Plant Circular RNA Database

Detail information of AT5G51060_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G51060_circ_g.4
					
						ID in PlantcircBase
						ath_circ_043545
					
						Alias
						5:20760081-20761171
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 20760081-20761171  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G51060						
					
						Parent gene annotation
						
							RHD2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G51060_circ_g.5 AT5G51060_circ_g.6 AT5G51060_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						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  
						
							CT-AC							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
						AT5G51060.1:3

General Information
CircRNA Name	AT5G51060_circ_g.4
ID in PlantcircBase	ath_circ_043545
Alias	5:20760081-20761171
Organism	Arabidpsis thaliana
Position	chr5: 20760081-20761171 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G51060
Parent gene annotation	RHD2
Parent gene strand	-
Alternative splicing	AT5G51060_circ_g.5 AT5G51060_circ_g.6 AT5G51060_circ_g.7
Support reads	2
Tissues	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	CT-AC 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	AT5G51060.1:3

			
						 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  
						
							TATTGTCTGGATCCAACTCTTCCATGATCAATGCTGCATATTCATCAGCTCTCTTCTGTATTGT
AGATAGATTATTCGCAGAAGCACTAAGACTGATAATcgttttattgtgccagtctctggtgaga
tacaagtagtatccatgagcaacaagaagaatgtagactatgacaaacaaatgatgagtgtacc
agaaggca

									
								

					

						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: 936
Transcript exons: 20760081-20760470,20760547-20760978,20761058-20761171
CGTTTTATTGTGCCAGTCTCTGGTGAGATACAAGTAGTATCCATGAGCAACAAGAAGAATGTAG
ACTATGACAAACAAATGATGAGTGTACCAGAAGGCATTGAAGCTAGCTAGTTTCTTTAATGGTC
CTGGAAGATAGTTTAGCTTCCCTCTTCTGAACCAAGGCGTGGCTAGTGTGAATGCAATCGCCAT
TAACAAAACCATCACAAGTCCGGTTATACCTTCTACCGAGTTTACAAAATGCCAGTAGCTCTTT
GGTTGCTCATCCCCAAAAAACTGTCTTAAAGGCCTATATGCCTCTGGAGTTGCATGTAGTAACC
GCGGGAAATCACACGCTAAATGTGCCCCGGCGTGCATCGTTACTCCAACTATAATCCCCACCGC
TATAACCTTGTGGAAGTTGAGATTGTCATCAAATGGGACAACACGACCCAACCTGGTCTTATTT
CTAAGCCATGTGATGGTGTTTCTACAAACAGGTAAGAGAATCAAAGCCATGTTCAGCTTCACTG
TTTCTGCAGCACCTTTAGCCATGCACACACAATCACCCATCACTGGATACACAGGGCTACGCCT
GTATTGGATATATTTGTAGGTGAAGAGTATAGCCATAACTATGAACCATAGCACTATAACCCAA
CATCTTTGCCAGTTGTCTAACAAGAAGAATCTAAGACCACGGTACCATCGCTTCAACGGGTTGC
GGTTAAACGTAGGCTTAAGCCTCTGACTCATCATATGACTCAGATTCTTTCTCTCCCCAGTACT
TGTTATCACAGACTGTGTTGCCGCTTGCAAAAGCAGAGTCTCAAGACTCTCCAACATGATGTAT
CCTATATTGTCTGGATCCAACTCTTCCATGATCAATGCTGCATATTCATCAGCTCTCTTCTGTA
TTGTAGATAGATTATTCGCAGAAGCACTAAGACTGATAAT
						
					

						Genomic sequence
						
							CGTTTTATTGTGCCAGTCTCTGGTGAGATACAAGTAGTATCCATGAGCAACAAGAAGAATGTAG
ACTATGACAAACAAATGATGAGTGTACCAGAAGGCATTGAAGCTAGCTAGTTTCTTTAATGGTC
CTGGAAGATAGTTTAGCTTCCCTCTTCTGAACCAAGGCGTGGCTAGTGTGAATGCAATCGCCAT
TAACAAAACCATCACAAGTCCGGTTATACCTTCTACCGAGTTTACAAAATGCCAGTAGCTCTTT
GGTTGCTCATCCCCAAAAAACTGTCTTAAAGGCCTATATGCCTCTGGAGTTGCATGTAGTAACC
GCGGGAAATCACACGCTAAATGTGCCCCGGCGTGCATCGTTACTCCAACTATAATCCCCACCGC
TATAACCTAATTTTGTAAGCATCAGTATATTATAAGAAATTCCTAAAACAGAGAAGGTTTTAGA
ATATGTCTGTTTGTTTACCTTGTGGAAGTTGAGATTGTCATCAAATGGGACAACACGACCCAAC
CTGGTCTTATTTCTAAGCCATGTGATGGTGTTTCTACAAACAGGTAAGAGAATCAAAGCCATGT
TCAGCTTCACTGTTTCTGCAGCACCTTTAGCCATGCACACACAATCACCCATCACTGGATACAC
AGGGCTACGCCTGTATTGGATATATTTGTAGGTGAAGAGTATAGCCATAACTATGAACCATAGC
ACTATAACCCAACATCTTTGCCAGTTGTCTAACAAGAAGAATCTAAGACCACGGTACCATCGCT
TCAACGGGTTGCGGTTAAACGTAGGCTTAAGCCTCTGACTCATCATATGACTCAGATTCTTTCT
CTCCCCAGTACTTGTTATCACAGACTGTGTTGCCGCTTGCAAAAGCAGAGTCTCAAGACTCTCC
AACTGTTTCAAGATTCACCACAAATGCTTCAAGTCTCAAACATAATATGGCAAATCGTCAAGAC
AGCTGATAATTACTTACCATGATGTATCCTATATTGTCTGGATCCAACTCTTCCATGATCAATG
CTGCATATTCATCAGCTCTCTTCTGTATTGTAGATAGATTATTCGCAGAAGCACTAAGACTGAT
AAT
						
