Plant Circular RNA Database

Detail information of AT2G28620_circ_g.19

			
						 General Information
					
						CircRNA Name
						AT2G28620_circ_g.19
					
						ID in PlantcircBase
						ath_circ_015423
					
						Alias
						2:12268601-12270076
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 12268601-12270076  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G28620						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G28620_circ_g.1 AT2G28620_circ_g.2 AT2G28620_circ_g.3 AT2G28620_circ_g.4 AT2G28620_circ_g.5 AT2G28620_circ_g.6 AT2G28620_circ_g.7 AT2G28620_circ_g.8 AT2G28620_circ_g.9 AT2G28620_circ_g.10 AT2G28620_circ_g.11 AT2G28620_circ_g.12 AT2G28620_circ_g.13 AT2G28620_circ_g.14 AT2G28620_circ_g.15 AT2G28620_circ_g.16 AT2G28620_circ_g.17 AT2G28620_circ_g.18 AT2G28620_circ_g.20 						
					
						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
						AT2G28620.1:5
AT2G28620.2:5
AT2G28620.3:5

General Information
CircRNA Name	AT2G28620_circ_g.19
ID in PlantcircBase	ath_circ_015423
Alias	2:12268601-12270076
Organism	Arabidpsis thaliana
Position	chr2: 12268601-12270076 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G28620
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	AT2G28620_circ_g.1 AT2G28620_circ_g.2 AT2G28620_circ_g.3 AT2G28620_circ_g.4 AT2G28620_circ_g.5 AT2G28620_circ_g.6 AT2G28620_circ_g.7 AT2G28620_circ_g.8 AT2G28620_circ_g.9 AT2G28620_circ_g.10 AT2G28620_circ_g.11 AT2G28620_circ_g.12 AT2G28620_circ_g.13 AT2G28620_circ_g.14 AT2G28620_circ_g.15 AT2G28620_circ_g.16 AT2G28620_circ_g.17 AT2G28620_circ_g.18 AT2G28620_circ_g.20
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	AT2G28620.1:5 AT2G28620.2:5 AT2G28620.3:5

			
						 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  
						
							GGAGATTTCACCGAACTTCCTTTTTTCGAATTGTTAGAATCCATTATCTTCTCTACCTTCTTAC
AGTTTCGTAAGCAACAAAACTATCTTATCTCTCTCTctatatggaatgtgaccagagtgttcaa
ccaaagcatttatgacacgtccaagtgtgagcaaacttttgttgatctcaccagcttccctggc
tctaccct

									
								

					

						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
						
							CTATATGGAATGTGACCAGAGTGTTCAACCAAAGCATTTATGACACGTCCAAGTGTGAGCAAAC
TTTTGTTGATCTCACCAGCTTCCCTGGCTCTACCCTGCAAAATAGTGACTCTTATATTGTTTAG
TAAATCATCAAGGTAAGACACTATTATTCTGTCAATAAAAAATCATGGTTCCTGACTGTTTTAG
GTACCTCTCGAGCACCAGACCGTGAAATATTCTCTGAACCAGCAAGATCAACTAGATTCAGCTT
TCCACTTTTGACAATCTCTTCCCCTTCTGGAGTACATTCCTTAATATGGATTGTAACCGAAAAT
ATTGAATGAGATCTACTACTTTGTTTGTTGAGAAGAGTCTCTGCTGTGCGTCTCTTAGCTGAAC
CTTTCTCCAAGACTTTGTAAATTTCATCAGCAGTAGACACAATCTCTTCTTCCAATCCGCGGAC
AAAAACACCACCTTTGCCATCTTCCATAAGAGCCAGAGGTTTCTTTGATTTATCATCAGCGAAT
TTTGTTTCTTCCGGAGCTAAAAGGTCTGTCAGTTCTTCATTGTAGAGCTCAAGAAATGAAACTT
TCAAACTGTATTCAGCAGCACTTTGTGCTTCCAGTATATCAAATATCTGTTTAACTGCTCTAGG
GATAACACCTGCATCACTCGGAATTTCACCATTCTGGCAACAAAAGAAATATGTTCCATCAAAT
GAGGATTCAGTTACCATCAGTAAAGAAACTTCAAATGATGTTCTTGGAATAGTTAGCGTACCTT
TTTTCTTGCTCCTCCTTCCATTGTGTATGTCTTACCAGTTCCTGTTTGCCCATATGCAAAGATG
GTGCAGTTATACCCATCAAGAACCTCAAAGACAATTGGAGAAACTGCTTGATGATACAGATCCT
TTTGCTGGGATGTTGGGCCAAAAACCTATCAAATTTCACCAACTTATAAGCATGATACTTTCTG
TCAGAAACCTATAATGATGCACATTATCTAAAAAGCCTTAAAGACTAAACCAAAACCTTGTCAA
ACAAAAACGTTTTATCAATCTGCTTCCCAGCTATATTTTGTGCTACCGCTACTTCCTTTTTCCG
GTCATTACAGGTAAGAACAGCCGGTGTTTGTAACCTCGTCTCCTCTGAATTAAACGGTCTGCAG
AAACCACATAGAGTAAAGATTAGTACACTGAAACAACAACAATAAGCTTCTTATCAATGTTACC
ATCCAAAAAGAAAGGAATAAACCAAATGTACCTGCAACGAACAATAACTTGTATATTCACACCC
TTTTCTTTCTCATTCTTGCTAACTGGATTCGAGTTTGAGTTTGAGTCAACTCGAAAATCTCGAT
TTGACTTCTCAGTCGAACGTGGAGTTTGACATGGAGATTTCACCGAACTTCCTTTTTTCGAATT
GTTAGAATCCATTATCTTCTCTACCTTCTTACAGTTTCGTAAGCAACAAAACTATCTTATCTCT
CTCT
						
