Plant Circular RNA Database

Detail information of AT4G26480_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT4G26480_circ_g.3
					
						ID in PlantcircBase
						ath_circ_032938
					
						Alias
						4:13373350-13374968
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 13373350-13374968  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G26480						
					
						Parent gene annotation
						
							KH domain-containing protein At4g26480
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G26480_circ_g.1 AT4G26480_circ_g.2 						
					
						Support reads
						1/1
					
						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  
						
							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
						AT4G26480.1:4
AT4G26480.2:4
AT4G26480.3:4

General Information
CircRNA Name	AT4G26480_circ_g.3
ID in PlantcircBase	ath_circ_032938
Alias	4:13373350-13374968
Organism	Arabidpsis thaliana
Position	chr4: 13373350-13374968 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G26480
Parent gene annotation	KH domain-containing protein At4g26480
Parent gene strand	-
Alternative splicing	AT4G26480_circ_g.1 AT4G26480_circ_g.2
Support reads	1/1
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	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	AT4G26480.1:4 AT4G26480.2:4 AT4G26480.3:4

			
						 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  
						
							ACAGTATGGCTCACCTTGGTTCATGAGCCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTA
AGCTTGTGACGCTCTGCAAGTAACTCAGAAAGATACcttaatcggatctttaatgctgcctcta
ccccttattagaacacgacaatcagtactcgcttcaactcgtttgagggagtttcctctaggac
ccaagaga

									
								

					

						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: 457
Transcript exons: 13373350-13373466,13373542-13373655,13374133-13374272,13
374883-13374968
CTTAATCGGATCTTTAATGCTGCCTCTACCCCTTATTAGAACACGACAATCAGTACTCGCTTCA
ACTCGTTTGAGGGAGTTTCCTCTAGGACCCAAGAGACGACCGACAAAATTGTAGTTTGGGTATT
TGTCGACTGGAATATCCACCCTTATTGTTCGCTTGACGATGAGACCGGACGAGCTACCAGGAGA
GTTAAGCCAATTTGGTGCTGGGGATGATGAAACCGATCTTTCTGATGGAAATTGTGAGGCCCAT
CCGTTCATGTCAGCTCTTGAATTCTGAAATATCCCTCCAGAAGCCAGAGGGCTAGGGTGATCAA
ACCTACTCTGACTTAAGGCATTCTCCAACAGCGTGGTTACACGCAAAATTTCTTGGTTCATGAG
CCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTAAGCTTGTGACGCTCTGCAAGTAACTCA
GAAAGATAC
						
					

						Genomic sequence
						
							CTTAATCGGATCTTTAATGCTGCCTCTACCCCTTATTAGAACACGACAATCAGTACTCGCTTCA
ACTCGTTTGAGGGAGTTTCCTCTAGGACCCAAGAGACGACCGACAAAATTGTACTGCAAATTAT
GAAATTATTGTTTATACTTTGACAAGATAATAAAGGAACTCATCAAGGGAATAAAGATTCATAC
GTTTGGGTATTTGTCGACTGGAATATCCACCCTTATTGTTCGCTTGACGATGAGACCGGACGAG
CTACCAGGAGAGTTAAGCCAATTTGGTGCTGGGGATGATGAAACCGATCTCTACAAATCAAAAG
ATAAACCAACAAAACCTGTTAGAAGCCATGTCAACCTCAATACATACATATGATTGCAGCATCA
AAACCAAGAATAACATGAAATAAATATCTTATCAAACGTTTCTTCCATGGAAAAGGGACAATGT
ATCGCGCTGTTGCATGCTAGCAACCCGTAATTGCTTATCCTAATTATAATATTCAAAGAATGGT
TCCAAATATTAGAGCATGTTATTTCTATCCTATCGTTCACCTAACAATTATATGGCTCTTCAAG
GCAATGGAATTAGTTAGTGCATTGACCTTAAGTCAAAAACATTGTCATTACTGATATTCAGTGT
TAGCAAAGGCTACCTGTAATGAAGACTATGATTACAATTAAGTCAAAGCAAGTTATGTCAGAAC
AACTTAAGTCAACAAAAGCTTTAACTGCAGTAGTATGGAATTAGATGAAAAGAGTTATGTTAAT
GGTTAGTAGTCATACTTCTGATGGAAATTGTGAGGCCCATCCGTTCATGTCAGCTCTTGAATTC
TGAAATATCCCTCCAGAAGCCAGAGGGCTAGGGTGATCAAACCTACTCTGACTTAAGGCATTCT
CCAACAGCGTGGTTACACGCAAAATTTCTGTTTCAAAAAATGTCAATTTTCAAGAGTAAGACGG
ACCAGTTAGAATTAGTCAACAAATCCATCACCAATGATAGTGGAATGGAGAGACATCATAGTCT
CAACTAAGTTAGTGAATATTAACGTTGACACTCTAGTTAAAATAGATTGAAACAGACTGCAAAC
AATGACAATACCCTAATTTTGCTATGATCTACAAATGTCACAAATGTGATCTGTTCAATATCAC
TTCCCTACGAAACAACTCAGAACAAGGATTTCAAGAAATTAGATTTCAAGTAAAAGTCTTATTA
ATAGGATTTGAAAACCAAATCTACATCAGAGAAAAGTCAATTGTAAAGTCTATTATACCACAAT
TAAACTAAATTACTCCGCACTATCGTTGAATATTCTAATTCATAGTAAGAGAAGGAGGACTAAG
TGTCTCTTTGGATAGTAAGATATCTTACTTATGGGTTTGTACAACTACTCTATCATATGTCTTT
TGCTAAGATATAACTAATCTCTCTTAGAAGCACCACTGAAAATGCTTTTCAACTGTACAAAGAT
AGAAGTTCTGAAGCAAGAAACGAAAATTACAGAAGATCATATGATGAACAGTATGGCTCACCTT
GGTTCATGAGCCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTAAGCTTGTGACGCTCTGC
AAGTAACTCAGAAAGATAC
						
