Plant Circular RNA Database

Detail information of AT3G06550_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G06550_circ_g.2
					
						ID in PlantcircBase
						ath_circ_020084
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 2039964-2041932  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT3G06550						
					
						Parent gene annotation
						
							O-acetyltransferase family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G06550_circ_g.3 AT3G06550_circ_g.4 						
					
						Support reads
						3
					
						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  
						
							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
						AT3G06550.3:9
AT3G06550.1:9
AT3G06550.2:9

General Information
CircRNA Name	AT3G06550_circ_g.2
ID in PlantcircBase	ath_circ_020084
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 2039964-2041932 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder
Parent gene	AT3G06550
Parent gene annotation	O-acetyltransferase family protein
Parent gene strand	-
Alternative splicing	AT3G06550_circ_g.3 AT3G06550_circ_g.4
Support reads	3
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	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	AT3G06550.3:9 AT3G06550.1:9 AT3G06550.2:9

			
						 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  
						
							ATAAACTAAGCAGGATATCATCATCACCTTCTTTGATGAATTGAAGACATCTGTGCGGTCACAT
ATGTAAAAGTATACCATAAGTACTGCAAACTCAATTctgagccatatatgaaactgggagatat
atgtctccagtgttatctttccaagccacctgaaagttcatgaacaaatttttcttgaaaaaat
cgttataa

									
								

					

						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
						
							CTGAGCCATATATGAAACTGGGAGATATATGTCTCCAGTGTTATCTTTCCAAGCCACCTGAAAG
TTCATGAACAAATTTTTCTTGAAAAAATCGTTATAAGAGGATAAACATATCTATTGACTGAATT
ATTTTTTACTTACGCCAGAAGGGTCAAACTGTAGCCGCGGAAAGACTGGGTGATGTTCCGGAGA
CAGATATAAACACTGAAAGAAAAGCAAAACGAGGTACACAAGTAAGGACTGGTTCTTAGAAGAG
TGGTTGTATAGAGATTTGCAGGTAAAGTGGACTACGTTATTGGAATCCAAGAGGTGTAAGGATG
ATATTTGTTGTAAGTTAACTTGTCCATCTTGTATATATACTCGTACCAAAAATATCCCACCTAA
AAGTTTCATAATAACAAAGATAGATTAGCTGGAAGAACAATATGCAAGAGGCTTCTTTCACCTG
AAAGAAAGTCAAATGATGACTTGTAATACCGTTAGTGCTATCAGTGCCACAGATGTTTTGATAG
CCACCCTGAATTTCATCTCAGCTTCCTCCAGTTTATCCATCCAACTTTCAACCTATAAGATACA
TAATCAAGGAAATGAAACGGTAAGTCTTTATCACTGAGCTAACCATTTGTGAACAGAGTTGATG
TGAAGTTCTAGTATTGGGAACTTACAGTTGGGTGGTAGTATGCATATAGCATCCCGATTATCCA
TATGTACCGATCAAGTCCAGAGCGGAAATGCCACTCATGCAAGAGGGGAAGCTGAGGTTTTGCG
GGATCATTGTAACCTGCAATTGTTGTTTTCAAGTTTTGTTTTCTAAACAGCTGTCTTGTGAGGC
ATGAGCAAATTGTTTATCTTGGTAAACAAATATTTGGGTTCTCACTTACCCATTAGGAGTGTAA
ATGGACTCCAAATCCATTCAAAAACGCCAGGAATTTCCCAAACGATGATAACAACAACGAAGCA
GGCAAAAAATTTGGCAGCTATGACTGAACCCATCTCATTATACTTGCTCATAATACCAAGTGCC
CCATAGACCATTAGAGTAAACAGAGTGTGCATTGGGCAGATGTAGTATAGCATGTAACTGTTGT
TGAGGACGATGCAGGAGAATATGACCAGGAAATTTAGCCGCCACATCATCTGTAGACCAAGAAT
ATGTTAGAATTTCAAGTAGGTGACAGCCAAAAATAAGAAAAAAGCCGGGAGGACATAGCTCTTA
CCTGTGCAAACCTTGCAAGGCTAAAGTCCTTGCGAATGTAATAATAAGAAAAATTCCCAAATCC
AGTCATCCATACATAGCAAGCAATGAAAACACGGATCGCATTATAGTACTCTGCAGCAGCAAAG
TAGTGGTACATCAAGAAAAGGACCTACAACACCAGAATAAGAAAACAATGATGAGGTAGCGGCA
AATGAAAAGGCAGATAAAACACTAACATAAAAGTTAAATGACAAACCTGCATCCAGCCTTTCCA
CTCCTCGGTTTGATGCCTATTCAAGTACATGATGGCTTTTCCGCTGAATGGTGATTTATCAGTA
TGTATCGTGAATGAAGTTATCGCTGAAACGATGATGAGAAGGAAGTAAAGGAACAGAAAGAGAT
CCCGGTTGTAACTCTGTGTCAAAAGATTAACAATGTAAGCTACTGAGACACATAGAAGCACATA
CGAATGAACCGACACAAGCAGGATATCCATCATGACTTATCAAATTTACAAACTTTCTTATTTT
GTCACGTCAAATTCACAATCTTATGGGTCTATTTTTTCCATCTAACATTTTAGACCAACTTTAA
CGATAAAAAACGAGTGTATATAAGATGTTGCTGAACAATGTAAAGACTCTGTAACTAGCTAGAT
AAATCTTTCCAGAATAAACTAAGCAGGATATCATCATCACCTTCTTTGATGAATTGAAGACATC
TGTGCGGTCACATATGTAAAAGTATACCATAAGTACTGCAAACTCAATT
						
