Plant Circular RNA Database

Detail information of AT4G10060_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G10060_circ_g.1
					
						ID in PlantcircBase
						ath_circ_030133
					
						Alias
						4:6289345-6291162
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 6289345-6291162  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G10060						
					
						Parent gene annotation
						
							Non-lysosomal glucosylceramidase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G10060_circ_g.2 AT4G10060_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						leaf
					
						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
						AT4G10060.1:2
AT4G10060.2:2

General Information
CircRNA Name	AT4G10060_circ_g.1
ID in PlantcircBase	ath_circ_030133
Alias	4:6289345-6291162
Organism	Arabidpsis thaliana
Position	chr4: 6289345-6291162 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G10060
Parent gene annotation	Non-lysosomal glucosylceramidase
Parent gene strand	+
Alternative splicing	AT4G10060_circ_g.2 AT4G10060_circ_g.3
Support reads	1
Tissues	leaf
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	AT4G10060.1:2 AT4G10060.2:2

			
						 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  
						
							AAATGAGAGACTACCTCAAGTAACGTGGCAACGGAAGTTGAACAGCAAAGTGAAGAACCCTTCT
GAGTTCAAGATGAGTATAAGAGATGTTCTTCATCTGgtaattaaagatggagaagaatggtcac
acggaaagtgaacttcaaactcaaatggtaattcatttgtctttttatatcaaatagttaaatc
tttcaaaa

									
								

					

						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
						
							GTAATTAAAGATGGAGAAGAATGGTCACACGGAAAGTGAACTTCAAACTCAAATGGTAATTCAT
TTGTCTTTTTATATCAAATAGTTAAATCTTTCAAAAAAAATAAAATCATCGTCATGTCACAATC
AAATTACGTGTCTAAAAGTATTTTGGACCATTCGTTTCCTAAATAGTAATGAAGAATGTGAACT
CTTGCTAGCTTTTTACTCTTGAAAAGTATGTCAGTGTCATTTTTATTTCAAAGAAAAAAAAAAA
AATCTTATTTGTTTCCTTTGTCAACACCTGTTTACTTACAATTTTACTATATTTCACGTTATCT
TTGAATTTGTTTTCGTGTAGTTTAACCTCTTGGTGGTTCATATGAGTTTAAACATCAGATCATG
CGTTCTAATACTAACTTAATAATGCAATAAGTTTTAAAAAATGTTTTATCACAGAAAGATAAAA
CAAAATGAAGATATTAAGTATCTGCCTACTTCGAATAAAGTGGAAGATGATATATAATAAGGTC
TCTCGAACAAAATGGATGGTAATTAGAGGTCTTGAATATATTAACTCTATATATAAACTAATGA
GACTACATTAAAATTATCCACCAAGTGGAGTTTGCATTAGTAAACATATATATTAACTAATGAT
ATAGTTATTAATCTATCAAATTAATATGAAAATCATTAGTGAAAATGACAATAAAATGAGCTGA
AATTGGTAACGTTGCACCATCACGATAAATATTACCAATTTACCATGCTATTTATGGCACTAGT
TATACTATATTGTGGTAAAAAGTTGATCCAAAATAGAAGAATTGACTGTACGAAATTGTATACT
ACCACTTTTGTACAATAATCATTTGAGACTGTATATAGTATACTTAGGTATTATATTTTAAGCC
TAGTTTAAAATTTTAAATTTCTTTTTCTATACCAACATTTTTACTAATCAAATTTATATTTGTA
TCATTCTATGGTCATTTTCTTTTTACCGTCATTTCTTACTCGTACTATCTTTAATATCTCTCCA
TTGCCATTTTTCTTCCGCCAAAAGAAATTTTCATTCTTGTCTTGTCCCCAATGGGGATTCCAAG
AGTGGGGACAGTAGAGAGTTATGGAAGAGCCTTTAGAGGGTTTAAAGATGAAGCTTTGTTCTTT
GCTAAAATAAAATTTACACTTTCCTAAAGAACATAATTAGAGCAAGCGACTCTGGATTAGGCAG
TGTTGCAGTTGTTCTTCGATAAACCCTCCCCACTGGCCACAATGTCGTCGCACCGACTCGCCAC
TGCCTCCGCCACTCGTAATCTCCCCAGACCCGAAACCACAATATGTAATATTAGTTTCGTCCCA
AGCGTCATTCGAACCGACGACTTCTAAACTTCGCCTAGGATTTTTATCAATTGAGCTAACAACA
CTTGGTCATCTTTATTATTCTTTTGTTTATAAAACATTTCTTCATAATCAAAACACCATTTTTG
AATCCTTAAGTTATTAATTCATTATGCGGAACGGTCAAAGGGAAACTGAACTTCAAACTCAAAA
TGGTAGTAGTAATTATATCTTTGTCTTTCTATATCAAATTGTTGATGTTCTGTCTCATGTCACA
AGATAGTTATGACTTATGAACATGAAACATTTGGTACTAAATACGACAATTTTTTCTTTGATTA
TTGATATAATCATGCATGTTAAGCAAAATTTGATTATGAAATTTTTTAGGTTGGAAATGAGAGA
CTACCTCAAGTAACGTGGCAACGGAAGTTGAACAGCAAAGTGAAGAACCCTTCTGAGTTCAAGA
TGAGTATAAGAGATGTTCTTCATCTG
						