					

			
		

Sequences
Splice junction sequence	GGAGATTTCACCGAACTTCCTTTTTTCGAATTGTTAGAATCCATTATCTTCTCTACCTTCTTAC AGTTTCGTAAGCAACAAAACTATCTTATCTCTCTCTctatatggaatgtgaccagagtgttcaa ccaaagcatttatgacacgtccaagtgtgagcaaacttttgttgatctcaccagcttccctggc tctaccct
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	CTATATGGAATGTGACCAGAGTGTTCAACCAAAGCATTTATGACACGTCCAAGTGTGAGCAAAC TTTTGTTGATCTCACCAGCTTCCCTGGCTCTACCCTGCAAAATAGTGACTCTTATATTGTTTAG TAAATCATCAAGGTAAGACACTATTATTCTGTCAATAAAAAATCATGGTTCCTGACTGTTTTAG GTACCTCTCGAGCACCAGACCGTGAAATATTCTCTGAACCAGCAAGATCAACTAGATTCAGCTT TCCACTTTTGACAATCTCTTCCCCTTCTGGAGTACATTCCTTAATATGGATTGTAACCGAAAAT ATTGAATGAGATCTACTACTTTGTTTGTTGAGAAGAGTCTCTGCTGTGCGTCTCTTAGCTGAAC CTTTCTCCAAGACTTTGTAAATTTCATCAGCAGTAGACACAATCTCTTCTTCCAATCCGCGGAC AAAAACACCACCTTTGCCATCTTCCATAAGAGCCAGAGGTTTCTTTGATTTATCATCAGCGAAT TTTGTTTCTTCCGGAGCTAAAAGGTCTGTCAGTTCTTCATTGTAGAGCTCAAGAAATGAAACTT TCAAACTGTATTCAGCAGCACTTTGTGCTTCCAGTATATCAAATATCTGTTTAACTGCTCTAGG GATAACACCTGCATCACTCGGAATTTCACCATTCTGGCAACAAAAGAAATATGTTCCATCAAAT GAGGATTCAGTTACCATCAGTAAAGAAACTTCAAATGATGTTCTTGGAATAGTTAGCGTACCTT TTTTCTTGCTCCTCCTTCCATTGTGTATGTCTTACCAGTTCCTGTTTGCCCATATGCAAAGATG GTGCAGTTATACCCATCAAGAACCTCAAAGACAATTGGAGAAACTGCTTGATGATACAGATCCT TTTGCTGGGATGTTGGGCCAAAAACCTATCAAATTTCACCAACTTATAAGCATGATACTTTCTG TCAGAAACCTATAATGATGCACATTATCTAAAAAGCCTTAAAGACTAAACCAAAACCTTGTCAA ACAAAAACGTTTTATCAATCTGCTTCCCAGCTATATTTTGTGCTACCGCTACTTCCTTTTTCCG GTCATTACAGGTAAGAACAGCCGGTGTTTGTAACCTCGTCTCCTCTGAATTAAACGGTCTGCAG AAACCACATAGAGTAAAGATTAGTACACTGAAACAACAACAATAAGCTTCTTATCAATGTTACC ATCCAAAAAGAAAGGAATAAACCAAATGTACCTGCAACGAACAATAACTTGTATATTCACACCC TTTTCTTTCTCATTCTTGCTAACTGGATTCGAGTTTGAGTTTGAGTCAACTCGAAAATCTCGAT TTGACTTCTCAGTCGAACGTGGAGTTTGACATGGAGATTTCACCGAACTTCCTTTTTTCGAATT GTTAGAATCCATTATCTTCTCTACCTTCTTACAGTTTCGTAAGCAACAAAACTATCTTATCTCT CTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.251043934

Conservation Information
Conserved circRNAs	NA
PMCS	0.251043934

			
						 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 AT2G28620_circ_g.19

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