Plant Circular RNA Database

Detail information of 3_circ_ig.10

			
						 General Information
					
						CircRNA Name
						3_circ_ig.10
					
						ID in PlantcircBase
						ath_circ_026076
					
						Alias
						Ath_circ_FC2247, AtciR69
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 16310118-16311208  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI, circRNA_finder, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							3_circ_ig.4 3_circ_ig.5 3_circ_ig.6 3_circ_ig.7 3_circ_ig.8 3_circ_ig.9 3_circ_igg.11 3_circ_igg.12 3_circ_igg.13 3_circ_ig.14 3_circ_ig.15 3_circ_igg.16 3_circ_igg.17 3_circ_ig.18 AT3G44765_circ_g.1 AT3G44765_circ_g.2 AT3G44765_circ_g.3 3_circ_igg.4 3_circ_igg.5 3_circ_igg.6 						
					
						Support reads
						11
					
						Tissues
						inflorescences, seed, whole_plant, leaf
					
						Exon boundary  
						
							No-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
						NA

General Information
CircRNA Name	3_circ_ig.10
ID in PlantcircBase	ath_circ_026076
Alias	Ath_circ_FC2247, AtciR69
Organism	Arabidpsis thaliana
Position	chr3: 16310118-16311208 JBrowse»
Reference genome	TAIR10.38
Type	ig-circRNA
Identification method	CIRI, circRNA_finder, find_circ, CIRI-full, CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	3_circ_ig.4 3_circ_ig.5 3_circ_ig.6 3_circ_ig.7 3_circ_ig.8 3_circ_ig.9 3_circ_igg.11 3_circ_igg.12 3_circ_igg.13 3_circ_ig.14 3_circ_ig.15 3_circ_igg.16 3_circ_igg.17 3_circ_ig.18 AT3G44765_circ_g.1 AT3G44765_circ_g.2 AT3G44765_circ_g.3 3_circ_igg.4 3_circ_igg.5 3_circ_igg.6
Support reads	11
Tissues	inflorescences, seed, whole_plant, leaf
Exon boundary	No-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	NA

			
						 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  
						
							AGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAAT
TTCGAAGGTGAATATGTAACCAAGTGCATATGAGAGattaacaggagcaaagcagtcgaatcgg
gattggatcataatttgtaagattttctgtaagtttcttaattagcattattttgtgttttaat
tttacagt

									
								

					

						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: 146
Transcript exons: 16310118-16310146,16311092-16311208
ATTAACAGGAGCAAAGCAGTCGAATCGGGTTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTC
GTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTA
ACCAAGTGCATATGAGAG
Transcript length: 147
Transcript exons: 16310118-16310146,16311091-16311208
ATTAACAGGAGCAAAGCAGTCGAATCGGGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGT
CGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGT
AACCAAGTGCATATGAGAG
Transcript length: 160
Transcript exons: 16310118-16310173,16311105-16311208
ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTGCCAAGAG
GAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCG
AAGGTGAATATGTAACCAAGTGCATATGAGAG
Transcript length: 2364
Transcript exons: 16310118-16311208
ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTAATGGTATTGTATCAAGATG
GACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAA
ATATCAGGATATGTGATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCC
GTAAAAAGAAGGGTCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCAT
TTTACGAAGTCTACAGGGACAAAAAATCTGGGTATCATTATAAAGCATGATTACAAGTAAAAAA
GAGTAGCATGCAGTCATATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATG
AGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGA
ATATGTAACCAAGTGCATATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCAT
AATTTGTAAGATTTTCTAATGGTATTGTATCAAGATGGACGACTCTTAAGCTGAAAATAACTAA
ACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAAATATCAGGATATGTGATTCTTAAGTGG
AAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGTCAGATCTCAATTT
CCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGAAGTCTACAGGGACAAAAAAT
CTGGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTC
TCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTG
ATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGAGAGAT
TAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTAATGGTATTG
TATCAAGATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCG
GAGAAAGGAAATATCAGGATATGTGATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATT
CAATCTCTCCGTAAAAAGAAGGGTCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAAC
AAGAAGCCATTTTACGAAGTCTACAGGGACAAAAAATCTGGGTATCATTATAAAGCATGATTAC
AAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAA
GAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATT
TCGAAGGTGAATATGTAACCAAGTGCATATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGG
ATTGGATCATAATTTGTAAGATTTTCTAATGGTATTGTATCAAGATGGACGACTCTTAAGCTGA
AAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAAATATCAGGATATGTGAT
TCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGTCAG
ATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGAAGTCTACAGG
GACAAAAAATCTGGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCAT
ATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTG
CCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCA
TATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCT
ATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAG
GAAATATCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGA
AGTCTACAGGGACAAAAAATGTTTTGAAACACTGTTAAATCATATTTGCTGCCAAGATGATGCT
GGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTC
TGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGAT
TATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGAGAG
						
