Plant Circular RNA Database

Detail information of AT1G08520_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G08520_circ_g.2
					
						ID in PlantcircBase
						ath_circ_001402
					
						Alias
						1:2697015-2697995
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2697015-2697995  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G08520						
					
						Parent gene annotation
						
							Mg-protoporphyrin IX chelatase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G08520_circ_g.1 AT1G08520_circ_g.3 AT1G08520_circ_g.4 AT1G08520_circ_g.5 AT1G08520_circ_g.6 AT1G08520_circ_g.7 AT1G08520_circ_g.8 AT1G08520_circ_g.9 AT1G08520_circ_g.10 AT1G08520_circ_g.11 AT1G08520_circ_g.12 AT1G08520_circ_g.13 AT1G08520_circ_g.14 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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  
						
							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
						AT1G08520.1:4

General Information
CircRNA Name	AT1G08520_circ_g.2
ID in PlantcircBase	ath_circ_001402
Alias	1:2697015-2697995
Organism	Arabidpsis thaliana
Position	chr1: 2697015-2697995 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G08520
Parent gene annotation	Mg-protoporphyrin IX chelatase
Parent gene strand	+
Alternative splicing	AT1G08520_circ_g.1 AT1G08520_circ_g.3 AT1G08520_circ_g.4 AT1G08520_circ_g.5 AT1G08520_circ_g.6 AT1G08520_circ_g.7 AT1G08520_circ_g.8 AT1G08520_circ_g.9 AT1G08520_circ_g.10 AT1G08520_circ_g.11 AT1G08520_circ_g.12 AT1G08520_circ_g.13 AT1G08520_circ_g.14
Support reads	1/1
Tissues	seedling;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	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	AT1G08520.1:4

			
						 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  
						
							AGATCGTGTCGCAGCAGTTGGAATTGCCACACAGTTTCAGGAACGCTGTAATGAGGTTTTTAGA
ATGGTAAATGAAGAGACAGAAACAGCAAAGACGCAGgaaggcataaaaactgctcttttacttg
gcgcggttgatcgtgaaatcggagggattgccatttcaggtcgtagaggcactgcaaaaacagt
catggcgc

									
								

					

						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: 705
Transcript exons: 2697015-2697193,2697283-2697367,2697453-2697769,2697872-
2697995
GAAGGCATAAAAACTGCTCTTTTACTTGGCGCGGTTGATCGTGAAATCGGAGGGATTGCCATTT
CAGGTCGTAGAGGCACTGCAAAAACAGTCATGGCGCGAGGGCTTCATGAAATCCTCCCTCCTAT
TGAAGTTGTTGTAGGCTCAATATCAAATGCTGACCCAGCTTGTCCAGATGAGTGGGAAGATGAC
TTAGATGAGCGCATAGAGTACAATGCTGACAATACCATTAAGACTGAGATTGTCAAATCTCCTT
TCATTCAGATTCCACTAGGAGTTACAGAAGACAGACTCATTGGGTCTGTTGATGTTGAGGAGTC
TGTGAAAAGGGGGACAACTGTTTTCCAACCTGGTCTTTTGGCTGAAGCCCATAGAGGAGTGTTG
TATGTTGATGAAATAAATCTCTTAGATGAGGGAATTAGTAATTTGCTTCTCAATGTATTGACGG
ATGGTGTTAATATAGTTGAAAGAGAAGGAATCAGCTTTAGGCACCCGTGCAAACCACTTTTAAT
TGCAACCTATAACCCTGAAGAAGGTGCTGTTCGAGAGCACTTGCTAGACCGTGTTGCCATTAAT
TTAAGTGCAGACCTACCTATGAGTTTTGAAGATCGTGTCGCAGCAGTTGGAATTGCCACACAGT
TTCAGGAACGCTGTAATGAGGTTTTTAGAATGGTAAATGAAGAGACAGAAACAGCAAAGACGCA
G
						
					

						Genomic sequence
						
							GAAGGCATAAAAACTGCTCTTTTACTTGGCGCGGTTGATCGTGAAATCGGAGGGATTGCCATTT
CAGGTCGTAGAGGCACTGCAAAAACAGTCATGGCGCGAGGGCTTCATGAAATCCTCCCTCCTAT
TGAAGTTGTTGTAGGCTCAATATCAAATGCTGACCCAGCTTGTCCAGATGAGTAAGATTCTTAC
AATCTGAGAAAGAAATTGCTTTTCTTCTTCTTTTAATTCTTACACTGTTGGCTTGTACCTTTTG
TGATATATGTAGGTGGGAAGATGACTTAGATGAGCGCATAGAGTACAATGCTGACAATACCATT
AAGACTGAGATTGTCAAATCTCCTTTCATTCAGGTACATTTAGTTTTAGGAGGCATTACAATTT
TTCTGAAATTGTTTTTCTTTTTACTTAGGTTTTCCTGTCGTTTATGTCACACAGATTCCACTAG
GAGTTACAGAAGACAGACTCATTGGGTCTGTTGATGTTGAGGAGTCTGTGAAAAGGGGGACAAC
TGTTTTCCAACCTGGTCTTTTGGCTGAAGCCCATAGAGGAGTGTTGTATGTTGATGAAATAAAT
CTCTTAGATGAGGGAATTAGTAATTTGCTTCTCAATGTATTGACGGATGGTGTTAATATAGTTG
AAAGAGAAGGAATCAGCTTTAGGCACCCGTGCAAACCACTTTTAATTGCAACCTATAACCCTGA
AGAAGGTGCTGTTCGAGAGCACTTGCTAGACCGTGTTGCCATTAATTTAAGGTACTACTGGAGT
TTATAAATCAAGTGTGATAAATATTGCCTGTTTCTTTTGGGTAATTCCCATTTCTTTCTCTTTT
TACATCACGATGTTAACCTTTGCAGTGCAGACCTACCTATGAGTTTTGAAGATCGTGTCGCAGC
AGTTGGAATTGCCACACAGTTTCAGGAACGCTGTAATGAGGTTTTTAGAATGGTAAATGAAGAG
ACAGAAACAGCAAAGACGCAG
						
