Plant Circular RNA Database

Detail information of AT4G32940_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT4G32940_circ_g.5
					
						ID in PlantcircBase
						ath_circ_034235
					
						Alias
						At_ciR3419
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15901048-15902677  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT4G32940						
					
						Parent gene annotation
						
							GAMMAVPE
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G32940_circ_g.3 AT4G32940_circ_g.4 AT4G32940_circ_g.6 AT4G32940_circ_g.7 AT4G32940_circ_g.8 AT4G32940_circ_g.9 AT4G32940_circ_g.10 AT4G32940_circ_g.11 AT4G32940_circ_g.12 AT4G32940_circ_g.13 AT4G32940_circ_g.14 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						AT4G32940.1:7

General Information
CircRNA Name	AT4G32940_circ_g.5
ID in PlantcircBase	ath_circ_034235
Alias	At_ciR3419
Organism	Arabidpsis thaliana
Position	chr4: 15901048-15902677 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT4G32940
Parent gene annotation	GAMMAVPE
Parent gene strand	-
Alternative splicing	AT4G32940_circ_g.3 AT4G32940_circ_g.4 AT4G32940_circ_g.6 AT4G32940_circ_g.7 AT4G32940_circ_g.8 AT4G32940_circ_g.9 AT4G32940_circ_g.10 AT4G32940_circ_g.11 AT4G32940_circ_g.12 AT4G32940_circ_g.13 AT4G32940_circ_g.14
Support reads	2
Tissues	leaf
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	AT4G32940.1:7

			
						 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  
						
							TCTCGTAATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCCTCTTTCAATCCACC
TTTCCTCAGAAGTTGATAGGCATGGCATATATCAGCctgatttttaaggcagttccagtcatcg
actagaggttgcccagcagaccgtactttgtttagcacttcaggacctctcgaaatgccaaaca
agattttt

									
								

					

						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: 1074
Transcript exons: 15901048-15901254,15901349-15901558,15901672-15901720,15
901834-15902033,15902113-15902198,15902275-15902431,1590
2513-15902677
CTGATTTTTAAGGCAGTTCCAGTCATCGACTAGAGGTTGCCCAGCAGACCGTACTTTGTTTAGC
ACTTCAGGACCTCTCGAAATGCCAAACAAGATTTTTCCGACGAGTATCACGCTATTGTCAATAT
GAAGTCTGTGAGACATGGCTTCAAGTACTTGCTTCTGAGCTTCTGTTTTTCTTGCTGAACCTTC
TGGTGCTTTTCGGTACTTTTCCCAAAAATGAACAAGATCTGCATCACGCTGGTTTGTAACTCTT
GAAGGTGGCTTTAGTGAATTCGCATCCGCAAAGGTAAAATTGTCATTGGCAGGGTTTGTTCCCA
TATAAAGATCGAGATTATCCTTGCTAATTCCTACATCGCCATATTGCATGACATGAGAACCATA
AGAGTACCCAACAGGTGCAGTCCTCCTTTTCACAAGTTCATATTGCTGGTGCAGAGTCTCAGTC
TGTAAATTGTGCATACCACTATCTTCCATCCAAGCAACACTGTACAAGTCACCTAAACAAGTTT
CATACTCCGGTGGAGGACTGGGTTCCTCTCCAGGGCAATAGGTACCCCAACTGCTTTCTTCGGC
GTTTGATGCAGTTGTGGCATAGATGTTCAAACCCTCAGGAAGAAGCCCTTCAAAGATACTTCCA
GATTCGCAAGCTTCGAGATAAAACACCAAGCTTTTATATGTTCCTAAAGCATGTTTCTTCTTCA
AGACATCATTGAGATCATTTGCATATAGGTAAGGAGAAGTTGGCATCCCAAGAACTCCAGGACC
ACCATGGTCACTGTAGAATATGAAGATATGATCATTAGGACCACTATCCACAACCTTCCCACTT
CCCCCTTTAACAGCAGTTTTGTCTCCAAGGATCACAGCAAATAGATTATCAACATTGACATCAT
CTCCAGTATAATCCTTGGGAACTCCTTGATAGACATCTTTTCCATGAGGGCTGTTGATAATGGT
TCCAGGCCTTGGATTCTCGTAATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCC
TCTTTCAATCCACCTTTCCTCAGAAGTTGATAGGCATGGCATATATCAGC
						
					

