Plant Circular RNA Database

Detail information of AT5G35450_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G35450_circ_g.1
					
						ID in PlantcircBase
						ath_circ_041085
					
						Alias
						5:13667789-13669608
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 13667789-13669608  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G35450						
					
						Parent gene annotation
						
							Disease resistance RPP8-like protein 3
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-No							"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
						AT5G35450.2:3
AT5G35450.1:3

General Information
CircRNA Name	AT5G35450_circ_g.1
ID in PlantcircBase	ath_circ_041085
Alias	5:13667789-13669608
Organism	Arabidpsis thaliana
Position	chr5: 13667789-13669608 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G35450
Parent gene annotation	Disease resistance RPP8-like protein 3
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	root
Exon boundary	Yes-No "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	AT5G35450.2:3 AT5G35450.1:3

			
						 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  
						
							TACTTCCACCTCTACCATCATTGCTCAATCTCCTAGTAGATCTCGAAGACTCACCGTACATAGT
GGTAAAGCCTTTCATATACTAGGACACAAAAAAAAGgtgattgtcgacgagtagttatggctga
aggagttgtgtcgtttggagttcagaagctttgggcgcttcttaatcgagaatccgagcgattg
aatggaat

									
								

					

						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
						
							GTGATTGTCGACGAGTAGTTATGGCTGAAGGAGTTGTGTCGTTTGGAGTTCAGAAGCTTTGGGC
GCTTCTTAATCGAGAATCCGAGCGATTGAATGGAATAGATGAGCAAGTTGATGGACTAAAGCGT
CAGCTGAGAGGGTTACAGTCGCTGTTGAAAGATGCAGATGCAAAGAAACATGGAAGTGATAGGG
TGAGGAACTTCTTGGAAGATGTCAAAGACCTTGTTTTTGATGCTGAGGATATAATTGAATCCTA
TGTTCTGAACAAACTTAGAGGAGAAGGAAAAGGGGTCAAGAATCATGTGAGACGACTTGCTTGC
TTCTTGACGGATCGCCACAAGGTTGCTTCAGATATCGAGGGTATCACTAAAAGGATCTCTAAGG
TGATTGGGGAAATGCAGAGTTTAGGGATACAACAACAAATCATTGATGGTGGTCGTTCGCTGTC
TCTTCAGGACATACAGAGGGAGATCCGGCAAACGTTTCCTAACAGCTCTGAAAGCGATCTTGTC
GGGGTGGAGCAAAGTGTTGAAGAATTGGTTGGTCCTATGGTGGAAATTGATAACATTCAAGTGG
TTTCTATATCTGGGATGGGCGGTATTGGTAAAACCACTTTGGCCAGACAAATCTTTCATCATGA
TTTAGTCCGGCGTCATTTTGATGGATTCGCATGGGTCTGTGTTTCGCAACAATTTACTCAGAAG
CATGTTTGGCAGAGAATCTTGCAAGAACTTCGGCCACACGATGGTGAGATCTTACAGATGGACG
AATATACAATCCAGGGTAAACTCTTTCAGTTGTTGGAAACCGGTAGATATTTGGTTGTCCTCGA
TGATGTATGGAAAGAAGAAGACTGGGATCGAATAAAAGAAGTGTTTCCACGGAAAAGAGGTGAG
CTCTTATGGTACATACATGACGCACTTTATAAATGCTTTTTTATCCGTAACATAGACACAAATA
TTTTGCAGGTTGGAAGATGCTACTTACTTCTCGAAATGAAGGAGTTGGGTTACATGCTGATCCA
ACATGTTTATCTTTTAGAGCAAGAATCCTAAATCCCAAAGAAAGTTGGAAGCTCTTTGAGAGGA
TAGTCCCTAGAAGAAATGAAACTGGTACACTTTCAAATTTAAAATTAAGATCAAGAATCTAGGA
AATTTTATTTTTCAGCCAACATGTTGAAATGTATTACCTTGTGATACTATGCAGAATATGAAGA
AATGGAAGCCATCGGAAAGGAAATGGTCACATATTGTGGAGGACTACCATTAGCTGTTAAAGTT
TTGGGAGGCTTGTTAGCTAATAAACATACAGCTAGTGAGTGGAAAAGAGTTAGTGAGAATATCG
GAGCTCAAATCGTAGGAAAATCGTGCTTAGATGACAACAGTCTCAATTCGGTTTACCGAATATT
GTCTTTGAGTTATGAAGATTTGCCAACGGATTTAAAGCATTGTTTCCTTTACCTAGCCCATTTC
CCTGAAGATTACAAGATAAAGACACGGACATTGTACAGTTACTGGGCCGCAGAGGGAATTTACG
ATGGATTAACCATCCTTGATAGTGGAGAAGACTACCTAGAAGAACTAGTGAGGAGAAATTTGGT
TATTGCTGAAAAGAGCAATTTGAGTTGGAGACTTAAACTTTGTCAAATGCATGACATGATGAGG
GAAGTATGTATATCTAAAGCCAAAGTAGAGAACTTCCTCCAAATTATCAAAGTCCCTACTTCCA
CCTCTACCATCATTGCTCAATCTCCTAGTAGATCTCGAAGACTCACCGTACATAGTGGTAAAGC
CTTTCATATACTAGGACACAAAAAAAAG
						