					

			
		

Sequences
Splice junction sequence	ACAGTATGGCTCACCTTGGTTCATGAGCCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTA AGCTTGTGACGCTCTGCAAGTAACTCAGAAAGATACcttaatcggatctttaatgctgcctcta ccccttattagaacacgacaatcagtactcgcttcaactcgtttgagggagtttcctctaggac ccaagaga
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: 457 Transcript exons: 13373350-13373466,13373542-13373655,13374133-13374272,13 374883-13374968 CTTAATCGGATCTTTAATGCTGCCTCTACCCCTTATTAGAACACGACAATCAGTACTCGCTTCA ACTCGTTTGAGGGAGTTTCCTCTAGGACCCAAGAGACGACCGACAAAATTGTAGTTTGGGTATT TGTCGACTGGAATATCCACCCTTATTGTTCGCTTGACGATGAGACCGGACGAGCTACCAGGAGA GTTAAGCCAATTTGGTGCTGGGGATGATGAAACCGATCTTTCTGATGGAAATTGTGAGGCCCAT CCGTTCATGTCAGCTCTTGAATTCTGAAATATCCCTCCAGAAGCCAGAGGGCTAGGGTGATCAA ACCTACTCTGACTTAAGGCATTCTCCAACAGCGTGGTTACACGCAAAATTTCTTGGTTCATGAG CCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTAAGCTTGTGACGCTCTGCAAGTAACTCA GAAAGATAC
Genomic sequence	CTTAATCGGATCTTTAATGCTGCCTCTACCCCTTATTAGAACACGACAATCAGTACTCGCTTCA ACTCGTTTGAGGGAGTTTCCTCTAGGACCCAAGAGACGACCGACAAAATTGTACTGCAAATTAT GAAATTATTGTTTATACTTTGACAAGATAATAAAGGAACTCATCAAGGGAATAAAGATTCATAC GTTTGGGTATTTGTCGACTGGAATATCCACCCTTATTGTTCGCTTGACGATGAGACCGGACGAG CTACCAGGAGAGTTAAGCCAATTTGGTGCTGGGGATGATGAAACCGATCTCTACAAATCAAAAG ATAAACCAACAAAACCTGTTAGAAGCCATGTCAACCTCAATACATACATATGATTGCAGCATCA AAACCAAGAATAACATGAAATAAATATCTTATCAAACGTTTCTTCCATGGAAAAGGGACAATGT ATCGCGCTGTTGCATGCTAGCAACCCGTAATTGCTTATCCTAATTATAATATTCAAAGAATGGT TCCAAATATTAGAGCATGTTATTTCTATCCTATCGTTCACCTAACAATTATATGGCTCTTCAAG GCAATGGAATTAGTTAGTGCATTGACCTTAAGTCAAAAACATTGTCATTACTGATATTCAGTGT TAGCAAAGGCTACCTGTAATGAAGACTATGATTACAATTAAGTCAAAGCAAGTTATGTCAGAAC AACTTAAGTCAACAAAAGCTTTAACTGCAGTAGTATGGAATTAGATGAAAAGAGTTATGTTAAT GGTTAGTAGTCATACTTCTGATGGAAATTGTGAGGCCCATCCGTTCATGTCAGCTCTTGAATTC TGAAATATCCCTCCAGAAGCCAGAGGGCTAGGGTGATCAAACCTACTCTGACTTAAGGCATTCT CCAACAGCGTGGTTACACGCAAAATTTCTGTTTCAAAAAATGTCAATTTTCAAGAGTAAGACGG ACCAGTTAGAATTAGTCAACAAATCCATCACCAATGATAGTGGAATGGAGAGACATCATAGTCT CAACTAAGTTAGTGAATATTAACGTTGACACTCTAGTTAAAATAGATTGAAACAGACTGCAAAC AATGACAATACCCTAATTTTGCTATGATCTACAAATGTCACAAATGTGATCTGTTCAATATCAC TTCCCTACGAAACAACTCAGAACAAGGATTTCAAGAAATTAGATTTCAAGTAAAAGTCTTATTA ATAGGATTTGAAAACCAAATCTACATCAGAGAAAAGTCAATTGTAAAGTCTATTATACCACAAT TAAACTAAATTACTCCGCACTATCGTTGAATATTCTAATTCATAGTAAGAGAAGGAGGACTAAG TGTCTCTTTGGATAGTAAGATATCTTACTTATGGGTTTGTACAACTACTCTATCATATGTCTTT TGCTAAGATATAACTAATCTCTCTTAGAAGCACCACTGAAAATGCTTTTCAACTGTACAAAGAT AGAAGTTCTGAAGCAAGAAACGAAAATTACAGAAGATCATATGATGAACAGTATGGCTCACCTT GGTTCATGAGCCGGCAAACATGTGGAAGCACAGGCAAAAATGGAGTAAGCTTGTGACGCTCTGC AAGTAACTCAGAAAGATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.209623039

Conservation Information
Conserved circRNAs	NA
PMCS	0.209623039

			
						 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 AT4G26480_circ_g.3

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