Plant Circular RNA Database

Detail information of AT5G35180_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G35180_circ_g.3
					
						ID in PlantcircBase
						ath_circ_041004
					
						Alias
						At_ciR814
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 13425638-13426609  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ, CIRI-full
					
						Parent gene
						
							AT5G35180						
					
						Parent gene annotation
						
							Protein of unknown function (DUF1336)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G35180_circ_g.1 AT5G35180_circ_g.2 AT5G35180_circ_g.4 AT5G35180_circ_g.5 AT5G35180_circ_g.6 						
					
						Support reads
						9/1
					
						Tissues
						leaf/whole_plant
					
						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
						AT5G35180.4:3
AT5G35180.2:3
AT5G35180.1:3
AT5G35180.3:3
AT5G35180.5:3

General Information
CircRNA Name	AT5G35180_circ_g.3
ID in PlantcircBase	ath_circ_041004
Alias	At_ciR814
Organism	Arabidpsis thaliana
Position	chr5: 13425638-13426609 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ, CIRI-full
Parent gene	AT5G35180
Parent gene annotation	Protein of unknown function (DUF1336)
Parent gene strand	+
Alternative splicing	AT5G35180_circ_g.1 AT5G35180_circ_g.2 AT5G35180_circ_g.4 AT5G35180_circ_g.5 AT5G35180_circ_g.6
Support reads	9/1
Tissues	leaf/whole_plant
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	AT5G35180.4:3 AT5G35180.2:3 AT5G35180.1:3 AT5G35180.3:3 AT5G35180.5:3

			
						 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  
						
							ACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCG
AGGCACACGAATGGAAATGTGTTCGTACAATCAATGgctgaatatgcactatcgagaggcggaa
gtacaagaacaaagttaagcatggaggccaagtatgatctaattatcatatgattagtgcttta
gatgatat

									
								

					

						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: 265
Transcript exons: 13425638-13425696,13425917-13425993,13426481-13426609
GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAACATCG
ATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATGCTTATGGATTAAAAAAGCTTATCCGAAT
TGGGCAAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGTGAT
GGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTCGTA
CAATCAATG
Transcript length: 1001
Transcript exons: 13425638-13426609
GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGACAT
CGGCCTAGAGTACGGCGTTATGCTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAG
AGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGG
TGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTCGTACAATCAATGGCTGA
ATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGTATGATCTA
ATTATCATATGATTAGTGCTTTAGATGATATTTATTAGTAGCTAAGTGTTTCCTGTTTTGGGGG
AACTGAGAAGATGAGGCTCTTCCTACAGAAAATGCATAAAGTTGTGATGTTAAAATTTCTGTTC
TTAATCAGATCAAATTGTTTTAAATAGTAGAAGTCCACTTTTACTCCACAATTGCTGAATCACA
CTCTATTTTCTTTTGAAGCATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATGCTTAT
GGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCC
TGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGC
ACACGAATGGAAATGTGTTCGTACAATCAATGGCTGAATATGCACTATCGAGAGGCGGAAGTAC
AAGAACAAAGTTAAGCATGGAGGCCAACATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGT
TATGCTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAGAGTCTCTTTTGAGGCAAT
CATCTACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGC
AATCGAGGCACACGAATGGAAATGTGTTCGTACAATCAATG
						
					

						Genomic sequence
						
							GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGTATG
ATCTAATTATCATATGATTAGTGCTTTAGATGATATTTATTAGTAGCTAAGTGTTTCCTGTTTT
GGGGGAACTGAGAAGATGAGGCTCTTCCTACAGAAAATGCATAAAGTTGTGATGTTAAAATTTC
TGTTCTTAATCAGATCAAATTGTTTTAAATAGTAGAAGTCCACTTTTACTCCACAATTGCTGAA
TCACACTCTATTTTCTTTTGAAGCATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATG
CTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTATACACTGTATCTCAAGTTTATGGGC
TTGCTTAGCTTCAGAATCTTACACTGTGTGTGCAGATTGCTAAAAGTTCATTTGTTGGTGTATA
GCCTATAATTATTATCGTAGTTCATCTCCAAATCTTACATTGGAAAAAAACATTAGAACTCATT
TGCCTATTTTCCTTGTTACCCCTATCTTTGGGTTGGGCACATGCTAAATGACATAACTGGGAAA
AGTGGTCCTGAAGATTCTGATTATGTCTACATTTAAATGGATCGACACCAGATTTAAATAAATG
TTCTGTGTATTAGTGAAACTGTAGTTCGAAATTTATAATCCTACAGCCCTTGACTTTATTATGC
ATTGATAGGTCTGGTTCCATAGTTAATTTGATTTCTTAACGTTTAATCTAGTGGTTATTCATGA
TTCAAGACATAAGGTTCACCTGAAAGTTACTTTTCTTTCAAAGCAAATATGTATGATAATGTTC
TTAAATGCCAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGT
GATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTC
GTACAATCAATG
						
