Plant Circular RNA Database

Detail information of AT1G43190_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G43190_circ_g.1
					
						ID in PlantcircBase
						ath_circ_005939
					
						Alias
						1:16275504-16278193
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 16275504-16278193  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G43190						
					
						Parent gene annotation
						
							Polypyrimidine tract-binding protein homolog 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G43190_circ_g.2 AT1G43190_circ_g.3 AT1G43190_circ_g.4 AT1G43190_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						flower
					
						Exon boundary  
						
							No-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
						AT1G43190.2:14
AT1G43190.3:14
AT1G43190.1:14

General Information
CircRNA Name	AT1G43190_circ_g.1
ID in PlantcircBase	ath_circ_005939
Alias	1:16275504-16278193
Organism	Arabidpsis thaliana
Position	chr1: 16275504-16278193 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G43190
Parent gene annotation	Polypyrimidine tract-binding protein homolog 3
Parent gene strand	-
Alternative splicing	AT1G43190_circ_g.2 AT1G43190_circ_g.3 AT1G43190_circ_g.4 AT1G43190_circ_g.5
Support reads	2
Tissues	flower
Exon boundary	No-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	AT1G43190.2:14 AT1G43190.3:14 AT1G43190.1:14

			
						 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  
						
							CACAATCAAGAGAAGGTTTTATTTTTAATCTTTACTTCAGAAATCTCATGACCAACATTACGAA
CATGAACGACTTTGGAAGATTCCGCCATTACAAAACcaatgcttccgcagcttcctcctcgttc
tcaaactgtaccagagcttgctttttcccgttcatctcaaacacttttgtgttcactactgcac
cgtgttct

									
								

					

						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
						
							CAATGCTTCCGCAGCTTCCTCCTCGTTCTCAAACTGTACCAGAGCTTGCTTTTTCCCGTTCATC
TCAAACACTTTTGTGTTCACTACTGCACCGTGTTCTTGGACATGGTTCATCACTTCCTCCTCTG
TCACGTCTTGAGGAAGAGTCGATAAGTGAATCATCTTTGTAGGGGAGCAGCAATAGCGGTAATT
CTTTGCAGCATTGCGGTTGAAGCGGTTCAGGTTAGAGTTTACATAATCATGAGAGTCTGTGCCT
GGTGTTATATTTGGATGCTTTGAGAAGTTTACTTCTAACCGCTTACCAAACAGCATTGCTCCCT
GCAAAAGAAACAAAACTTTGCATAAATTAACAATTCCATTTCACATCTTTGTAACTCGGAACTT
GTCCCAAGTACAATCTCAAATGCACAAATAAAGGGACATGGACAAACCTTGAGGAAATGTACTG
CAAGTTCAGCTTGGAAACCATCGCCCATTTGGACAAGGGCATGGTCAGGTTTGTTCCGAAGAAG
