGDQALRTQDGYADPNDVGRL NVLDLQVQIRRLPKPVIAMVAGYAVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSI MSRLVGPKKAREMWFMTRFYTASEAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKA ALNAVDDGHAGLQGTKAFCSGGDQALRTQDGYADPNDVGRLNVLDLQVQIRRLPKPVIAMVAGY AVGGGHILHMVCDLTIAADNAIFGQTGPKVGSFDAGYGSSIMSRLVGPKKAREMWFMTRFYTAS EAEKMGLINTVVPLEDLEKETVKWCREILRNSPTAIRVLKAALNAVDDGHAGLQ(-)
Sponge-miRNAs	ath-miR319c
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chen et al., 2017a

circRNA

Detail information of AT1G60550_circ_g.2

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