Plant Circular RNA Database

Detail information of AT1G09195_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G09195_circ_g.1
					
						ID in PlantcircBase
						ath_circ_001592
					
						Alias
						1:2968970-2969494
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2968970-2969494  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G09195						
					
						Parent gene annotation
						
							Metal-dependent phosphohydrolase, HD subdomain (InterPro:IPR0066
74), Ppx/GppA phosphatase (InterPro:IPR003695)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G09195_circ_g.2 AT1G09195_circ_g.3 AT1G09195_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						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
						AT1G09195.14:2
AT1G09195.15:2
AT1G09195.2:2
AT1G09195.13:2
AT1G09195.11:2
AT1G09195.4:1
AT1G09195.6:2
AT1G09195.10:2
AT1G09195.5:1
AT1G09195.9:1
AT1G09195.12:2
AT1G09195.1:2
AT1G09195.8:2
AT1G09195.7:1
AT1G09195.3:1

General Information
CircRNA Name	AT1G09195_circ_g.1
ID in PlantcircBase	ath_circ_001592
Alias	1:2968970-2969494
Organism	Arabidpsis thaliana
Position	chr1: 2968970-2969494 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G09195
Parent gene annotation	Metal-dependent phosphohydrolase, HD subdomain (InterPro:IPR0066 74), Ppx/GppA phosphatase (InterPro:IPR003695)
Parent gene strand	-
Alternative splicing	AT1G09195_circ_g.2 AT1G09195_circ_g.3 AT1G09195_circ_g.4
Support reads	2
Tissues	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	AT1G09195.14:2 AT1G09195.15:2 AT1G09195.2:2 AT1G09195.13:2 AT1G09195.11:2 AT1G09195.4:1 AT1G09195.6:2 AT1G09195.10:2 AT1G09195.5:1 AT1G09195.9:1 AT1G09195.12:2 AT1G09195.1:2 AT1G09195.8:2 AT1G09195.7:1 AT1G09195.3:1

			
						 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  
						
							ATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCG
TGTAATCAAACACAAAATTATGAATTTTCGCTTTGCccttttaaaatgctcaacttctttctcc
agttgtgattcatcagagtttttgtttacttgatcttgacaaccaacctctaccggttcctggt
gttgtctt

									
								

					

						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: 228
Transcript exons: 2968970-2969077,2969375-2969494
CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT
TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACGAGTTTGAAGATCTCGGAAG
ATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCG
TGTAATCAAACACAAAATTATGAATTTTCGCTTTGC
Transcript length: 433
Transcript exons: 2968970-2969282,2969375-2969494
CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT
TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA
ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA
TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG
AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATGAGTTTG
AAGATCTCGGAAGATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTG
TAACTGATAATCGTGTAATCAAACACAAAATTATGAATTTTCGCTTTGC
Transcript length: 525
Transcript exons: 2968970-2969494
CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT
TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA
ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA
TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG
AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATCTAGGTA
CAACGGGGTTGATTGTAGAGTTTGAAATGGTTATTATATGGGTTTGCTCAGTGTAGGAAGTAGA
ATGATTAAAAGATGTACTTACGAGTTTGAAGATCTCGGAAGATTCAATAAATTCAACTTCTTGG
AGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCGTGTAATCAAACACAAAATTATGA
ATTTTCGCTTTGC
						
					

						Genomic sequence
						
							CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT
TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA
ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA
TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG
AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATCTAGGTA
CAACGGGGTTGATTGTAGAGTTTGAAATGGTTATTATATGGGTTTGCTCAGTGTAGGAAGTAGA
ATGATTAAAAGATGTACTTACGAGTTTGAAGATCTCGGAAGATTCAATAAATTCAACTTCTTGG
AGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCGTGTAATCAAACACAAAATTATGA
ATTTTCGCTTTGC
						
					

			
		

Sequences
Splice junction sequence	ATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCG TGTAATCAAACACAAAATTATGAATTTTCGCTTTGCccttttaaaatgctcaacttctttctcc agttgtgattcatcagagtttttgtttacttgatcttgacaaccaacctctaccggttcctggt gttgtctt
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: 228 Transcript exons: 2968970-2969077,2969375-2969494 CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACGAGTTTGAAGATCTCGGAAG ATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCG TGTAATCAAACACAAAATTATGAATTTTCGCTTTGC Transcript length: 433 Transcript exons: 2968970-2969282,2969375-2969494 CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATGAGTTTG AAGATCTCGGAAGATTCAATAAATTCAACTTCTTGGAGATCCATATTCTCATTCCGTTGAAGTG TAACTGATAATCGTGTAATCAAACACAAAATTATGAATTTTCGCTTTGC Transcript length: 525 Transcript exons: 2968970-2969494 CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATCTAGGTA CAACGGGGTTGATTGTAGAGTTTGAAATGGTTATTATATGGGTTTGCTCAGTGTAGGAAGTAGA ATGATTAAAAGATGTACTTACGAGTTTGAAGATCTCGGAAGATTCAATAAATTCAACTTCTTGG AGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCGTGTAATCAAACACAAAATTATGA ATTTTCGCTTTGC
Genomic sequence	CCTTTTAAAATGCTCAACTTCTTTCTCCAGTTGTGATTCATCAGAGTTTTTGTTTACTTGATCT TGACAACCAACCTCTACCGGTTCCTGGTGTTGTCTTTTCAGCACCTGCAATCAAACAAACAATA ATCATAGTAAAGTGAAGAGACAAAGATTTAAGACACTGATATTGAGATGGAAATATCCATTTTA TCCCCAGCAAGGAAATTAACTAACAAGTTCGAAATTTTCACAAGATTTAAATAAATTGACTAAG AGGTGATCAGCATACCATTAATTTCATTGGAAGAACGAAATGAAGAATGCAGGGAATCTAGGTA CAACGGGGTTGATTGTAGAGTTTGAAATGGTTATTATATGGGTTTGCTCAGTGTAGGAAGTAGA ATGATTAAAAGATGTACTTACGAGTTTGAAGATCTCGGAAGATTCAATAAATTCAACTTCTTGG AGATCCATATTCTCATTCCGTTGAAGTGTAACTGATAATCGTGTAATCAAACACAAAATTATGA ATTTTCGCTTTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.254450921

Conservation Information
Conserved circRNAs	NA
PMCS	0.254450921

			
						 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 AT1G09195_circ_g.1

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