Plant Circular RNA Database

Detail information of AT1G63690_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G63690_circ_g.3
					
						ID in PlantcircBase
						ath_circ_008529
					
						Alias
						1:23619006-23620703
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 23619006-23620703  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G63690						
					
						Parent gene annotation
						
							Signal peptide peptidase-like 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G63690_circ_g.1 AT1G63690_circ_g.2 AT1G63690_circ_g.4 AT1G63690_circ_g.5 AT1G63690_circ_g.6 AT1G63690_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						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
						AT1G63690.2:6
AT1G63690.1:6

General Information
CircRNA Name	AT1G63690_circ_g.3
ID in PlantcircBase	ath_circ_008529
Alias	1:23619006-23620703
Organism	Arabidpsis thaliana
Position	chr1: 23619006-23620703 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G63690
Parent gene annotation	Signal peptide peptidase-like 2
Parent gene strand	+
Alternative splicing	AT1G63690_circ_g.1 AT1G63690_circ_g.2 AT1G63690_circ_g.4 AT1G63690_circ_g.5 AT1G63690_circ_g.6 AT1G63690_circ_g.7
Support reads	2
Tissues	seedling
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	AT1G63690.2:6 AT1G63690.1:6

			
						 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  
						
							CAGTTGATTTGAAAACTGGTTATAGTCTTAGATGATGTATGATGTAATAACTTCTTTATCTTCA
GGGTTTGCAAACTTGCCTCGTCGCGTTACTATCAAGgtgaaagttcaaacgtggattgatggtg
ttgagaatgaggagtttgtgggggttggcgctagatttgggaagcggatagtttccaaggagaa
gaatgcaa

									
								

					

						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
						
							GTGAAAGTTCAAACGTGGATTGATGGTGTTGAGAATGAGGAGTTTGTGGGGGTTGGCGCTAGAT
TTGGGAAGCGGATAGTTTCCAAGGAGAAGAATGCAAACCAGACTCACCTTGTTTTTGCAAATCC
TCGTGATTCTTGTACACCGCTCAAGAACAAGGTTTTTATGACCTATGACATTAGAATCAATGCA
TTTTAAATTAGTTGTGATGTTGAAAGTAAATGTGTTAACTTATGTGTTCAATCTTTGTTAGCTT
TCTGGAGATGTTGTTATTGTGGAACGGGGCAACTGTCGGTTCACAGCAAAGGCGAATAATGCAG
AAGCTGCTGGTGCCTCTGCTCTGCTCATCATCAATAATCAGAAAGGTATTTTGTTTTGTTGAAA
TTGTTTTGATGTTATTATAGCAATCAGTTATATTTGGGTATGCTTACTATCACAGACAATATTG
TTTGTAGAATTTAATGGTTTGTATGTTTGTTTGTCTCTGACAGAACTTTACAAAATGGTTTGTG
AACCGGATGAAACTGATTTAGATATACAGATTCCTGCCGTCATGCTCCCGCAAGATGCTGGTGC
ATCCTTGCAAAAGATGCTAGCCAACAGTTCTAAAGGTATGTCCTTTTCTATTTCAATCAGGATA
TGCTTCCGAAGTTGTCATTTTAAGCTTGTATTGTAAATCATTATATGTATCGGTTAACTCAACA
ATCTTCTGCACTTGTCAGTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGC
TGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGG
AGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGGTCAGACATTTTCTACTTATTT
GGGAATAATAATATTAGGCTAGGAAGATTTAGTTCGATGGGTAAGGATAACATAAACTGCCAAT
AAGTAAGTCCTTTGCCCTTCTTGTGCATTTCCAATGATGCCAAAAGGGACAGAGTAGTTGGTAA
CTTGGTTAGGCCGAGGAAGAAAAGTCAATTGTAGTATATTGAACAACGCTTAGGCATTTCTTTA
CCATGTTACTTTCCCAATTATGGAAAGGTTGTGTCAAAGATGAACATCCAAGAAACGGATAGGT
AACGGATGGCTTTTCTTAATGAGCTGGGCCCCTCCTTGAGACATTGTCTACTTCTGACACCAGA
CTCACATGGTTTTGTTTATTTTTTGCTTTTGTTAATCGTTTTGATTTATCACTGTTTTTATTCG
TAAGTAAGCATTCTTACTTCTAACATTATTGTTTCTGCACAAATGTAGGATGCTATAGATGAAA
TCCCTAACACAAATGATGGGGGTAGTGGTGTTGTAGAGATCAATTCTATTTCAGCTATTTTTTT
CGTAGTTCTTGCTTCGGGATTCCTGGTGATTCTTTACAAGCTTATGTCTTATTGGTTTGTGGAG
CTTCTTGTGGTCGTTTTCTGCATTGGTGGTGTTGAGGTACCAACTTCTTTTCAGTTCTTTTCTT
CTTCTATGCATCCTCTCAGTACGAGTCTCTTTCGACTAAGGATCATTATACAATGCATACTTCA
GTTGATTTGAAAACTGGTTATAGTCTTAGATGATGTATGATGTAATAACTTCTTTATCTTCAGG
GTTTGCAAACTTGCCTCGTCGCGTTACTATCAAG
						