CTTAATCCTTACAATGTTCCCGTAAAGAGAAAATAGATTGAATAGCTTATCTTCATCAATACTC
TGAAACAAATGAATCTGGTAAGTTTGGAAAATATTGTAAGAAAAACTAAGTTATCAAAAGCAAA
ACGGGAAATGACCAACTTACATCTGCATTCAGGTTAGAGACAAGGACTGTACACCTATCATTTG
TGCCGGTTATACCCGGAGGCAAGCCTCCTCCAAAGGCAGCTGCAATCGCTGATGTGTTTGCCAT
CTAGTTTTTAAGTAACAGCACAAGAATGAGATTAACTATGCACATAATCAAAACTGTTAACGAA
AAAAGAAATTAAGAATGGACAAGGAGGTTAGATTCTGGCGATATCTTGACCGATCTTGACCAAA
AAAGAGTTGCTAAAACTCTGTATTACCCACCTGAGGATATGCCACTGGAAAAAAGAAAAATATG
GATTAGCAAAAGACAAAAGTGTAGAAGAACAATGCATAGAGTTACTATCATGTAAGGCAACATA
CCTCCTGTATCACCATAGCAAGGCTGCAAGAGAAGAAAATCAGAACATTAAGACGGTATAAAAG
GGCACAAAAGTGTATGTAGTTAATTCGTAAAACAGGTCATACATGCGATGAACGGCCTTTTTGT
TCTGCAGGCAGGTTTGGATTTGTATAATCCCTATTCAAAGGCAAAACAAATCAGCTTTATGAAC
ACCAAGATAACATCAATTGTATAACCGCAGAGAAATGAAATACCTAGATCGATCATTGTTGTAA
TTTACTTGCAGCTCCTCAAGGCTGAAGATGAAAGAACAGGTCAATACTGACAACACTAGAGCAC
AAAAGTGTAGAAACTAACAATGTAACAATAAATGTCATAAACAACATATAAAAGCAAACATAGC
ATACTTTGAGAACTGGATATCCAACTGACAACACCCGTCATATATGTTACGACCCTGCCACAAA
GAAGATGACAAATCTTATTTCAATTATTAGAAAAATAAGGCAGACCTAGAAACTTTTTTTGGTA
AAATGTTTTTTAAAAAAGTCTTAAAGACAAGTACCTGTAGAGCAGTTCTAGCAGAGGCAGCACA
CTGTTGTACCTGATACTGTATAAGAGCTTGAAAACCTAAATAGTCAACAAACAAGCTTATAGTT
AACAATCATCAAACTGTTAGATGGCAAATACAAAGTTTTAACAGCAATATTATTTTAAAGAGAC
CAATAACATGAAACAGACAAACTTTCAAATAATTCTCTAAGCTAAAACGAATAGAAGAGAGAGA
GAGAGAGAGAAAAGAAATGCGGAGAAGCTGACCAGCAGACTTCTGGAAAGTGACGAGCTTCTCG
ACAAATCCATAGGGAGAAAAAACTTGATGCAGGACGTCAACAGTAATTGGATACAGCATGTGAT
GGATTGTGACTAAGAGAATACGGTTCGGCTGTACATCCACCATCCCACAGCAACCACCAGTTAG
ACAAAAGACGGAACGAAGATAGAAAGAAAAGAAAAGAATTGAATATAGAAGTGACGGTTAAGAA
CCACTACGAAATGTAAGTACCTCTATAACAAGACAATAACACAACTAGCACTGCTACTTATATA
ATCAAACGGCTAATAAAATTACAAACCTCATCTTCCCTTCCATGAATATTCTGCTCTATCGTTG
TCAATTCTTGGTGAGAAGAGAATTGGACATACACATTCCTACCTCTACATCAAAGCAAAGGGTT
AGCAAATAGAAGGCAAACAGAAAAAAAAAAGTACATTGATGGGTCACAAACCTTATAGTTGGCT
GAACATTAGTAAAAAACTGAAGAGCACTAACTGCAGAAGAAACATCTTGCATTTGGAGAAGAGC
CTTCACAAAGTACACAAGAAGCCTCATATAAGCCATAAGTTTCCTCAAAAGAAATAGAGAGACA
GAACAAGAAAGTAGAGTTTTGTTTAAGAGACCTGATTCTTTGCCCTGAGCATCACAAGCTTAGT
TATAACACCAAATGGTTGAAAAAGCTGAAGCAAATCATTCTGATAAACAAAGAAGAAACTGTTA
AACTTAACACCAAAACATAAAAGGGTTAAACACAATCAAGAGAAGGTTTTATTTTTAATCTTTA
CTTCAGAAATCTCATGACCAACATTACGAACATGAACGACTTTGGAAGATTCCGCCATTACAAA
AC
						