					

			
		

Sequences
Splice junction sequence	ATAAACTAAGCAGGATATCATCATCACCTTCTTTGATGAATTGAAGACATCTGTGCGGTCACAT ATGTAAAAGTATACCATAAGTACTGCAAACTCAATTctgagccatatatgaaactgggagatat atgtctccagtgttatctttccaagccacctgaaagttcatgaacaaatttttcttgaaaaaat cgttataa
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	CTGAGCCATATATGAAACTGGGAGATATATGTCTCCAGTGTTATCTTTCCAAGCCACCTGAAAG TTCATGAACAAATTTTTCTTGAAAAAATCGTTATAAGAGGATAAACATATCTATTGACTGAATT ATTTTTTACTTACGCCAGAAGGGTCAAACTGTAGCCGCGGAAAGACTGGGTGATGTTCCGGAGA CAGATATAAACACTGAAAGAAAAGCAAAACGAGGTACACAAGTAAGGACTGGTTCTTAGAAGAG TGGTTGTATAGAGATTTGCAGGTAAAGTGGACTACGTTATTGGAATCCAAGAGGTGTAAGGATG ATATTTGTTGTAAGTTAACTTGTCCATCTTGTATATATACTCGTACCAAAAATATCCCACCTAA AAGTTTCATAATAACAAAGATAGATTAGCTGGAAGAACAATATGCAAGAGGCTTCTTTCACCTG AAAGAAAGTCAAATGATGACTTGTAATACCGTTAGTGCTATCAGTGCCACAGATGTTTTGATAG CCACCCTGAATTTCATCTCAGCTTCCTCCAGTTTATCCATCCAACTTTCAACCTATAAGATACA TAATCAAGGAAATGAAACGGTAAGTCTTTATCACTGAGCTAACCATTTGTGAACAGAGTTGATG TGAAGTTCTAGTATTGGGAACTTACAGTTGGGTGGTAGTATGCATATAGCATCCCGATTATCCA TATGTACCGATCAAGTCCAGAGCGGAAATGCCACTCATGCAAGAGGGGAAGCTGAGGTTTTGCG GGATCATTGTAACCTGCAATTGTTGTTTTCAAGTTTTGTTTTCTAAACAGCTGTCTTGTGAGGC ATGAGCAAATTGTTTATCTTGGTAAACAAATATTTGGGTTCTCACTTACCCATTAGGAGTGTAA ATGGACTCCAAATCCATTCAAAAACGCCAGGAATTTCCCAAACGATGATAACAACAACGAAGCA GGCAAAAAATTTGGCAGCTATGACTGAACCCATCTCATTATACTTGCTCATAATACCAAGTGCC CCATAGACCATTAGAGTAAACAGAGTGTGCATTGGGCAGATGTAGTATAGCATGTAACTGTTGT TGAGGACGATGCAGGAGAATATGACCAGGAAATTTAGCCGCCACATCATCTGTAGACCAAGAAT ATGTTAGAATTTCAAGTAGGTGACAGCCAAAAATAAGAAAAAAGCCGGGAGGACATAGCTCTTA CCTGTGCAAACCTTGCAAGGCTAAAGTCCTTGCGAATGTAATAATAAGAAAAATTCCCAAATCC AGTCATCCATACATAGCAAGCAATGAAAACACGGATCGCATTATAGTACTCTGCAGCAGCAAAG TAGTGGTACATCAAGAAAAGGACCTACAACACCAGAATAAGAAAACAATGATGAGGTAGCGGCA AATGAAAAGGCAGATAAAACACTAACATAAAAGTTAAATGACAAACCTGCATCCAGCCTTTCCA CTCCTCGGTTTGATGCCTATTCAAGTACATGATGGCTTTTCCGCTGAATGGTGATTTATCAGTA TGTATCGTGAATGAAGTTATCGCTGAAACGATGATGAGAAGGAAGTAAAGGAACAGAAAGAGAT CCCGGTTGTAACTCTGTGTCAAAAGATTAACAATGTAAGCTACTGAGACACATAGAAGCACATA CGAATGAACCGACACAAGCAGGATATCCATCATGACTTATCAAATTTACAAACTTTCTTATTTT GTCACGTCAAATTCACAATCTTATGGGTCTATTTTTTCCATCTAACATTTTAGACCAACTTTAA CGATAAAAAACGAGTGTATATAAGATGTTGCTGAACAATGTAAAGACTCTGTAACTAGCTAGAT AAATCTTTCCAGAATAAACTAAGCAGGATATCATCATCACCTTCTTTGATGAATTGAAGACATC TGTGCGGTCACATATGTAAAAGTATACCATAAGTACTGCAAACTCAATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.202137396

