Plant Circular RNA Database

Detail information of AT1G33360_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G33360_circ_g.2
					
						ID in PlantcircBase
						ath_circ_005536
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 12094313-12095615  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G33360						
					
						Parent gene annotation
						
							CLP protease regulatory subunit CLPX3, mitochondrial
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G33360_circ_g.1 						
					
						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
						AT1G33360.1:7

General Information
CircRNA Name	AT1G33360_circ_g.2
ID in PlantcircBase	ath_circ_005536
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 12094313-12095615 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G33360
Parent gene annotation	CLP protease regulatory subunit CLPX3, mitochondrial
Parent gene strand	+
Alternative splicing	AT1G33360_circ_g.1
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	AT1G33360.1:7

			
						 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  
						
							AGAAGCGTCTCGTGGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCGAGCGTTACCTC
AGCGAGAACAAGTCGAAAGATGCTACAGAACCAATGattgtaaatgttccagggaaaggtgcaa
gaaagcatccgcggggtgaccatatacaggtttagagctagaaatttgatcattgacctatatt
gcatctaa

									
								

					

						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: 687
Transcript exons: 12094313-12094369,12094465-12094535,12094622-12094721,12
094812-12094916,12095098-12095160,12095245-12095367,1209
5448-12095615
ATTGTAAATGTTCCAGGGAAAGGTGCAAGAAAGCATCCGCGGGGTGACCATATACAGATAGACA
CAAAAGATATCCTATTTATCTGTGGAGGAGCATTTGTTGACCTTGAGAAGACCATTGTGGATAG
ACGACAAGACTCATCAATTGGTTTTGGAGCTCCTGTTCGTGCCAACATGGCTACCAGTGGAGTG
ACCAGTGGTGCAATAACTTCATCTTTGCTAGAATCGGTTGAGAGTGCCGATCTGACAGCATATG
GCCTTATACCGGAGTTTGTAGGACGCTTTCCCATATTAGTTAGTTTGTCAGCTCTGACAGAGGA
CCAGCTCATTCGGGTGCTTGTAGAACCCAAAAATGCTCTTGGGAAACAGTACAAGAAACTATTT
AGCATGAACAACGTAAAGCTGCATTTTACTGAGAAAGCGCTGGAGATAATATCCAAGCAAGCAA
TGGTGAAAAATACAGGTGCGAGGGGACTAAGAGCCTTACTTGAAAGCATTCTTACCGAAGCCAT
GTTTGAGATTCCAGATGATAAAAAGGGAGATGAAAGAATCGATGCGGTTATAGTAGATGAGGAA
TCAACAAGCTCAGAAGCGTCTCGTGGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCG
AGCGTTACCTCAGCGAGAACAAGTCGAAAGATGCTACAGAACCAATG
						
					

						Genomic sequence
						
							ATTGTAAATGTTCCAGGGAAAGGTGCAAGAAAGCATCCGCGGGGTGACCATATACAGGTTTAGA
GCTAGAAATTTGATCATTGACCTATATTGCATCTAAAGGTGTTGTTTTCTCATATTAATCCATT
GCTGGATGTCCCTATGATGTACAGATAGACACAAAAGATATCCTATTTATCTGTGGAGGAGCAT
TTGTTGACCTTGAGAAGACCATTGTGGATAGGTAATTCATTATTCGTCCTTTTTTTTTTTTGCA
ATAGATTAGGGGTTCTGTTTTGACATTGATCAGCATCTCTAATGCTCTGCCAGACGACAAGACT
CATCAATTGGTTTTGGAGCTCCTGTTCGTGCCAACATGGCTACCAGTGGAGTGACCAGTGGTGC
AATAACTTCATCTTTGCTAGAATCGGTAAACACTACATAGTTTTGTTAAGCCTAGTGTAAACAC
TTCTCATTCCTGGAAAGAGATCTTAGTTTTGGAATGCCGGCTGCATTTCAGGTTGAGAGTGCCG
ATCTGACAGCATATGGCCTTATACCGGAGTTTGTAGGACGCTTTCCCATATTAGTTAGTTTGTC
AGCTCTGACAGAGGACCAGCTCATTCGGGTACTTTAACATTCTTCATAGCTTTTATTTTATCTT
GTAGTGGATGGTGTGTTTCTTTGATTGCTCATGTGCAGCTAGTAAAATCAAAGTGAGATAGTGG
TTGCTATCATCGAGGGCTTGATTTAATTGCTCTTCTCATATTTAAGGGTAGCTAATATCACCTT
TGCTTTTTGCCCTGTAGGTGCTTGTAGAACCCAAAAATGCTCTTGGGAAACAGTACAAGAAACT
ATTTAGCATGAACAACGTAAGCTCCTTCAAAATATTCAGTGTTTTAAGTTCAAACTTGACCTTG
TGGTCCCTGACTGCATGATCTGTTACAAAATTTCAGGTAAAGCTGCATTTTACTGAGAAAGCGC
TGGAGATAATATCCAAGCAAGCAATGGTGAAAAATACAGGTGCGAGGGGACTAAGAGCCTTACT
TGAAAGCATTCTTACCGAAGCCATGTTTGAGGTAACTTCAGCTACCACAAATATTGTTAAGGTA
CTAATATAAATCTTGCTTTCACACTTCTGTTTGATTTCTCTTTTCAGATTCCAGATGATAAAAA
GGGAGATGAAAGAATCGATGCGGTTATAGTAGATGAGGAATCAACAAGCTCAGAAGCGTCTCGT
GGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCGAGCGTTACCTCAGCGAGAACAAGT
CGAAAGATGCTACAGAACCAATG
						