					

			
		

Sequences
Splice junction sequence	TACTTCCACCTCTACCATCATTGCTCAATCTCCTAGTAGATCTCGAAGACTCACCGTACATAGT GGTAAAGCCTTTCATATACTAGGACACAAAAAAAAGgtgattgtcgacgagtagttatggctga aggagttgtgtcgtttggagttcagaagctttgggcgcttcttaatcgagaatccgagcgattg aatggaat
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	GTGATTGTCGACGAGTAGTTATGGCTGAAGGAGTTGTGTCGTTTGGAGTTCAGAAGCTTTGGGC GCTTCTTAATCGAGAATCCGAGCGATTGAATGGAATAGATGAGCAAGTTGATGGACTAAAGCGT CAGCTGAGAGGGTTACAGTCGCTGTTGAAAGATGCAGATGCAAAGAAACATGGAAGTGATAGGG TGAGGAACTTCTTGGAAGATGTCAAAGACCTTGTTTTTGATGCTGAGGATATAATTGAATCCTA TGTTCTGAACAAACTTAGAGGAGAAGGAAAAGGGGTCAAGAATCATGTGAGACGACTTGCTTGC TTCTTGACGGATCGCCACAAGGTTGCTTCAGATATCGAGGGTATCACTAAAAGGATCTCTAAGG TGATTGGGGAAATGCAGAGTTTAGGGATACAACAACAAATCATTGATGGTGGTCGTTCGCTGTC TCTTCAGGACATACAGAGGGAGATCCGGCAAACGTTTCCTAACAGCTCTGAAAGCGATCTTGTC GGGGTGGAGCAAAGTGTTGAAGAATTGGTTGGTCCTATGGTGGAAATTGATAACATTCAAGTGG TTTCTATATCTGGGATGGGCGGTATTGGTAAAACCACTTTGGCCAGACAAATCTTTCATCATGA TTTAGTCCGGCGTCATTTTGATGGATTCGCATGGGTCTGTGTTTCGCAACAATTTACTCAGAAG CATGTTTGGCAGAGAATCTTGCAAGAACTTCGGCCACACGATGGTGAGATCTTACAGATGGACG AATATACAATCCAGGGTAAACTCTTTCAGTTGTTGGAAACCGGTAGATATTTGGTTGTCCTCGA TGATGTATGGAAAGAAGAAGACTGGGATCGAATAAAAGAAGTGTTTCCACGGAAAAGAGGTGAG CTCTTATGGTACATACATGACGCACTTTATAAATGCTTTTTTATCCGTAACATAGACACAAATA TTTTGCAGGTTGGAAGATGCTACTTACTTCTCGAAATGAAGGAGTTGGGTTACATGCTGATCCA ACATGTTTATCTTTTAGAGCAAGAATCCTAAATCCCAAAGAAAGTTGGAAGCTCTTTGAGAGGA TAGTCCCTAGAAGAAATGAAACTGGTACACTTTCAAATTTAAAATTAAGATCAAGAATCTAGGA AATTTTATTTTTCAGCCAACATGTTGAAATGTATTACCTTGTGATACTATGCAGAATATGAAGA AATGGAAGCCATCGGAAAGGAAATGGTCACATATTGTGGAGGACTACCATTAGCTGTTAAAGTT TTGGGAGGCTTGTTAGCTAATAAACATACAGCTAGTGAGTGGAAAAGAGTTAGTGAGAATATCG GAGCTCAAATCGTAGGAAAATCGTGCTTAGATGACAACAGTCTCAATTCGGTTTACCGAATATT GTCTTTGAGTTATGAAGATTTGCCAACGGATTTAAAGCATTGTTTCCTTTACCTAGCCCATTTC CCTGAAGATTACAAGATAAAGACACGGACATTGTACAGTTACTGGGCCGCAGAGGGAATTTACG ATGGATTAACCATCCTTGATAGTGGAGAAGACTACCTAGAAGAACTAGTGAGGAGAAATTTGGT TATTGCTGAAAAGAGCAATTTGAGTTGGAGACTTAAACTTTGTCAAATGCATGACATGATGAGG GAAGTATGTATATCTAAAGCCAAAGTAGAGAACTTCCTCCAAATTATCAAAGTCCCTACTTCCA CCTCTACCATCATTGCTCAATCTCCTAGTAGATCTCGAAGACTCACCGTACATAGTGGTAAAGC CTTTCATATACTAGGACACAAAAAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.185342317

Conservation Information
Conserved circRNAs	NA
PMCS	0.185342317

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G35450_circ_g.1

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