Plant Circular RNA Database

Detail information of AT4G27750_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT4G27750_circ_g.4
					
						ID in PlantcircBase
						ath_circ_033193
					
						Alias
						4:13842109-13843469
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 13842109-13843469  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G27750						
					
						Parent gene annotation
						
							ISI1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G27750_circ_g.1 AT4G27750_circ_g.2 AT4G27750_circ_g.3 AT4G27750_circ_g.5 						
					
						Support reads
						1/1/2
					
						Tissues
						seedling;flower
					
						Exon boundary  
						
							Yes-No							"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
						AT4G27750.1:4

General Information
CircRNA Name	AT4G27750_circ_g.4
ID in PlantcircBase	ath_circ_033193
Alias	4:13842109-13843469
Organism	Arabidpsis thaliana
Position	chr4: 13842109-13843469 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G27750
Parent gene annotation	ISI1
Parent gene strand	+
Alternative splicing	AT4G27750_circ_g.1 AT4G27750_circ_g.2 AT4G27750_circ_g.3 AT4G27750_circ_g.5
Support reads	1/1/2
Tissues	seedling;flower
Exon boundary	Yes-No "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	AT4G27750.1:4

			
						 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  
						
							CTCTTGGGTGAAAAATCTGCTTCTTTAATATGGGCGGCGAGTCAATTCGGTTCAACAGGTGATC
CTGAACAAAGAATCACGGCGCTTCATATCCAGGCTGtggttccggtgctttttcaacattcatt
gaaagaagcggaggatgataaagtgacgagcttggatcatatattcagtgtggagccgatgaag
ataacaag

						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
						
							TGGTTCCGGTGCTTTTTCAACATTCATTGAAAGAAGCGGAGGATGATAAAGTGACGAGCTTGGA
TCATATATTCAGTGTGGAGCCGATGAAGATAACAAGTCCTTCTACGGATGCTGAGGTTGCTGTT
GCTCTTAGAGTTCTCGAAGGATGCTGCCTTCTCCATCCTCAGAGCACTGTCCTGGCTCATAAGC
ATGGTGCAGTCCGCGTAAGAAAGACTTTCCTTTGTTACTTTATTACTTGTCTATTGATGCATAG
AGAACTCTAGAAACTAGAATCCTGCATTTGACATTTGTCACCTCTCACTCTGATTTGGCGAAAA
GGGAGACTCTTGTGTATGAGACATCTTTGAACGTTTTTCATTTCTTTGTCTATTTATGCTGGAC
CCTTCATGTTTTAGATTGATGCAGTGGGATGTTAATGTGATTGGGATGCTCATAAAATGTTTCA
GGTAATGATGAATGTATTATCAACACGAGGAGTACTTGAGCAAGGAGCCTGCTTGGATGCCTTA
ATCTCAGTATTGCTGGATTCATCAGCAAATCAGGTGGTAAGTATTCAGTTTCTGTTTTTTAGTA
ACAACTTCTGTGTTTATAAACGAAATAGAAAGCAGGTTGTTAAGTTTTGATTCTCAGACAGATA
CACATTTAAACCTCTAGTTAAAGTTTCTGTGTATATCAATGGAACAAACTGGCCTTCACTTGCT
TTTTATTTTAACTTTTCTAATTTCTCATGGTAACAGGATTTTGGAGCTTGCAATGGCATTGAAG
AGGTTGCAATGCTCATGCGAGACAAACAAGCTGATGAAAACCTCAGGTGAATACCAAGCTTTTG
TTCTTCATGGCACTTGTTGTGGCATTTTGCATATGTTTATATTACAGTATTTACACGATAAAAA
TTGCCGTCAACGAAGATTCATTTCCTTTTTGTCTCTTCTGGTTTTTATGTTTTTAGTAAATTTT
AAATCGATTTCCTTGTCAAATTCATTGAATAGTCTTCAAATTGTCTAGTTAAGCTCTTCTCATC
TCAAGTTTTGTCTCATACATCCTTAAGAGTTCCAACTCTAAGGTCACTAGTTATGATTTAGTGA
ATGATATCATCCACTTTGTAAGTAACCGATGGTAGTGGTTTAGGCTTTTGGTCATGTTTAGTTC
CTTACTGATTCACAGGTTAAGATGCGGAGAGTTCTTACTACTGTTAGTTGGACACGTAAATGGG
AAGGATCGATCTCCAATAGCGAGTGTAAATGAAGACATCAGGCGCCTCTTGGGTGAAAAATCTG
CTTCTTTAATATGGGCGGCGAGTCAATTCGGTTCAACAGGTGATCCTGAACAAAGAATCACGGC
GCTTCATATCCAGGCTG