					

			
		

Sequences
Splice junction sequence	AGAAGCGTCTCGTGGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCGAGCGTTACCTC AGCGAGAACAAGTCGAAAGATGCTACAGAACCAATGattgtaaatgttccagggaaaggtgcaa gaaagcatccgcggggtgaccatatacaggtttagagctagaaatttgatcattgacctatatt gcatctaa
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: 687 Transcript exons: 12094313-12094369,12094465-12094535,12094622-12094721,12 094812-12094916,12095098-12095160,12095245-12095367,1209 5448-12095615 ATTGTAAATGTTCCAGGGAAAGGTGCAAGAAAGCATCCGCGGGGTGACCATATACAGATAGACA CAAAAGATATCCTATTTATCTGTGGAGGAGCATTTGTTGACCTTGAGAAGACCATTGTGGATAG ACGACAAGACTCATCAATTGGTTTTGGAGCTCCTGTTCGTGCCAACATGGCTACCAGTGGAGTG ACCAGTGGTGCAATAACTTCATCTTTGCTAGAATCGGTTGAGAGTGCCGATCTGACAGCATATG GCCTTATACCGGAGTTTGTAGGACGCTTTCCCATATTAGTTAGTTTGTCAGCTCTGACAGAGGA CCAGCTCATTCGGGTGCTTGTAGAACCCAAAAATGCTCTTGGGAAACAGTACAAGAAACTATTT AGCATGAACAACGTAAAGCTGCATTTTACTGAGAAAGCGCTGGAGATAATATCCAAGCAAGCAA TGGTGAAAAATACAGGTGCGAGGGGACTAAGAGCCTTACTTGAAAGCATTCTTACCGAAGCCAT GTTTGAGATTCCAGATGATAAAAAGGGAGATGAAAGAATCGATGCGGTTATAGTAGATGAGGAA TCAACAAGCTCAGAAGCGTCTCGTGGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCG AGCGTTACCTCAGCGAGAACAAGTCGAAAGATGCTACAGAACCAATG
Genomic sequence	ATTGTAAATGTTCCAGGGAAAGGTGCAAGAAAGCATCCGCGGGGTGACCATATACAGGTTTAGA GCTAGAAATTTGATCATTGACCTATATTGCATCTAAAGGTGTTGTTTTCTCATATTAATCCATT GCTGGATGTCCCTATGATGTACAGATAGACACAAAAGATATCCTATTTATCTGTGGAGGAGCAT TTGTTGACCTTGAGAAGACCATTGTGGATAGGTAATTCATTATTCGTCCTTTTTTTTTTTTGCA ATAGATTAGGGGTTCTGTTTTGACATTGATCAGCATCTCTAATGCTCTGCCAGACGACAAGACT CATCAATTGGTTTTGGAGCTCCTGTTCGTGCCAACATGGCTACCAGTGGAGTGACCAGTGGTGC AATAACTTCATCTTTGCTAGAATCGGTAAACACTACATAGTTTTGTTAAGCCTAGTGTAAACAC TTCTCATTCCTGGAAAGAGATCTTAGTTTTGGAATGCCGGCTGCATTTCAGGTTGAGAGTGCCG ATCTGACAGCATATGGCCTTATACCGGAGTTTGTAGGACGCTTTCCCATATTAGTTAGTTTGTC AGCTCTGACAGAGGACCAGCTCATTCGGGTACTTTAACATTCTTCATAGCTTTTATTTTATCTT GTAGTGGATGGTGTGTTTCTTTGATTGCTCATGTGCAGCTAGTAAAATCAAAGTGAGATAGTGG TTGCTATCATCGAGGGCTTGATTTAATTGCTCTTCTCATATTTAAGGGTAGCTAATATCACCTT TGCTTTTTGCCCTGTAGGTGCTTGTAGAACCCAAAAATGCTCTTGGGAAACAGTACAAGAAACT ATTTAGCATGAACAACGTAAGCTCCTTCAAAATATTCAGTGTTTTAAGTTCAAACTTGACCTTG TGGTCCCTGACTGCATGATCTGTTACAAAATTTCAGGTAAAGCTGCATTTTACTGAGAAAGCGC TGGAGATAATATCCAAGCAAGCAATGGTGAAAAATACAGGTGCGAGGGGACTAAGAGCCTTACT TGAAAGCATTCTTACCGAAGCCATGTTTGAGGTAACTTCAGCTACCACAAATATTGTTAAGGTA CTAATATAAATCTTGCTTTCACACTTCTGTTTGATTTCTCTTTTCAGATTCCAGATGATAAAAA GGGAGATGAAAGAATCGATGCGGTTATAGTAGATGAGGAATCAACAAGCTCAGAAGCGTCTCGT GGATGCACAGCAAAAATACTTAGAGGAGACGGTGCTTTCGAGCGTTACCTCAGCGAGAACAAGT CGAAAGATGCTACAGAACCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.258615242