					

			
		

Sequences
Splice junction sequence	AAATGAGAGACTACCTCAAGTAACGTGGCAACGGAAGTTGAACAGCAAAGTGAAGAACCCTTCT GAGTTCAAGATGAGTATAAGAGATGTTCTTCATCTGgtaattaaagatggagaagaatggtcac acggaaagtgaacttcaaactcaaatggtaattcatttgtctttttatatcaaatagttaaatc tttcaaaa
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	GTAATTAAAGATGGAGAAGAATGGTCACACGGAAAGTGAACTTCAAACTCAAATGGTAATTCAT TTGTCTTTTTATATCAAATAGTTAAATCTTTCAAAAAAAATAAAATCATCGTCATGTCACAATC AAATTACGTGTCTAAAAGTATTTTGGACCATTCGTTTCCTAAATAGTAATGAAGAATGTGAACT CTTGCTAGCTTTTTACTCTTGAAAAGTATGTCAGTGTCATTTTTATTTCAAAGAAAAAAAAAAA AATCTTATTTGTTTCCTTTGTCAACACCTGTTTACTTACAATTTTACTATATTTCACGTTATCT TTGAATTTGTTTTCGTGTAGTTTAACCTCTTGGTGGTTCATATGAGTTTAAACATCAGATCATG CGTTCTAATACTAACTTAATAATGCAATAAGTTTTAAAAAATGTTTTATCACAGAAAGATAAAA CAAAATGAAGATATTAAGTATCTGCCTACTTCGAATAAAGTGGAAGATGATATATAATAAGGTC TCTCGAACAAAATGGATGGTAATTAGAGGTCTTGAATATATTAACTCTATATATAAACTAATGA GACTACATTAAAATTATCCACCAAGTGGAGTTTGCATTAGTAAACATATATATTAACTAATGAT ATAGTTATTAATCTATCAAATTAATATGAAAATCATTAGTGAAAATGACAATAAAATGAGCTGA AATTGGTAACGTTGCACCATCACGATAAATATTACCAATTTACCATGCTATTTATGGCACTAGT TATACTATATTGTGGTAAAAAGTTGATCCAAAATAGAAGAATTGACTGTACGAAATTGTATACT ACCACTTTTGTACAATAATCATTTGAGACTGTATATAGTATACTTAGGTATTATATTTTAAGCC TAGTTTAAAATTTTAAATTTCTTTTTCTATACCAACATTTTTACTAATCAAATTTATATTTGTA TCATTCTATGGTCATTTTCTTTTTACCGTCATTTCTTACTCGTACTATCTTTAATATCTCTCCA TTGCCATTTTTCTTCCGCCAAAAGAAATTTTCATTCTTGTCTTGTCCCCAATGGGGATTCCAAG AGTGGGGACAGTAGAGAGTTATGGAAGAGCCTTTAGAGGGTTTAAAGATGAAGCTTTGTTCTTT GCTAAAATAAAATTTACACTTTCCTAAAGAACATAATTAGAGCAAGCGACTCTGGATTAGGCAG TGTTGCAGTTGTTCTTCGATAAACCCTCCCCACTGGCCACAATGTCGTCGCACCGACTCGCCAC TGCCTCCGCCACTCGTAATCTCCCCAGACCCGAAACCACAATATGTAATATTAGTTTCGTCCCA AGCGTCATTCGAACCGACGACTTCTAAACTTCGCCTAGGATTTTTATCAATTGAGCTAACAACA CTTGGTCATCTTTATTATTCTTTTGTTTATAAAACATTTCTTCATAATCAAAACACCATTTTTG AATCCTTAAGTTATTAATTCATTATGCGGAACGGTCAAAGGGAAACTGAACTTCAAACTCAAAA TGGTAGTAGTAATTATATCTTTGTCTTTCTATATCAAATTGTTGATGTTCTGTCTCATGTCACA AGATAGTTATGACTTATGAACATGAAACATTTGGTACTAAATACGACAATTTTTTCTTTGATTA TTGATATAATCATGCATGTTAAGCAAAATTTGATTATGAAATTTTTTAGGTTGGAAATGAGAGA CTACCTCAAGTAACGTGGCAACGGAAGTTGAACAGCAAAGTGAAGAACCCTTCTGAGTTCAAGA TGAGTATAAGAGATGTTCTTCATCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.100209301

Conservation Information
Conserved circRNAs	NA
PMCS	0.100209301

			
						 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 AT4G10060_circ_g.1

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