Plant Circular RNA Database

Detail information of AT1G20760_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G20760_circ_g.5
					
						ID in PlantcircBase
						ath_circ_003666
					
						Alias
						1:7213030-7213944
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 7213030-7213944  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G20760						
					
						Parent gene annotation
						
							Calcium-binding EF hand family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G20760_circ_g.6 AT1G20760_circ_g.7 						
					
						Support reads
						2/1
					
						Tissues
						seedling;root
					
						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
						AT1G20760.1:4

General Information
CircRNA Name	AT1G20760_circ_g.5
ID in PlantcircBase	ath_circ_003666
Alias	1:7213030-7213944
Organism	Arabidpsis thaliana
Position	chr1: 7213030-7213944 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G20760
Parent gene annotation	Calcium-binding EF hand family protein
Parent gene strand	+
Alternative splicing	AT1G20760_circ_g.6 AT1G20760_circ_g.7
Support reads	2/1
Tissues	seedling;root
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	AT1G20760.1:4

			
						 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  
						
							AAAGAATTCTGAATTCTTTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGATGTG
GATTCAGTCTGGGGATTTGATGCATCAAAAAGCCAGgggcggaagatggagttgagtcaagcaa
ttgtgaacatggagcaaggtggtagtgctgatggtctccttcaggtacatgctattctatatgc
ttacgaga

									
								

					

						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: 615
Transcript exons: 7213030-7213101,7213192-7213306,7213419-7213487,7213586-
7213944
GGGCGGAAGATGGAGTTGAGTCAAGCAATTGTGAACATGGAGCAAGGTGGTAGTGCTGATGGTC
TCCTTCAGGTCCGGGCTGACAGAATACAATCAGATCTTGAGGAATTGATGAAGGCTTTAACTGA
ACGATGCAAGAAACACGGGTTGGAGGTTAACTCGAAGGCCCTTGTAGACCTTCCAGCTGGCTGG
CAACCTGGAATTCAAGAAGGTGCAGCTCTTTGGGATGAGGAATGGGATAAGTTTGAAGATGAAG
GTTTTGGCAATGAGATCACTTTTGACAAATCAAAAGAGCAAAACTCGTCTGGTGAGAAGGAAAA
TGGTACGGTGGATGATGGTAGTGGGCCACCTGATTCGCCGACCCATGTAGAGGACAACTATGGC
CCTTTTTCAGAAACCTCAGACCGCCACCATGAGAGTGAATATGGGACAACTCACAGTGAAGATA
GAAGTCCTAGAGACAGTCCTGTCTCTAGGAATGCTACTGAGGTCCCATCTCCAGATTATTCTCA
GGGAAAGAATTCTGAATTCTTTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGAT
GTGGATTCAGTCTGGGGATTTGATGCATCAAAAAGCCAG
						
					

						Genomic sequence
						
							GGGCGGAAGATGGAGTTGAGTCAAGCAATTGTGAACATGGAGCAAGGTGGTAGTGCTGATGGTC
TCCTTCAGGTACATGCTATTCTATATGCTTACGAGATGCCTTAACTGTCGAGTATCTGCTGTAC
ATGCCTGATTTGATGCTGTACTGGGCACATTTAGGTCCGGGCTGACAGAATACAATCAGATCTT
GAGGAATTGATGAAGGCTTTAACTGAACGATGCAAGAAACACGGGTTGGAGGTTAACTCGAAGG
CCCTTGTAGACCTTCCAGCTGGTATATGATTCCGTTGCCTTGTGACTTCTTGCTTTCGTTGTAG
ATGATTGCAAATAACATGTATTTTGTAAACAAACAACTTATGTGGAATTTGCTATGTTGTGACT
TACAGGCTGGCAACCTGGAATTCAAGAAGGTGCAGCTCTTTGGGATGAGGAATGGGATAAGTTT
GAAGATGAAGGTACAATGTTTTTTCCTATCTTTCTCTTACTAATACACTTAGATATATATAGTT
AAGCACATAACAAGGACATTGACTGATAATGTTCCCACTGTTAGGTTTTGGCAATGAGATCACT
TTTGACAAATCAAAAGAGCAAAACTCGTCTGGTGAGAAGGAAAATGGTACGGTGGATGATGGTA
GTGGGCCACCTGATTCGCCGACCCATGTAGAGGACAACTATGGCCCTTTTTCAGAAACCTCAGA
CCGCCACCATGAGAGTGAATATGGGACAACTCACAGTGAAGATAGAAGTCCTAGAGACAGTCCT
GTCTCTAGGAATGCTACTGAGGTCCCATCTCCAGATTATTCTCAGGGAAAGAATTCTGAATTCT
TTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGATGTGGATTCAGTCTGGGGATT
TGATGCATCAAAAAGCCAG
						
