Plant Circular RNA Database

Detail information of AT1G30580_circ_g.15

			
						 General Information
					
						CircRNA Name
						AT1G30580_circ_g.15
					
						ID in PlantcircBase
						ath_circ_005095
					
						Alias
						Ath_circ_FC5574
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10833748-10835034  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT1G30580						
					
						Parent gene annotation
						
							Obg-like ATPase 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G30580_circ_g.1 AT1G30580_circ_g.2 AT1G30580_circ_g.3 AT1G30580_circ_g.4 AT1G30580_circ_g.5 AT1G30580_circ_g.6 AT1G30580_circ_g.7 AT1G30580_circ_g.8 AT1G30580_circ_g.9 AT1G30580_circ_g.10 AT1G30580_circ_g.11 AT1G30580_circ_g.12 AT1G30580_circ_g.13 AT1G30580_circ_g.14 AT1G30580_circ_g.16 AT1G30580_circ_g.17 AT1G30580_circ_g.18 AT1G30580_circ_g.19 						
					
						Support reads
						6
					
						Tissues
						whole_plant
					
						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
						AT1G30580.1:5

General Information
CircRNA Name	AT1G30580_circ_g.15
ID in PlantcircBase	ath_circ_005095
Alias	Ath_circ_FC5574
Organism	Arabidpsis thaliana
Position	chr1: 10833748-10835034 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT1G30580
Parent gene annotation	Obg-like ATPase 1
Parent gene strand	-
Alternative splicing	AT1G30580_circ_g.1 AT1G30580_circ_g.2 AT1G30580_circ_g.3 AT1G30580_circ_g.4 AT1G30580_circ_g.5 AT1G30580_circ_g.6 AT1G30580_circ_g.7 AT1G30580_circ_g.8 AT1G30580_circ_g.9 AT1G30580_circ_g.10 AT1G30580_circ_g.11 AT1G30580_circ_g.12 AT1G30580_circ_g.13 AT1G30580_circ_g.14 AT1G30580_circ_g.16 AT1G30580_circ_g.17 AT1G30580_circ_g.18 AT1G30580_circ_g.19
Support reads	6
Tissues	whole_plant
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	AT1G30580.1:5

			
						 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  
						
							CATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTT
GAAAAGAGTAGATTTTCCAACATTTGGTAACCCAACcaagtaaacaacgggctttgcagaaagc
aattggaaagtgttcaaaatctcgatatcagctgttttccagtccccaaaacggacatccttac
catcttct

									
								

					

						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: 597
Transcript exons: 10833748-10833861,10833961-10834059,10834221-10834312,10
834640-10834763,10834867-10835034
CAAGTAAACAACGGGCTTTGCAGAAAGCAATTGGAAAGTGTTCAAAATCTCGATATCAGCTGTT
TTCCAGTCCCCAAAACGGACATCCTTACCATCTTCTAGCCAAGCTTTTACCTTTTGCAAGAGCT
CAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCGACATCATCAATCTT
CTTTCCAACAAATTCAATATCCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCTAACA
GGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACGTAAAACATGGAAAA
TTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCTTCATGAGCTCC
TCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTCACTCTTAGGCTTGTAA
GTTTGGCAAAGCCAATCGAACCTCTCATCGGGGATATTCACACGTGCCTCATTAGGCTCAATGG
TACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTGAAAAGAGTAGATTT
TCCAACATTTGGTAACCCAAC
						
					

						Genomic sequence
						
							CAAGTAAACAACGGGCTTTGCAGAAAGCAATTGGAAAGTGTTCAAAATCTCGATATCAGCTGTT
TTCCAGTCCCCAAAACGGACATCCTTACCATCTTCTAGCCAAGCTTTTACCTAAACCAGAGAGG
TACAGTCATTTTTTCGGCCAATTAATAATTAATGAGCAATAACATTTGCAGAACAAGACTGCAT
GGTTGTCAAATTATAGCATACCTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTG
CTCCTCTTCATGCTCTTCTCGACATCATCAATCTTCTTTCCAACAAATTCAATATCCTAAAGTT
GCACCAAAGAATTCAGTTTGAAACCAAAACAACAATGGATGAAATGAAGATCCAACTAATACAA
AAAACAGACTACTGTATTAATATACACAGAAAGGATTTCACGAGTTTGGAGATATAGCAGTCAA
ATATCTGTTTAGAGATTTGATTCACCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCT
AACAGGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACCTGCATATGTT
CAATCGAAAAGTCACTAACCACTATATAACTGGCAAGATATCTTACTATCAGCAACTATTAAAG
AAACATCCCCGTTGTTCAAGAACAGATATGCTTGGAGAGGAAAACATAAACTAACTATCGCAAT
GGCCCTATAGGTATCAAATGGGAAGAAAAATATATAAAGGTTTTTAACCTGTCTCTCATTGAAA
AGCCTGCTCAAGTAGAAATTCAAGACAGCACAAGTAGCAGTACAGTCTAAATTATTCATCAAAT
CACGCATCACACTAAAACAAAGCTGGCACTAGGAGAAAAAGCGAGAGGGAAAAACCATACGTAA
AACATGGAAAATTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCT
TCATGAGCTCCTCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTGAGGCA
TCAAAACAGACAGAAGTCAGCCCATTCATAAAGTAATTCAGATAGTAGTAATCTCTTCCTTAAC
AGCAAGTCATGAAATAAAGTTACAAACTTACCTCACTCTTAGGCTTGTAAGTTTGGCAAAGCCA
ATCGAACCTCTCATCGGGGATATTCACACGTGCCTCATTAGGCTCAATGGTACAAAAGGGGAAA
TTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTGAAAAGAGTAGATTTTCCAACATTTGGTA
ACCCAAC
						