					

						Genomic sequence
						
							ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTGTAAGTTT
CTTAATTAGCATTATTTTGTGTTTTAATTTTACAGTCTTATGTATATAGTAACTGCTATTAGAA
TGGTATTGTATCAAGATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAG
TTGCCTCGGAGAAAGGAAATATCAGGTAGATAAACTACCTTCATCTCTTTTTCAGAGTTTTTGT
AGTTTTCTAATGGTCTTGTGTATATAGTGTACTGCTAACATAATGGTTCTGTACCAGGATATGT
GATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGT
CAGGTAGATAAACACACTTTGATACAATGTTTTTCTACTAATTTCTAACGTGTTTAAGTGATAT
CAACTAAAAAAGCATATCATATAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAG
AAGCCATTTTACGAAGTCTACAGGGACAAAAAATGTAAGGCTACGCTTGATTTTACTGCAAGAA
AATCCATTGTTATATATTTGTATTTGCTTTTACTTAAGTTCTTGCTCTTAAACTTTTGTTTACA
TCTCCTATGATCTTGTCATGTTTGTTTTTTGAAAGGTTTTGAAACACTGTTAAATCATATTTGC
TGCCAAGATGATGGTTGGATTCTCTTTTCGACATCTTAATGCGTTTCAAGCATTTTGCAGTTTA
TATTCCTCTGGAGTGAGATTGTTTTTCTAACTTGAAGAGTTATATTTTCAGCTGGGTATCATTA
TAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTCTGTAAGACTCT
TATCTAGTGTTTTTTATATTTATTTTGGTATTGATTTGTGGTTTCATTTTATTGTTTGTGTTGT
ACTTTCAGGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCT
TGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGA
GAG
						
					

			
		