					

			
		

Sequences
Splice junction sequence	ACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCG AGGCACACGAATGGAAATGTGTTCGTACAATCAATGgctgaatatgcactatcgagaggcggaa gtacaagaacaaagttaagcatggaggccaagtatgatctaattatcatatgattagtgcttta gatgatat
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: 265 Transcript exons: 13425638-13425696,13425917-13425993,13426481-13426609 GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAACATCG ATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATGCTTATGGATTAAAAAAGCTTATCCGAAT TGGGCAAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGTGAT GGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTCGTA CAATCAATG Transcript length: 1001 Transcript exons: 13425638-13426609 GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGACAT CGGCCTAGAGTACGGCGTTATGCTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAG AGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGG TGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTCGTACAATCAATGGCTGA ATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGTATGATCTA ATTATCATATGATTAGTGCTTTAGATGATATTTATTAGTAGCTAAGTGTTTCCTGTTTTGGGGG AACTGAGAAGATGAGGCTCTTCCTACAGAAAATGCATAAAGTTGTGATGTTAAAATTTCTGTTC TTAATCAGATCAAATTGTTTTAAATAGTAGAAGTCCACTTTTACTCCACAATTGCTGAATCACA CTCTATTTTCTTTTGAAGCATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATGCTTAT GGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCC TGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGC ACACGAATGGAAATGTGTTCGTACAATCAATGGCTGAATATGCACTATCGAGAGGCGGAAGTAC AAGAACAAAGTTAAGCATGGAGGCCAACATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGT TATGCTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTCCAGAGTCTCTTTTGAGGCAAT CATCTACCCTGGTTAATGATGTCAGGGGTGATGGTTTCTATGAGGGTGGTGACAATGGAGATGC AATCGAGGCACACGAATGGAAATGTGTTCGTACAATCAATG
Genomic sequence	GCTGAATATGCACTATCGAGAGGCGGAAGTACAAGAACAAAGTTAAGCATGGAGGCCAAGTATG ATCTAATTATCATATGATTAGTGCTTTAGATGATATTTATTAGTAGCTAAGTGTTTCCTGTTTT GGGGGAACTGAGAAGATGAGGCTCTTCCTACAGAAAATGCATAAAGTTGTGATGTTAAAATTTC TGTTCTTAATCAGATCAAATTGTTTTAAATAGTAGAAGTCCACTTTTACTCCACAATTGCTGAA TCACACTCTATTTTCTTTTGAAGCATCGATCTGGAAGGACATCGGCCTAGAGTACGGCGTTATG CTTATGGATTAAAAAAGCTTATCCGAATTGGGCAAGGTATACACTGTATCTCAAGTTTATGGGC TTGCTTAGCTTCAGAATCTTACACTGTGTGTGCAGATTGCTAAAAGTTCATTTGTTGGTGTATA GCCTATAATTATTATCGTAGTTCATCTCCAAATCTTACATTGGAAAAAAACATTAGAACTCATT TGCCTATTTTCCTTGTTACCCCTATCTTTGGGTTGGGCACATGCTAAATGACATAACTGGGAAA AGTGGTCCTGAAGATTCTGATTATGTCTACATTTAAATGGATCGACACCAGATTTAAATAAATG TTCTGTGTATTAGTGAAACTGTAGTTCGAAATTTATAATCCTACAGCCCTTGACTTTATTATGC ATTGATAGGTCTGGTTCCATAGTTAATTTGATTTCTTAACGTTTAATCTAGTGGTTATTCATGA TTCAAGACATAAGGTTCACCTGAAAGTTACTTTTCTTTCAAAGCAAATATGTATGATAATGTTC TTAAATGCCAGGTCCAGAGTCTCTTTTGAGGCAATCATCTACCCTGGTTAATGATGTCAGGGGT GATGGTTTCTATGAGGGTGGTGACAATGGAGATGCAATCGAGGCACACGAATGGAAATGTGTTC GTACAATCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.182165868

Conservation Information
Conserved circRNAs	NA
PMCS	0.182165868

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT5G35180_circ_g.3

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