					

			
		

Sequences
Splice junction sequence	CAGTTGATTTGAAAACTGGTTATAGTCTTAGATGATGTATGATGTAATAACTTCTTTATCTTCA GGGTTTGCAAACTTGCCTCGTCGCGTTACTATCAAGgtgaaagttcaaacgtggattgatggtg ttgagaatgaggagtttgtgggggttggcgctagatttgggaagcggatagtttccaaggagaa gaatgcaa
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	GTGAAAGTTCAAACGTGGATTGATGGTGTTGAGAATGAGGAGTTTGTGGGGGTTGGCGCTAGAT TTGGGAAGCGGATAGTTTCCAAGGAGAAGAATGCAAACCAGACTCACCTTGTTTTTGCAAATCC TCGTGATTCTTGTACACCGCTCAAGAACAAGGTTTTTATGACCTATGACATTAGAATCAATGCA TTTTAAATTAGTTGTGATGTTGAAAGTAAATGTGTTAACTTATGTGTTCAATCTTTGTTAGCTT TCTGGAGATGTTGTTATTGTGGAACGGGGCAACTGTCGGTTCACAGCAAAGGCGAATAATGCAG AAGCTGCTGGTGCCTCTGCTCTGCTCATCATCAATAATCAGAAAGGTATTTTGTTTTGTTGAAA TTGTTTTGATGTTATTATAGCAATCAGTTATATTTGGGTATGCTTACTATCACAGACAATATTG TTTGTAGAATTTAATGGTTTGTATGTTTGTTTGTCTCTGACAGAACTTTACAAAATGGTTTGTG AACCGGATGAAACTGATTTAGATATACAGATTCCTGCCGTCATGCTCCCGCAAGATGCTGGTGC ATCCTTGCAAAAGATGCTAGCCAACAGTTCTAAAGGTATGTCCTTTTCTATTTCAATCAGGATA TGCTTCCGAAGTTGTCATTTTAAGCTTGTATTGTAAATCATTATATGTATCGGTTAACTCAACA ATCTTCTGCACTTGTCAGTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGC TGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTGGTCTGCATGG AGTGCCCGAGAAGCAGCTATTGAACATGATAAGCTACTGAAGGTCAGACATTTTCTACTTATTT GGGAATAATAATATTAGGCTAGGAAGATTTAGTTCGATGGGTAAGGATAACATAAACTGCCAAT AAGTAAGTCCTTTGCCCTTCTTGTGCATTTCCAATGATGCCAAAAGGGACAGAGTAGTTGGTAA CTTGGTTAGGCCGAGGAAGAAAAGTCAATTGTAGTATATTGAACAACGCTTAGGCATTTCTTTA CCATGTTACTTTCCCAATTATGGAAAGGTTGTGTCAAAGATGAACATCCAAGAAACGGATAGGT AACGGATGGCTTTTCTTAATGAGCTGGGCCCCTCCTTGAGACATTGTCTACTTCTGACACCAGA CTCACATGGTTTTGTTTATTTTTTGCTTTTGTTAATCGTTTTGATTTATCACTGTTTTTATTCG TAAGTAAGCATTCTTACTTCTAACATTATTGTTTCTGCACAAATGTAGGATGCTATAGATGAAA TCCCTAACACAAATGATGGGGGTAGTGGTGTTGTAGAGATCAATTCTATTTCAGCTATTTTTTT CGTAGTTCTTGCTTCGGGATTCCTGGTGATTCTTTACAAGCTTATGTCTTATTGGTTTGTGGAG CTTCTTGTGGTCGTTTTCTGCATTGGTGGTGTTGAGGTACCAACTTCTTTTCAGTTCTTTTCTT CTTCTATGCATCCTCTCAGTACGAGTCTCTTTCGACTAAGGATCATTATACAATGCATACTTCA GTTGATTTGAAAACTGGTTATAGTCTTAGATGATGTATGATGTAATAACTTCTTTATCTTCAGG GTTTGCAAACTTGCCTCGTCGCGTTACTATCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159901595

Conservation Information
Conserved circRNAs	NA
PMCS	0.159901595

			
						 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 AT1G63690_circ_g.3

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