Conservation Information
Conserved circRNAs	NA
PMCS	0.202137396

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2041914-2039966(-)
						
						Potential amino acid sequence
						
							MVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAITSFTIHTDKSPFSGKAIMYLNRHQTE
EWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGFGNFSYYYIRKDFSLARFAQMMWRLNF
LVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSKYNEMGSVIAAKFFACFVVVIIVWEIP
GVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDRYIWIIGMLYAYYHPTVESWMDKLEEA
EMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKYHPYTSWIPITVYICLRNITQSFRGYS
LTLLAWLGKITLETYISQFHIWLRIEFAVLMVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLII
VSAITSFTIHTDKSPFSGKAIMYLNRHQTEEWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVW
MTGFGNFSYYYIRKDFSLARFAQMMWRLNFLVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALG
IMSKYNEMGSVIAAKFFACFVVVIIVWEIPGVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRS
GLDRYIWIIGMLYAYYHPTVESWMDKLEEAEMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLT
YNKYHPYTSWIPITVYICLRNITQSFRGYSLTLLAWLGKITLETYISQFHIWLRIEFAVLMVYF
YICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAITSFTIHTDKSPFSGKAIMYLNRHQTEEWKG
WMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGFGNFSYYYIRKDFSLARFAQMMWRLNFLVIF
SCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSKYNEMGSVIAAKFFACFVVVIIVWEIPGVFE
WIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDRYIWIIGMLYAYYHPTVESWMDKLEEAEMKF
RVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKYHPYTSWIPITVYICLRNITQSFRGYSLTLL
AWLGKITLETYISQFHIWLRIEFAVLMVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAI
TSFTIHTDKSPFSGKAIMYLNRHQTEEWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGF
GNFSYYYIRKDFSLARFAQMMWRLNFLVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSK
YNEMGSVIAAKFFACFVVVIIVWEIPGVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDR
YIWIIGMLYAYYHPTVESWMDKLEEAEMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKY
HPYTSWIPITVYICLRNITQSFRGYSLTLLAWLGKITLETYISQFHIWL(-)
						
						Sponge-miRNAs
						
							ath-miR823 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2041914-2039966(-)
Potential amino acid sequence	MVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAITSFTIHTDKSPFSGKAIMYLNRHQTE EWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGFGNFSYYYIRKDFSLARFAQMMWRLNF LVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSKYNEMGSVIAAKFFACFVVVIIVWEIP GVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDRYIWIIGMLYAYYHPTVESWMDKLEEA EMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKYHPYTSWIPITVYICLRNITQSFRGYS LTLLAWLGKITLETYISQFHIWLRIEFAVLMVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLII VSAITSFTIHTDKSPFSGKAIMYLNRHQTEEWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVW MTGFGNFSYYYIRKDFSLARFAQMMWRLNFLVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALG IMSKYNEMGSVIAAKFFACFVVVIIVWEIPGVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRS GLDRYIWIIGMLYAYYHPTVESWMDKLEEAEMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLT YNKYHPYTSWIPITVYICLRNITQSFRGYSLTLLAWLGKITLETYISQFHIWLRIEFAVLMVYF YICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAITSFTIHTDKSPFSGKAIMYLNRHQTEEWKG WMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGFGNFSYYYIRKDFSLARFAQMMWRLNFLVIF SCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSKYNEMGSVIAAKFFACFVVVIIVWEIPGVFE WIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDRYIWIIGMLYAYYHPTVESWMDKLEEAEMKF RVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKYHPYTSWIPITVYICLRNITQSFRGYSLTLL AWLGKITLETYISQFHIWLRIEFAVLMVYFYICDRTDVFNSSKKSYNRDLFLFLYFLLIIVSAI TSFTIHTDKSPFSGKAIMYLNRHQTEEWKGWMQVLFLMYHYFAAAEYYNAIRVFIACYVWMTGF GNFSYYYIRKDFSLARFAQMMWRLNFLVIFSCIVLNNSYMLYYICPMHTLFTLMVYGALGIMSK YNEMGSVIAAKFFACFVVVIIVWEIPGVFEWIWSPFTLLMGYNDPAKPQLPLLHEWHFRSGLDR YIWIIGMLYAYYHPTVESWMDKLEEAEMKFRVAIKTSVALIALTVGYFWYEYIYKMDKLTYNKY HPYTSWIPITVYICLRNITQSFRGYSLTLLAWLGKITLETYISQFHIWL(-)
Sponge-miRNAs	ath-miR823
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT3G06550_circ_g.2

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