Plant Circular RNA Database

Detail information of AT3G51895_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT3G51895_circ_g.7
					
						ID in PlantcircBase
						ath_circ_027054
					
						Alias
						3:19253140-19254308
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 19253140-19254308  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G51895						
					
						Parent gene annotation
						
							Sulfate transporter 31
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G51895_circ_g.3 AT3G51895_circ_g.4 AT3G51895_circ_g.5 AT3G51895_circ_g.6 						
					
						Support reads
						4/1
					
						Tissues
						root;flower
					
						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
						AT3G51895.2:4
AT3G51895.1:4

General Information
CircRNA Name	AT3G51895_circ_g.7
ID in PlantcircBase	ath_circ_027054
Alias	3:19253140-19254308
Organism	Arabidpsis thaliana
Position	chr3: 19253140-19254308 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G51895
Parent gene annotation	Sulfate transporter 31
Parent gene strand	-
Alternative splicing	AT3G51895_circ_g.3 AT3G51895_circ_g.4 AT3G51895_circ_g.5 AT3G51895_circ_g.6
Support reads	4/1
Tissues	root;flower
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	AT3G51895.2:4 AT3G51895.1:4

			
						 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  
						
							GAAAATACCCTTAAGCTGTTGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATC
GTTGCATGCGATAGAAAGTCCACTATGAACCCTAACagcgagagcaatgatgccagtgatgagg
ccagttttgacagctgtggacatgtaaggggaagtaaagatgagatcagaaccggagagtggat
tcaaccct

									
								

					

						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: 469
Transcript exons: 19253140-19253256,19253565-19253678,19253918-19253983,19
254137-19254308
AGCGAGAGCAATGATGCCAGTGATGAGGCCAGTTTTGACAGCTGTGGACATGTAAGGGGAAGTA
AAGATGAGATCAGAACCGGAGAGTGGATTCAACCCTTTCTTCAGGTCCCCTATCACTTGAACAC
CATGTCTCTCAGCGTGAGTGAAGTAAACCAAGAGACTTCCAAGAATCACTGAGGTCAAAGGAGC
CATCGCCGCCACCCAAAAGAATTTTGGTTTCTTGATGCTGAAATATCTGGTGGAGAGAAGAAAG
AATAGAAAACCACATCCAAGAACGCCACTTTCCCATCTCCACTCGTGAGTTTGGGAGAAAACGG
AACGCATGACAGAGATAACATCGGTAGAGTCTGTGAAATGTTTAAGTCCGAAAATACCCTTAAG
CTGTTGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATCGTTGCATGCGATAGA
AAGTCCACTATGAACCCTAAC
						
					

						Genomic sequence
						
							AGCGAGAGCAATGATGCCAGTGATGAGGCCAGTTTTGACAGCTGTGGACATGTAAGGGGAAGTA
AAGATGAGATCAGAACCGGAGAGTGGATTCAACCCTTTCTTCAGGTCCCCTATCTGCACAATCA
CAATCGGTATACCTTAATTTCCTTTATTCGATAATTCCTCTCCCTTTCGAACAAAACTACAAAA
AGCCCATGAGCCCACTTCTTTTTCCACAATTCCTTTACTACTTCAACTTCATGCTTCTTGTTCT
TTTTCTTACCATAATATTCTACCTAACTTTTTCTTCTTTTCTTAAAAATATATAATGTTCTTAA
GATTCGGTGAAATCATACACGTTATCTCTTTGGTCTTGACTTGAAATAATTTATTTATTTGATT
ATTTATCATCAGATAAGGAGATTCTAGAAATTGAGTAATACCACTTGAACACCATGTCTCTCAG
CGTGAGTGAAGTAAACCAAGAGACTTCCAAGAATCACTGAGGTCAAAGGAGCCATCGCCGCCAC
CCAAAAGAATTTTGGTTTCTTGATGCTCTGCATCATCATTTCATTCATTAAACACAATTAATAA
CGTTTTGATTGTGTAGTTATTTACATTTTCAGTCCACCATATCGTATACTTTTTATTCTTTCTA
GAGAAAGATTGAAAAAGACGAAGAGTATAAAGTAATGGAATTATTCGAAAGATCATTGTAGCGT
GCTATTCGAAATAAAATGTGTTAATTAGTCACTTATTTAAATTGATATATAAAGGTATACAATT
ATAATCTTACGAAATATCTGGTGGAGAGAAGAAAGAATAGAAAACCACATCCAAGAACGCCACT
TTCCCATCTCCACTACACAACAAAAACAAACAAACACAAACACATGTTTAGACGTTTACTGTTT
AATAATACTATGAATATTCATAGTATTAATTAGGAGAACAATCATCGACATTGAAAATGATATT
TTGGATGTATTAGCAACATAACGGAAATGAGAGACACCTCGTGAGTTTGGGAGAAAACGGAACG
CATGACAGAGATAACATCGGTAGAGTCTGTGAAATGTTTAAGTCCGAAAATACCCTTAAGCTGT
TGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATCGTTGCATGCGATAGAAAGT
CCACTATGAACCCTAAC
						