					

			
		

Sequences
Splice junction sequence	TATTGTCTGGATCCAACTCTTCCATGATCAATGCTGCATATTCATCAGCTCTCTTCTGTATTGT AGATAGATTATTCGCAGAAGCACTAAGACTGATAATcgttttattgtgccagtctctggtgaga tacaagtagtatccatgagcaacaagaagaatgtagactatgacaaacaaatgatgagtgtacc agaaggca
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: 936 Transcript exons: 20760081-20760470,20760547-20760978,20761058-20761171 CGTTTTATTGTGCCAGTCTCTGGTGAGATACAAGTAGTATCCATGAGCAACAAGAAGAATGTAG ACTATGACAAACAAATGATGAGTGTACCAGAAGGCATTGAAGCTAGCTAGTTTCTTTAATGGTC CTGGAAGATAGTTTAGCTTCCCTCTTCTGAACCAAGGCGTGGCTAGTGTGAATGCAATCGCCAT TAACAAAACCATCACAAGTCCGGTTATACCTTCTACCGAGTTTACAAAATGCCAGTAGCTCTTT GGTTGCTCATCCCCAAAAAACTGTCTTAAAGGCCTATATGCCTCTGGAGTTGCATGTAGTAACC GCGGGAAATCACACGCTAAATGTGCCCCGGCGTGCATCGTTACTCCAACTATAATCCCCACCGC TATAACCTTGTGGAAGTTGAGATTGTCATCAAATGGGACAACACGACCCAACCTGGTCTTATTT CTAAGCCATGTGATGGTGTTTCTACAAACAGGTAAGAGAATCAAAGCCATGTTCAGCTTCACTG TTTCTGCAGCACCTTTAGCCATGCACACACAATCACCCATCACTGGATACACAGGGCTACGCCT GTATTGGATATATTTGTAGGTGAAGAGTATAGCCATAACTATGAACCATAGCACTATAACCCAA CATCTTTGCCAGTTGTCTAACAAGAAGAATCTAAGACCACGGTACCATCGCTTCAACGGGTTGC GGTTAAACGTAGGCTTAAGCCTCTGACTCATCATATGACTCAGATTCTTTCTCTCCCCAGTACT TGTTATCACAGACTGTGTTGCCGCTTGCAAAAGCAGAGTCTCAAGACTCTCCAACATGATGTAT CCTATATTGTCTGGATCCAACTCTTCCATGATCAATGCTGCATATTCATCAGCTCTCTTCTGTA TTGTAGATAGATTATTCGCAGAAGCACTAAGACTGATAAT
Genomic sequence	CGTTTTATTGTGCCAGTCTCTGGTGAGATACAAGTAGTATCCATGAGCAACAAGAAGAATGTAG ACTATGACAAACAAATGATGAGTGTACCAGAAGGCATTGAAGCTAGCTAGTTTCTTTAATGGTC CTGGAAGATAGTTTAGCTTCCCTCTTCTGAACCAAGGCGTGGCTAGTGTGAATGCAATCGCCAT TAACAAAACCATCACAAGTCCGGTTATACCTTCTACCGAGTTTACAAAATGCCAGTAGCTCTTT GGTTGCTCATCCCCAAAAAACTGTCTTAAAGGCCTATATGCCTCTGGAGTTGCATGTAGTAACC GCGGGAAATCACACGCTAAATGTGCCCCGGCGTGCATCGTTACTCCAACTATAATCCCCACCGC TATAACCTAATTTTGTAAGCATCAGTATATTATAAGAAATTCCTAAAACAGAGAAGGTTTTAGA ATATGTCTGTTTGTTTACCTTGTGGAAGTTGAGATTGTCATCAAATGGGACAACACGACCCAAC CTGGTCTTATTTCTAAGCCATGTGATGGTGTTTCTACAAACAGGTAAGAGAATCAAAGCCATGT TCAGCTTCACTGTTTCTGCAGCACCTTTAGCCATGCACACACAATCACCCATCACTGGATACAC AGGGCTACGCCTGTATTGGATATATTTGTAGGTGAAGAGTATAGCCATAACTATGAACCATAGC ACTATAACCCAACATCTTTGCCAGTTGTCTAACAAGAAGAATCTAAGACCACGGTACCATCGCT TCAACGGGTTGCGGTTAAACGTAGGCTTAAGCCTCTGACTCATCATATGACTCAGATTCTTTCT CTCCCCAGTACTTGTTATCACAGACTGTGTTGCCGCTTGCAAAAGCAGAGTCTCAAGACTCTCC AACTGTTTCAAGATTCACCACAAATGCTTCAAGTCTCAAACATAATATGGCAAATCGTCAAGAC AGCTGATAATTACTTACCATGATGTATCCTATATTGTCTGGATCCAACTCTTCCATGATCAATG CTGCATATTCATCAGCTCTCTTCTGTATTGTAGATAGATTATTCGCAGAAGCACTAAGACTGAT AAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.25906654

Conservation Information
Conserved circRNAs	NA
PMCS	0.25906654

			
						 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 AT5G51060_circ_g.4

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