					

			
		

Sequences
Splice junction sequence	CATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTT GAAAAGAGTAGATTTTCCAACATTTGGTAACCCAACcaagtaaacaacgggctttgcagaaagc aattggaaagtgttcaaaatctcgatatcagctgttttccagtccccaaaacggacatccttac catcttct
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: 597 Transcript exons: 10833748-10833861,10833961-10834059,10834221-10834312,10 834640-10834763,10834867-10835034 CAAGTAAACAACGGGCTTTGCAGAAAGCAATTGGAAAGTGTTCAAAATCTCGATATCAGCTGTT TTCCAGTCCCCAAAACGGACATCCTTACCATCTTCTAGCCAAGCTTTTACCTTTTGCAAGAGCT CAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCGACATCATCAATCTT CTTTCCAACAAATTCAATATCCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCTAACA GGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACGTAAAACATGGAAAA TTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCTTCATGAGCTCC TCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTCACTCTTAGGCTTGTAA GTTTGGCAAAGCCAATCGAACCTCTCATCGGGGATATTCACACGTGCCTCATTAGGCTCAATGG TACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTGAAAAGAGTAGATTT TCCAACATTTGGTAACCCAAC
Genomic sequence	CAAGTAAACAACGGGCTTTGCAGAAAGCAATTGGAAAGTGTTCAAAATCTCGATATCAGCTGTT TTCCAGTCCCCAAAACGGACATCCTTACCATCTTCTAGCCAAGCTTTTACCTAAACCAGAGAGG TACAGTCATTTTTTCGGCCAATTAATAATTAATGAGCAATAACATTTGCAGAACAAGACTGCAT GGTTGTCAAATTATAGCATACCTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTG CTCCTCTTCATGCTCTTCTCGACATCATCAATCTTCTTTCCAACAAATTCAATATCCTAAAGTT GCACCAAAGAATTCAGTTTGAAACCAAAACAACAATGGATGAAATGAAGATCCAACTAATACAA AAAACAGACTACTGTATTAATATACACAGAAAGGATTTCACGAGTTTGGAGATATAGCAGTCAA ATATCTGTTTAGAGATTTGATTCACCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCT AACAGGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACCTGCATATGTT CAATCGAAAAGTCACTAACCACTATATAACTGGCAAGATATCTTACTATCAGCAACTATTAAAG AAACATCCCCGTTGTTCAAGAACAGATATGCTTGGAGAGGAAAACATAAACTAACTATCGCAAT GGCCCTATAGGTATCAAATGGGAAGAAAAATATATAAAGGTTTTTAACCTGTCTCTCATTGAAA AGCCTGCTCAAGTAGAAATTCAAGACAGCACAAGTAGCAGTACAGTCTAAATTATTCATCAAAT CACGCATCACACTAAAACAAAGCTGGCACTAGGAGAAAAAGCGAGAGGGAAAAACCATACGTAA AACATGGAAAATTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCT TCATGAGCTCCTCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTGAGGCA TCAAAACAGACAGAAGTCAGCCCATTCATAAAGTAATTCAGATAGTAGTAATCTCTTCCTTAAC AGCAAGTCATGAAATAAAGTTACAAACTTACCTCACTCTTAGGCTTGTAAGTTTGGCAAAGCCA ATCGAACCTCTCATCGGGGATATTCACACGTGCCTCATTAGGCTCAATGGTACAAAAGGGGAAA TTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTGAAAAGAGTAGATTTTCCAACATTTGGTA ACCCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.472989181

Conservation Information
Conserved circRNAs	NA
PMCS	0.472989181

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10834015-10833750(-)
						
						Potential amino acid sequence
						
							MKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSAKPVVYLVGLPNVGK
STLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIPAFLEIHDIAGLVRG
AHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETITEELRLKDIEFVGKK
IDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSAKPVVYLV
GLPNVGKSTLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIPAFLEIHD
IAGLVRGAHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETITEELRLKD
IEFVGKKIDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSA
KPVVYLVGLPNVGKSTLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIP
AFLEIHDIAGLVRGAHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETIT
EELRLKDIEFVGKKIDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILN
TFQLLSAKPVVYL(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10834015-10833750(-)
Potential amino acid sequence	MKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSAKPVVYLVGLPNVGK STLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIPAFLEIHDIAGLVRG AHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETITEELRLKDIEFVGKK IDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSAKPVVYLV GLPNVGKSTLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIPAFLEIHD IAGLVRGAHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETITEELRLKD IEFVGKKIDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILNTFQLLSA KPVVYLVGLPNVGKSTLFNTLTKLSIPAENFPFCTIEPNEARVNIPDERFDWLCQTYKPKSEIP AFLEIHDIAGLVRGAHEGQGLGNNFLSHIRAVDGIFHVLRAFEDADIIHVDDIVDPVRDLETIT EELRLKDIEFVGKKIDDVEKSMKRSNDKQLKIELELLQKVKAWLEDGKDVRFGDWKTADIEILN TFQLLSAKPVVYL(-)
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 AT1G30580_circ_g.15

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