					

			
		

Sequences
Splice junction sequence	GAAAATACCCTTAAGCTGTTGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATC GTTGCATGCGATAGAAAGTCCACTATGAACCCTAACagcgagagcaatgatgccagtgatgagg ccagttttgacagctgtggacatgtaaggggaagtaaagatgagatcagaaccggagagtggat tcaaccct
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: 469 Transcript exons: 19253140-19253256,19253565-19253678,19253918-19253983,19 254137-19254308 AGCGAGAGCAATGATGCCAGTGATGAGGCCAGTTTTGACAGCTGTGGACATGTAAGGGGAAGTA AAGATGAGATCAGAACCGGAGAGTGGATTCAACCCTTTCTTCAGGTCCCCTATCACTTGAACAC CATGTCTCTCAGCGTGAGTGAAGTAAACCAAGAGACTTCCAAGAATCACTGAGGTCAAAGGAGC CATCGCCGCCACCCAAAAGAATTTTGGTTTCTTGATGCTGAAATATCTGGTGGAGAGAAGAAAG AATAGAAAACCACATCCAAGAACGCCACTTTCCCATCTCCACTCGTGAGTTTGGGAGAAAACGG AACGCATGACAGAGATAACATCGGTAGAGTCTGTGAAATGTTTAAGTCCGAAAATACCCTTAAG CTGTTGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATCGTTGCATGCGATAGA AAGTCCACTATGAACCCTAAC
Genomic sequence	AGCGAGAGCAATGATGCCAGTGATGAGGCCAGTTTTGACAGCTGTGGACATGTAAGGGGAAGTA AAGATGAGATCAGAACCGGAGAGTGGATTCAACCCTTTCTTCAGGTCCCCTATCTGCACAATCA CAATCGGTATACCTTAATTTCCTTTATTCGATAATTCCTCTCCCTTTCGAACAAAACTACAAAA AGCCCATGAGCCCACTTCTTTTTCCACAATTCCTTTACTACTTCAACTTCATGCTTCTTGTTCT TTTTCTTACCATAATATTCTACCTAACTTTTTCTTCTTTTCTTAAAAATATATAATGTTCTTAA GATTCGGTGAAATCATACACGTTATCTCTTTGGTCTTGACTTGAAATAATTTATTTATTTGATT ATTTATCATCAGATAAGGAGATTCTAGAAATTGAGTAATACCACTTGAACACCATGTCTCTCAG CGTGAGTGAAGTAAACCAAGAGACTTCCAAGAATCACTGAGGTCAAAGGAGCCATCGCCGCCAC CCAAAAGAATTTTGGTTTCTTGATGCTCTGCATCATCATTTCATTCATTAAACACAATTAATAA CGTTTTGATTGTGTAGTTATTTACATTTTCAGTCCACCATATCGTATACTTTTTATTCTTTCTA GAGAAAGATTGAAAAAGACGAAGAGTATAAAGTAATGGAATTATTCGAAAGATCATTGTAGCGT GCTATTCGAAATAAAATGTGTTAATTAGTCACTTATTTAAATTGATATATAAAGGTATACAATT ATAATCTTACGAAATATCTGGTGGAGAGAAGAAAGAATAGAAAACCACATCCAAGAACGCCACT TTCCCATCTCCACTACACAACAAAAACAAACAAACACAAACACATGTTTAGACGTTTACTGTTT AATAATACTATGAATATTCATAGTATTAATTAGGAGAACAATCATCGACATTGAAAATGATATT TTGGATGTATTAGCAACATAACGGAAATGAGAGACACCTCGTGAGTTTGGGAGAAAACGGAACG CATGACAGAGATAACATCGGTAGAGTCTGTGAAATGTTTAAGTCCGAAAATACCCTTAAGCTGT TGCAGACTCACCACCGTCGCTGCTCCTCCCATGAATCCTACTATCGTTGCATGCGATAGAAAGT CCACTATGAACCCTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.259291641

Conservation Information
Conserved circRNAs	NA
PMCS	0.259291641

			
						 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 AT3G51895_circ_g.7

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