Plant Circular RNA Database

Detail information of AT3G46970_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT3G46970_circ_g.3
					
						ID in PlantcircBase
						ath_circ_026332
					
						Alias
						At_ciR176, AT3G46970_C4
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 17302215-17302478  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
					
						Parent gene
						
							AT3G46970						
					
						Parent gene annotation
						
							Alpha-glucan phosphorylase 2, cytosolic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G46970_circ_g.1 AT3G46970_circ_g.2 AT3G46970_circ_g.4 AT3G46970_circ_g.5 AT3G46970_circ_g.6 AT3G46970_circ_g.7 AT3G46970_circ_g.8 AT3G46970_circ_g.9 AT3G46970_circ_g.10 AT3G46970_circ_g.11 AT3G46970_circ_g.12 AT3G46970_circ_g.13 AT3G46970_circ_g.14 AT3G46970_circ_g.15 						
					
						Support reads
						60/93
					
						Tissues
						leaf/aerial, inflorescences, 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  
						
							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
						AT3G46970.1:1

General Information
CircRNA Name	AT3G46970_circ_g.3
ID in PlantcircBase	ath_circ_026332
Alias	At_ciR176, AT3G46970_C4
Organism	Arabidpsis thaliana
Position	chr3: 17302215-17302478 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
Parent gene	AT3G46970
Parent gene annotation	Alpha-glucan phosphorylase 2, cytosolic
Parent gene strand	-
Alternative splicing	AT3G46970_circ_g.1 AT3G46970_circ_g.2 AT3G46970_circ_g.4 AT3G46970_circ_g.5 AT3G46970_circ_g.6 AT3G46970_circ_g.7 AT3G46970_circ_g.8 AT3G46970_circ_g.9 AT3G46970_circ_g.10 AT3G46970_circ_g.11 AT3G46970_circ_g.12 AT3G46970_circ_g.13 AT3G46970_circ_g.14 AT3G46970_circ_g.15
Support reads	60/93
Tissues	leaf/aerial, inflorescences, 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	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	AT3G46970.1:1

			
						 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  
						
							CACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTC
CGCTACAGTGACATTGTAGTTTGGAACAAATACCACcagtccgtcttctcgttctttacgcagt
cgagggacctgatcggccgttgcaccaaaaagaaagaaattttcttcgccaacctcctctctta
tctcaaca

									
								

					

						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: 162
Transcript exons: 17302215-17302289,17302392-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCG
CTACAGTGACATTGTAGTTTGGAACAAATACCAC
Transcript length: 232
Transcript exons: 17302215-17302320,17302353-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCGAGAGCGAATTTCATATTGCTG
GTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCA
TCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC
Transcript length: 232
Transcript exons: 17302215-17302338,17302371-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAGCTG
GTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCA
TCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC
Transcript length: 244
Transcript exons: 17302215-17302246,17302267-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGCCAAAAAGAAAGAAATTTTCTTCGCCAACCTC
CTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAAGACAACCGTTGAGAGCGAAT
TTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTC
CGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC
Transcript length: 247
Transcript exons: 17302215-17302357,17302375-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA
GACAACCGTTGAGAGGTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCAC
TTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC
Transcript length: 264
Transcript exons: 17302215-17302478
CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA
GACAACCGTTGAGAGCGAATTTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGAT
GTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACA
AATACCAC
						
					

						Genomic sequence
						
							CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG
AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA
GACAACCGTTGAGAGCGAATTTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGAT
GTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACA
AATACCAC
						
					

			
		

Sequences
Splice junction sequence	CACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTC CGCTACAGTGACATTGTAGTTTGGAACAAATACCACcagtccgtcttctcgttctttacgcagt cgagggacctgatcggccgttgcaccaaaaagaaagaaattttcttcgccaacctcctctctta tctcaaca
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: 162 Transcript exons: 17302215-17302289,17302392-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCG CTACAGTGACATTGTAGTTTGGAACAAATACCAC Transcript length: 232 Transcript exons: 17302215-17302320,17302353-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCGAGAGCGAATTTCATATTGCTG GTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCA TCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC Transcript length: 232 Transcript exons: 17302215-17302338,17302371-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAGCTG GTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTCCGGGTATTAGCA TCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC Transcript length: 244 Transcript exons: 17302215-17302246,17302267-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGCCAAAAAGAAAGAAATTTTCTTCGCCAACCTC CTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAAGACAACCGTTGAGAGCGAAT TTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCACTTC CGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC Transcript length: 247 Transcript exons: 17302215-17302357,17302375-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA GACAACCGTTGAGAGGTACCACTTGCCTCCATGCCTGCTGTGCTGATGTGTTGAGATAGCTCAC TTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACAAATACCAC Transcript length: 264 Transcript exons: 17302215-17302478 CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA GACAACCGTTGAGAGCGAATTTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGAT GTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACA AATACCAC
Genomic sequence	CAGTCCGTCTTCTCGTTCTTTACGCAGTCGAGGGACCTGATCGGCCGTTGCACCAAAAAGAAAG AAATTTTCTTCGCCAACCTCCTCTCTTATCTCAACATTAGCCCCATCAAGGGTTCCTATAATAA GACAACCGTTGAGAGCGAATTTCATATTGCTGGTACCACTTGCCTCCATGCCTGCTGTGCTGAT GTGTTGAGATAGCTCACTTCCGGGTATTAGCATCTCCGCTACAGTGACATTGTAGTTTGGAACA AATACCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.044973078

Conservation Information
Conserved circRNAs	NA
PMCS	1.044973078

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17302440-17302217(-)
						
						Potential amino acid sequence
						
							MLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFLFGATADQV
PRLRKEREDGLVVFVPNYNVTVAEMLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDG
ANVEIREEVGEENFFLFGATADQVPRLRKEREDGLVVFVPNYNVTVAEMLIPGSELSQHISTAG
MEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFLFGATADQVPRLRKEREDGLVVFVP
NYNVTVAEMLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFL
FGATADQVPRLRKEREDGL(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17302440-17302217(-)
Potential amino acid sequence	MLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFLFGATADQV PRLRKEREDGLVVFVPNYNVTVAEMLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDG ANVEIREEVGEENFFLFGATADQVPRLRKEREDGLVVFVPNYNVTVAEMLIPGSELSQHISTAG MEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFLFGATADQVPRLRKEREDGLVVFVP NYNVTVAEMLIPGSELSQHISTAGMEASGTSNMKFALNGCLIIGTLDGANVEIREEVGEENFFL FGATADQVPRLRKEREDGL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT3G46970_circ_g.3

Address

Any questions?

Supported by