					

			
		

Sequences
Splice junction sequence	AGATCGTGTCGCAGCAGTTGGAATTGCCACACAGTTTCAGGAACGCTGTAATGAGGTTTTTAGA ATGGTAAATGAAGAGACAGAAACAGCAAAGACGCAGgaaggcataaaaactgctcttttacttg gcgcggttgatcgtgaaatcggagggattgccatttcaggtcgtagaggcactgcaaaaacagt catggcgc
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: 705 Transcript exons: 2697015-2697193,2697283-2697367,2697453-2697769,2697872- 2697995 GAAGGCATAAAAACTGCTCTTTTACTTGGCGCGGTTGATCGTGAAATCGGAGGGATTGCCATTT CAGGTCGTAGAGGCACTGCAAAAACAGTCATGGCGCGAGGGCTTCATGAAATCCTCCCTCCTAT TGAAGTTGTTGTAGGCTCAATATCAAATGCTGACCCAGCTTGTCCAGATGAGTGGGAAGATGAC TTAGATGAGCGCATAGAGTACAATGCTGACAATACCATTAAGACTGAGATTGTCAAATCTCCTT TCATTCAGATTCCACTAGGAGTTACAGAAGACAGACTCATTGGGTCTGTTGATGTTGAGGAGTC TGTGAAAAGGGGGACAACTGTTTTCCAACCTGGTCTTTTGGCTGAAGCCCATAGAGGAGTGTTG TATGTTGATGAAATAAATCTCTTAGATGAGGGAATTAGTAATTTGCTTCTCAATGTATTGACGG ATGGTGTTAATATAGTTGAAAGAGAAGGAATCAGCTTTAGGCACCCGTGCAAACCACTTTTAAT TGCAACCTATAACCCTGAAGAAGGTGCTGTTCGAGAGCACTTGCTAGACCGTGTTGCCATTAAT TTAAGTGCAGACCTACCTATGAGTTTTGAAGATCGTGTCGCAGCAGTTGGAATTGCCACACAGT TTCAGGAACGCTGTAATGAGGTTTTTAGAATGGTAAATGAAGAGACAGAAACAGCAAAGACGCA G
Genomic sequence	GAAGGCATAAAAACTGCTCTTTTACTTGGCGCGGTTGATCGTGAAATCGGAGGGATTGCCATTT CAGGTCGTAGAGGCACTGCAAAAACAGTCATGGCGCGAGGGCTTCATGAAATCCTCCCTCCTAT TGAAGTTGTTGTAGGCTCAATATCAAATGCTGACCCAGCTTGTCCAGATGAGTAAGATTCTTAC AATCTGAGAAAGAAATTGCTTTTCTTCTTCTTTTAATTCTTACACTGTTGGCTTGTACCTTTTG TGATATATGTAGGTGGGAAGATGACTTAGATGAGCGCATAGAGTACAATGCTGACAATACCATT AAGACTGAGATTGTCAAATCTCCTTTCATTCAGGTACATTTAGTTTTAGGAGGCATTACAATTT TTCTGAAATTGTTTTTCTTTTTACTTAGGTTTTCCTGTCGTTTATGTCACACAGATTCCACTAG GAGTTACAGAAGACAGACTCATTGGGTCTGTTGATGTTGAGGAGTCTGTGAAAAGGGGGACAAC TGTTTTCCAACCTGGTCTTTTGGCTGAAGCCCATAGAGGAGTGTTGTATGTTGATGAAATAAAT CTCTTAGATGAGGGAATTAGTAATTTGCTTCTCAATGTATTGACGGATGGTGTTAATATAGTTG AAAGAGAAGGAATCAGCTTTAGGCACCCGTGCAAACCACTTTTAATTGCAACCTATAACCCTGA AGAAGGTGCTGTTCGAGAGCACTTGCTAGACCGTGTTGCCATTAATTTAAGGTACTACTGGAGT TTATAAATCAAGTGTGATAAATATTGCCTGTTTCTTTTGGGTAATTCCCATTTCTTTCTCTTTT TACATCACGATGTTAACCTTTGCAGTGCAGACCTACCTATGAGTTTTGAAGATCGTGTCGCAGC AGTTGGAATTGCCACACAGTTTCAGGAACGCTGTAATGAGGTTTTTAGAATGGTAAATGAAGAG ACAGAAACAGCAAAGACGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.45990564

Conservation Information
Conserved circRNAs	NA
PMCS	0.45990564

			
						 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 AT1G08520_circ_g.2

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