Sequences
Splice junction sequence	CTCTTGGGTGAAAAATCTGCTTCTTTAATATGGGCGGCGAGTCAATTCGGTTCAACAGGTGATC CTGAACAAAGAATCACGGCGCTTCATATCCAGGCTGtggttccggtgctttttcaacattcatt gaaagaagcggaggatgataaagtgacgagcttggatcatatattcagtgtggagccgatgaag ataacaag
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	TGGTTCCGGTGCTTTTTCAACATTCATTGAAAGAAGCGGAGGATGATAAAGTGACGAGCTTGGA TCATATATTCAGTGTGGAGCCGATGAAGATAACAAGTCCTTCTACGGATGCTGAGGTTGCTGTT GCTCTTAGAGTTCTCGAAGGATGCTGCCTTCTCCATCCTCAGAGCACTGTCCTGGCTCATAAGC ATGGTGCAGTCCGCGTAAGAAAGACTTTCCTTTGTTACTTTATTACTTGTCTATTGATGCATAG AGAACTCTAGAAACTAGAATCCTGCATTTGACATTTGTCACCTCTCACTCTGATTTGGCGAAAA GGGAGACTCTTGTGTATGAGACATCTTTGAACGTTTTTCATTTCTTTGTCTATTTATGCTGGAC CCTTCATGTTTTAGATTGATGCAGTGGGATGTTAATGTGATTGGGATGCTCATAAAATGTTTCA GGTAATGATGAATGTATTATCAACACGAGGAGTACTTGAGCAAGGAGCCTGCTTGGATGCCTTA ATCTCAGTATTGCTGGATTCATCAGCAAATCAGGTGGTAAGTATTCAGTTTCTGTTTTTTAGTA ACAACTTCTGTGTTTATAAACGAAATAGAAAGCAGGTTGTTAAGTTTTGATTCTCAGACAGATA CACATTTAAACCTCTAGTTAAAGTTTCTGTGTATATCAATGGAACAAACTGGCCTTCACTTGCT TTTTATTTTAACTTTTCTAATTTCTCATGGTAACAGGATTTTGGAGCTTGCAATGGCATTGAAG AGGTTGCAATGCTCATGCGAGACAAACAAGCTGATGAAAACCTCAGGTGAATACCAAGCTTTTG TTCTTCATGGCACTTGTTGTGGCATTTTGCATATGTTTATATTACAGTATTTACACGATAAAAA TTGCCGTCAACGAAGATTCATTTCCTTTTTGTCTCTTCTGGTTTTTATGTTTTTAGTAAATTTT AAATCGATTTCCTTGTCAAATTCATTGAATAGTCTTCAAATTGTCTAGTTAAGCTCTTCTCATC TCAAGTTTTGTCTCATACATCCTTAAGAGTTCCAACTCTAAGGTCACTAGTTATGATTTAGTGA ATGATATCATCCACTTTGTAAGTAACCGATGGTAGTGGTTTAGGCTTTTGGTCATGTTTAGTTC CTTACTGATTCACAGGTTAAGATGCGGAGAGTTCTTACTACTGTTAGTTGGACACGTAAATGGG AAGGATCGATCTCCAATAGCGAGTGTAAATGAAGACATCAGGCGCCTCTTGGGTGAAAAATCTG CTTCTTTAATATGGGCGGCGAGTCAATTCGGTTCAACAGGTGATCCTGAACAAAGAATCACGGC GCTTCATATCCAGGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.233682523

Conservation Information
Conserved circRNAs	NA
PMCS	0.233682523

			
						 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 AT4G27750_circ_g.4

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