Conservation Information
Conserved circRNAs	NA
PMCS	0.258615242

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12094668-12095612(+)
						
						Potential amino acid sequence
						
							MATSGVTSGAITSSLLESVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGK
QYKKLFSMNNVKLHFTEKALEIISKQAMVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDA
VIVDEESTSSEASRGCTAKILRGDGAFERYLSENKSKDATEPMIVNVPGKGARKHPRGDHIQID
TKDILFICGGAFVDLEKTIVDRRQDSSIGFGAPVRANMATSGVTSGAITSSLLESVESADLTAY
GLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGKQYKKLFSMNNVKLHFTEKALEIISKQA
MVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDAVIVDEESTSSEASRGCTAKILRGDGAF
ERYLSENKSKDATEPMIVNVPGKGARKHPRGDHIQIDTKDILFICGGAFVDLEKTIVDRRQDSS
IGFGAPVRANMATSGVTSGAITSSLLESVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRV
LVEPKNALGKQYKKLFSMNNVKLHFTEKALEIISKQAMVKNTGARGLRALLESILTEAMFEIPD
DKKGDERIDAVIVDEESTSSEASRGCTAKILRGDGAFERYLSENKSKDATEPMIVNVPGKGARK
HPRGDHIQIDTKDILFICGGAFVDLEKTIVDRRQDSSIGFGAPVRANMATSGVTSGAITSSLLE
SVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGKQYKKLFSMNNVKLHFTE
KALEIISKQAMVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDAVIVDEESTSSEASRGCT
AKILRGDGAFERYLSENKSKDATEPM(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12094668-12095612(+)
Potential amino acid sequence	MATSGVTSGAITSSLLESVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGK QYKKLFSMNNVKLHFTEKALEIISKQAMVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDA VIVDEESTSSEASRGCTAKILRGDGAFERYLSENKSKDATEPMIVNVPGKGARKHPRGDHIQID TKDILFICGGAFVDLEKTIVDRRQDSSIGFGAPVRANMATSGVTSGAITSSLLESVESADLTAY GLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGKQYKKLFSMNNVKLHFTEKALEIISKQA MVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDAVIVDEESTSSEASRGCTAKILRGDGAF ERYLSENKSKDATEPMIVNVPGKGARKHPRGDHIQIDTKDILFICGGAFVDLEKTIVDRRQDSS IGFGAPVRANMATSGVTSGAITSSLLESVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRV LVEPKNALGKQYKKLFSMNNVKLHFTEKALEIISKQAMVKNTGARGLRALLESILTEAMFEIPD DKKGDERIDAVIVDEESTSSEASRGCTAKILRGDGAFERYLSENKSKDATEPMIVNVPGKGARK HPRGDHIQIDTKDILFICGGAFVDLEKTIVDRRQDSSIGFGAPVRANMATSGVTSGAITSSLLE SVESADLTAYGLIPEFVGRFPILVSLSALTEDQLIRVLVEPKNALGKQYKKLFSMNNVKLHFTE KALEIISKQAMVKNTGARGLRALLESILTEAMFEIPDDKKGDERIDAVIVDEESTSSEASRGCT AKILRGDGAFERYLSENKSKDATEPM(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G33360_circ_g.2

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