Sequences
Splice junction sequence	AGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAAT TTCGAAGGTGAATATGTAACCAAGTGCATATGAGAGattaacaggagcaaagcagtcgaatcgg gattggatcataatttgtaagattttctgtaagtttcttaattagcattattttgtgttttaat tttacagt
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: 146 Transcript exons: 16310118-16310146,16311092-16311208 ATTAACAGGAGCAAAGCAGTCGAATCGGGTTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTC GTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTA ACCAAGTGCATATGAGAG Transcript length: 147 Transcript exons: 16310118-16310146,16311091-16311208 ATTAACAGGAGCAAAGCAGTCGAATCGGGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGT CGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGT AACCAAGTGCATATGAGAG Transcript length: 160 Transcript exons: 16310118-16310173,16311105-16311208 ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTGCCAAGAG GAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCG AAGGTGAATATGTAACCAAGTGCATATGAGAG Transcript length: 2364 Transcript exons: 16310118-16311208 ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTAATGGTATTGTATCAAGATG GACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAA ATATCAGGATATGTGATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCC GTAAAAAGAAGGGTCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCAT TTTACGAAGTCTACAGGGACAAAAAATCTGGGTATCATTATAAAGCATGATTACAAGTAAAAAA GAGTAGCATGCAGTCATATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATG AGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGA ATATGTAACCAAGTGCATATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCAT AATTTGTAAGATTTTCTAATGGTATTGTATCAAGATGGACGACTCTTAAGCTGAAAATAACTAA ACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAAATATCAGGATATGTGATTCTTAAGTGG AAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGTCAGATCTCAATTT CCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGAAGTCTACAGGGACAAAAAAT CTGGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTC TCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTG ATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGAGAGAT TAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTAATGGTATTG TATCAAGATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCG GAGAAAGGAAATATCAGGATATGTGATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATT CAATCTCTCCGTAAAAAGAAGGGTCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAAC AAGAAGCCATTTTACGAAGTCTACAGGGACAAAAAATCTGGGTATCATTATAAAGCATGATTAC AAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAA GAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATT TCGAAGGTGAATATGTAACCAAGTGCATATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGG ATTGGATCATAATTTGTAAGATTTTCTAATGGTATTGTATCAAGATGGACGACTCTTAAGCTGA AAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAGGAAATATCAGGATATGTGAT TCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGTCAG ATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGAAGTCTACAGG GACAAAAAATCTGGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCAT ATTTTGGCTCTCTGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTG CCTCTTGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCA TATGAGAGATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCT ATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAGTTGCCTCGGAGAAAG GAAATATCAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAGAAGCCATTTTACGA AGTCTACAGGGACAAAAAATGTTTTGAAACACTGTTAAATCATATTTGCTGCCAAGATGATGCT GGGTATCATTATAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTC TGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCTTGCTGAT TATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGAGAG
Genomic sequence	ATTAACAGGAGCAAAGCAGTCGAATCGGGATTGGATCATAATTTGTAAGATTTTCTGTAAGTTT CTTAATTAGCATTATTTTGTGTTTTAATTTTACAGTCTTATGTATATAGTAACTGCTATTAGAA TGGTATTGTATCAAGATGGACGACTCTTAAGCTGAAAATAACTAAACTTAGGAAAGTGCTTCAG TTGCCTCGGAGAAAGGAAATATCAGGTAGATAAACTACCTTCATCTCTTTTTCAGAGTTTTTGT AGTTTTCTAATGGTCTTGTGTATATAGTGTACTGCTAACATAATGGTTCTGTACCAGGATATGT GATTCTTAAGTGGAAAAAGACCAAATTTAAGAAAGCTATTCAATCTCTCCGTAAAAAGAAGGGT CAGGTAGATAAACACACTTTGATACAATGTTTTTCTACTAATTTCTAACGTGTTTAAGTGATAT CAACTAAAAAAGCATATCATATAGATCTCAATTTCCAAGGTACAATACTGCCATTAGCAACAAG AAGCCATTTTACGAAGTCTACAGGGACAAAAAATGTAAGGCTACGCTTGATTTTACTGCAAGAA AATCCATTGTTATATATTTGTATTTGCTTTTACTTAAGTTCTTGCTCTTAAACTTTTGTTTACA TCTCCTATGATCTTGTCATGTTTGTTTTTTGAAAGGTTTTGAAACACTGTTAAATCATATTTGC TGCCAAGATGATGGTTGGATTCTCTTTTCGACATCTTAATGCGTTTCAAGCATTTTGCAGTTTA TATTCCTCTGGAGTGAGATTGTTTTTCTAACTTGAAGAGTTATATTTTCAGCTGGGTATCATTA TAAAGCATGATTACAAGTAAAAAAGAGTAGCATGCAGTCATATTTTGGCTCTCTGTAAGACTCT TATCTAGTGTTTTTTATATTTATTTTGGTATTGATTTGTGGTTTCATTTTATTGTTTGTGTTGT ACTTTCAGGTGAGATTTTGGTTTAGTAGCCAAGAGGAAAATGAGGGGTCGTGTTTCCTGCCTCT TGCTGATTATTTTGAGGTCAAGAGAAAAAATTTCGAAGGTGAATATGTAACCAAGTGCATATGA GAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.43132692

Conservation Information
Conserved circRNAs	NA
PMCS	0.43132692

			
						 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
						Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of 3_circ_ig.10

Address

Any questions?

Supported by