					

			
		

Sequences
Splice junction sequence	AAAGAATTCTGAATTCTTTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGATGTG GATTCAGTCTGGGGATTTGATGCATCAAAAAGCCAGgggcggaagatggagttgagtcaagcaa ttgtgaacatggagcaaggtggtagtgctgatggtctccttcaggtacatgctattctatatgc ttacgaga
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: 615 Transcript exons: 7213030-7213101,7213192-7213306,7213419-7213487,7213586- 7213944 GGGCGGAAGATGGAGTTGAGTCAAGCAATTGTGAACATGGAGCAAGGTGGTAGTGCTGATGGTC TCCTTCAGGTCCGGGCTGACAGAATACAATCAGATCTTGAGGAATTGATGAAGGCTTTAACTGA ACGATGCAAGAAACACGGGTTGGAGGTTAACTCGAAGGCCCTTGTAGACCTTCCAGCTGGCTGG CAACCTGGAATTCAAGAAGGTGCAGCTCTTTGGGATGAGGAATGGGATAAGTTTGAAGATGAAG GTTTTGGCAATGAGATCACTTTTGACAAATCAAAAGAGCAAAACTCGTCTGGTGAGAAGGAAAA TGGTACGGTGGATGATGGTAGTGGGCCACCTGATTCGCCGACCCATGTAGAGGACAACTATGGC CCTTTTTCAGAAACCTCAGACCGCCACCATGAGAGTGAATATGGGACAACTCACAGTGAAGATA GAAGTCCTAGAGACAGTCCTGTCTCTAGGAATGCTACTGAGGTCCCATCTCCAGATTATTCTCA GGGAAAGAATTCTGAATTCTTTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGAT GTGGATTCAGTCTGGGGATTTGATGCATCAAAAAGCCAG
Genomic sequence	GGGCGGAAGATGGAGTTGAGTCAAGCAATTGTGAACATGGAGCAAGGTGGTAGTGCTGATGGTC TCCTTCAGGTACATGCTATTCTATATGCTTACGAGATGCCTTAACTGTCGAGTATCTGCTGTAC ATGCCTGATTTGATGCTGTACTGGGCACATTTAGGTCCGGGCTGACAGAATACAATCAGATCTT GAGGAATTGATGAAGGCTTTAACTGAACGATGCAAGAAACACGGGTTGGAGGTTAACTCGAAGG CCCTTGTAGACCTTCCAGCTGGTATATGATTCCGTTGCCTTGTGACTTCTTGCTTTCGTTGTAG ATGATTGCAAATAACATGTATTTTGTAAACAAACAACTTATGTGGAATTTGCTATGTTGTGACT TACAGGCTGGCAACCTGGAATTCAAGAAGGTGCAGCTCTTTGGGATGAGGAATGGGATAAGTTT GAAGATGAAGGTACAATGTTTTTTCCTATCTTTCTCTTACTAATACACTTAGATATATATAGTT AAGCACATAACAAGGACATTGACTGATAATGTTCCCACTGTTAGGTTTTGGCAATGAGATCACT TTTGACAAATCAAAAGAGCAAAACTCGTCTGGTGAGAAGGAAAATGGTACGGTGGATGATGGTA GTGGGCCACCTGATTCGCCGACCCATGTAGAGGACAACTATGGCCCTTTTTCAGAAACCTCAGA CCGCCACCATGAGAGTGAATATGGGACAACTCACAGTGAAGATAGAAGTCCTAGAGACAGTCCT GTCTCTAGGAATGCTACTGAGGTCCCATCTCCAGATTATTCTCAGGGAAAGAATTCTGAATTCT TTGATGACTCGAATTGGGCAAGTGCATTTGACACTAACGATGATGTGGATTCAGTCTGGGGATT TGATGCATCAAAAAGCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.252126569

Conservation Information
Conserved circRNAs	NA
PMCS	0.252126569

			
						 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 AT1G20760_circ_g.5

Address

Any questions?

Supported by