					

			
		

Sequences
Splice junction sequence	CACAATCAAGAGAAGGTTTTATTTTTAATCTTTACTTCAGAAATCTCATGACCAACATTACGAA CATGAACGACTTTGGAAGATTCCGCCATTACAAAACcaatgcttccgcagcttcctcctcgttc tcaaactgtaccagagcttgctttttcccgttcatctcaaacacttttgtgttcactactgcac cgtgttct
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	CAATGCTTCCGCAGCTTCCTCCTCGTTCTCAAACTGTACCAGAGCTTGCTTTTTCCCGTTCATC TCAAACACTTTTGTGTTCACTACTGCACCGTGTTCTTGGACATGGTTCATCACTTCCTCCTCTG TCACGTCTTGAGGAAGAGTCGATAAGTGAATCATCTTTGTAGGGGAGCAGCAATAGCGGTAATT CTTTGCAGCATTGCGGTTGAAGCGGTTCAGGTTAGAGTTTACATAATCATGAGAGTCTGTGCCT GGTGTTATATTTGGATGCTTTGAGAAGTTTACTTCTAACCGCTTACCAAACAGCATTGCTCCCT GCAAAAGAAACAAAACTTTGCATAAATTAACAATTCCATTTCACATCTTTGTAACTCGGAACTT GTCCCAAGTACAATCTCAAATGCACAAATAAAGGGACATGGACAAACCTTGAGGAAATGTACTG CAAGTTCAGCTTGGAAACCATCGCCCATTTGGACAAGGGCATGGTCAGGTTTGTTCCGAAGAAG CTTAATCCTTACAATGTTCCCGTAAAGAGAAAATAGATTGAATAGCTTATCTTCATCAATACTC TGAAACAAATGAATCTGGTAAGTTTGGAAAATATTGTAAGAAAAACTAAGTTATCAAAAGCAAA ACGGGAAATGACCAACTTACATCTGCATTCAGGTTAGAGACAAGGACTGTACACCTATCATTTG TGCCGGTTATACCCGGAGGCAAGCCTCCTCCAAAGGCAGCTGCAATCGCTGATGTGTTTGCCAT CTAGTTTTTAAGTAACAGCACAAGAATGAGATTAACTATGCACATAATCAAAACTGTTAACGAA AAAAGAAATTAAGAATGGACAAGGAGGTTAGATTCTGGCGATATCTTGACCGATCTTGACCAAA AAAGAGTTGCTAAAACTCTGTATTACCCACCTGAGGATATGCCACTGGAAAAAAGAAAAATATG GATTAGCAAAAGACAAAAGTGTAGAAGAACAATGCATAGAGTTACTATCATGTAAGGCAACATA CCTCCTGTATCACCATAGCAAGGCTGCAAGAGAAGAAAATCAGAACATTAAGACGGTATAAAAG GGCACAAAAGTGTATGTAGTTAATTCGTAAAACAGGTCATACATGCGATGAACGGCCTTTTTGT TCTGCAGGCAGGTTTGGATTTGTATAATCCCTATTCAAAGGCAAAACAAATCAGCTTTATGAAC ACCAAGATAACATCAATTGTATAACCGCAGAGAAATGAAATACCTAGATCGATCATTGTTGTAA TTTACTTGCAGCTCCTCAAGGCTGAAGATGAAAGAACAGGTCAATACTGACAACACTAGAGCAC AAAAGTGTAGAAACTAACAATGTAACAATAAATGTCATAAACAACATATAAAAGCAAACATAGC ATACTTTGAGAACTGGATATCCAACTGACAACACCCGTCATATATGTTACGACCCTGCCACAAA GAAGATGACAAATCTTATTTCAATTATTAGAAAAATAAGGCAGACCTAGAAACTTTTTTTGGTA AAATGTTTTTTAAAAAAGTCTTAAAGACAAGTACCTGTAGAGCAGTTCTAGCAGAGGCAGCACA CTGTTGTACCTGATACTGTATAAGAGCTTGAAAACCTAAATAGTCAACAAACAAGCTTATAGTT AACAATCATCAAACTGTTAGATGGCAAATACAAAGTTTTAACAGCAATATTATTTTAAAGAGAC CAATAACATGAAACAGACAAACTTTCAAATAATTCTCTAAGCTAAAACGAATAGAAGAGAGAGA GAGAGAGAGAAAAGAAATGCGGAGAAGCTGACCAGCAGACTTCTGGAAAGTGACGAGCTTCTCG ACAAATCCATAGGGAGAAAAAACTTGATGCAGGACGTCAACAGTAATTGGATACAGCATGTGAT GGATTGTGACTAAGAGAATACGGTTCGGCTGTACATCCACCATCCCACAGCAACCACCAGTTAG ACAAAAGACGGAACGAAGATAGAAAGAAAAGAAAAGAATTGAATATAGAAGTGACGGTTAAGAA CCACTACGAAATGTAAGTACCTCTATAACAAGACAATAACACAACTAGCACTGCTACTTATATA ATCAAACGGCTAATAAAATTACAAACCTCATCTTCCCTTCCATGAATATTCTGCTCTATCGTTG TCAATTCTTGGTGAGAAGAGAATTGGACATACACATTCCTACCTCTACATCAAAGCAAAGGGTT AGCAAATAGAAGGCAAACAGAAAAAAAAAAGTACATTGATGGGTCACAAACCTTATAGTTGGCT GAACATTAGTAAAAAACTGAAGAGCACTAACTGCAGAAGAAACATCTTGCATTTGGAGAAGAGC CTTCACAAAGTACACAAGAAGCCTCATATAAGCCATAAGTTTCCTCAAAAGAAATAGAGAGACA GAACAAGAAAGTAGAGTTTTGTTTAAGAGACCTGATTCTTTGCCCTGAGCATCACAAGCTTAGT TATAACACCAAATGGTTGAAAAAGCTGAAGCAAATCATTCTGATAAACAAAGAAGAAACTGTTA AACTTAACACCAAAACATAAAAGGGTTAAACACAATCAAGAGAAGGTTTTATTTTTAATCTTTA CTTCAGAAATCTCATGACCAACATTACGAACATGAACGACTTTGGAAGATTCCGCCATTACAAA AC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135674411

Conservation Information
Conserved circRNAs	NA
PMCS	0.135674411

			
						 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 AT1G43190_circ_g.1

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