						Genomic sequence
						
							CTGATTTTTAAGGCAGTTCCAGTCATCGACTAGAGGTTGCCCAGCAGACCGTACTTTGTTTAGC
ACTTCAGGACCTCTCGAAATGCCAAACAAGATTTTTCCGACGAGTATCACGCTATTGTCAATAT
GAAGTCTGTGAGACATGGCTTCAAGTACTTGCTTCTGAGCTTCTGTTTTTCTTGCTGAACCTTC
TGGTGCTTTTCGGTACTTCATGAAAACAATAACATGCAAACGAAATTGTATTTAGCAATCCAAG
AAGCTATTAAGTATCCAAAAGATGCAAACAAGAAAGGAAAATAACCTTTTCCCAAAAATGAACA
AGATCTGCATCACGCTGGTTTGTAACTCTTGAAGGTGGCTTTAGTGAATTCGCATCCGCAAAGG
TAAAATTGTCATTGGCAGGGTTTGTTCCCATATAAAGATCGAGATTATCCTTGCTAATTCCTAC
ATCGCCATATTGCATGACATGAGAACCATAAGAGTACCCAACAGGTGCAGTCCTCCTTTTCACC
TGAAAACACAAAGACACACTTTATGATGCACATCTTTGCTAACAATCTAATTTACAGTTGAAAA
AGTTTTAGCTCCATCATTACAGGCAAACCACAAAAACTAGAAACTTACAAGTTCATATTGCTGG
TGCAGAGTCTCAGTCTGTAAATTGTGCATACCACTGTTGCATTTTAAACAAATCAGAATCAATA
TAAGGGACATCCATAGAGATTCATAAACATGAGAAACAGAACACTGCAACTCTTATTGGCGTAT
CTGGATTCTTTAGCTTACCTATCTTCCATCCAAGCAACACTGTACAAGTCACCTAAACAAGTTT
CATACTCCGGTGGAGGACTGGGTTCCTCTCCAGGGCAATAGGTACCCCAACTGCTTTCTTCGGC
GTTTGATGCAGTTGTGGCATAGATGTTCAAACCCTCAGGAAGAAGCCCTTCAAAGATACTTCCA
GATTCGCAAGCTTCGAGATAAAACACCTGCAGGTTTGCCTTTTAGTATTACTCATAGGCAGCAC
CAACAACAAAAGTATTTCAGAGGAACCTTCACGATTTATACCAAGCTTTTATATGTTCCTAAAG
CATGTTTCTTCTTCAAGACATCATTGAGATCATTTGCATATAGGTAAGGAGAAGTTGGCATCCC
TGCAAATAAAAGACAGAATCATCAAAAAATGTTGGTCCAAAACCATTCAATTTCTGTGTGTATA
ACGGAACTCACCAAGAACTCCAGGACCACCATGGTCACTGTAGAATATGAAGATATGATCATTA
GGACCACTATCCACAACCTTCCCACTTCCCCCTTTAACAGCAGTTTTGTCTCCAAGGATCACAG
CAAATAGATTATCAACATTGACATCATCTCCAGTATAATCCTGCCATACGAAGAATAATCCCAA
CCAAATGAGTAAACACATATTGAGAGAATCAATCAAAAACGTAAGAAAGCAAAAGACCTTGGGA
ACTCCTTGATAGACATCTTTTCCATGAGGGCTGTTGATAATGGTTCCAGGCCTTGGATTCTCGT
AATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCCTCTTTCAATCCACCTTTCCT
CAGAAGTTGATAGGCATGGCATATATCAGC
						
					

			
		

Sequences
Splice junction sequence	TCTCGTAATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCCTCTTTCAATCCACC TTTCCTCAGAAGTTGATAGGCATGGCATATATCAGCctgatttttaaggcagttccagtcatcg actagaggttgcccagcagaccgtactttgtttagcacttcaggacctctcgaaatgccaaaca agattttt
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: 1074 Transcript exons: 15901048-15901254,15901349-15901558,15901672-15901720,15 901834-15902033,15902113-15902198,15902275-15902431,1590 2513-15902677 CTGATTTTTAAGGCAGTTCCAGTCATCGACTAGAGGTTGCCCAGCAGACCGTACTTTGTTTAGC ACTTCAGGACCTCTCGAAATGCCAAACAAGATTTTTCCGACGAGTATCACGCTATTGTCAATAT GAAGTCTGTGAGACATGGCTTCAAGTACTTGCTTCTGAGCTTCTGTTTTTCTTGCTGAACCTTC TGGTGCTTTTCGGTACTTTTCCCAAAAATGAACAAGATCTGCATCACGCTGGTTTGTAACTCTT GAAGGTGGCTTTAGTGAATTCGCATCCGCAAAGGTAAAATTGTCATTGGCAGGGTTTGTTCCCA TATAAAGATCGAGATTATCCTTGCTAATTCCTACATCGCCATATTGCATGACATGAGAACCATA AGAGTACCCAACAGGTGCAGTCCTCCTTTTCACAAGTTCATATTGCTGGTGCAGAGTCTCAGTC TGTAAATTGTGCATACCACTATCTTCCATCCAAGCAACACTGTACAAGTCACCTAAACAAGTTT CATACTCCGGTGGAGGACTGGGTTCCTCTCCAGGGCAATAGGTACCCCAACTGCTTTCTTCGGC GTTTGATGCAGTTGTGGCATAGATGTTCAAACCCTCAGGAAGAAGCCCTTCAAAGATACTTCCA GATTCGCAAGCTTCGAGATAAAACACCAAGCTTTTATATGTTCCTAAAGCATGTTTCTTCTTCA AGACATCATTGAGATCATTTGCATATAGGTAAGGAGAAGTTGGCATCCCAAGAACTCCAGGACC ACCATGGTCACTGTAGAATATGAAGATATGATCATTAGGACCACTATCCACAACCTTCCCACTT CCCCCTTTAACAGCAGTTTTGTCTCCAAGGATCACAGCAAATAGATTATCAACATTGACATCAT CTCCAGTATAATCCTTGGGAACTCCTTGATAGACATCTTTTCCATGAGGGCTGTTGATAATGGT TCCAGGCCTTGGATTCTCGTAATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCC TCTTTCAATCCACCTTTCCTCAGAAGTTGATAGGCATGGCATATATCAGC
Genomic sequence	CTGATTTTTAAGGCAGTTCCAGTCATCGACTAGAGGTTGCCCAGCAGACCGTACTTTGTTTAGC ACTTCAGGACCTCTCGAAATGCCAAACAAGATTTTTCCGACGAGTATCACGCTATTGTCAATAT GAAGTCTGTGAGACATGGCTTCAAGTACTTGCTTCTGAGCTTCTGTTTTTCTTGCTGAACCTTC TGGTGCTTTTCGGTACTTCATGAAAACAATAACATGCAAACGAAATTGTATTTAGCAATCCAAG AAGCTATTAAGTATCCAAAAGATGCAAACAAGAAAGGAAAATAACCTTTTCCCAAAAATGAACA AGATCTGCATCACGCTGGTTTGTAACTCTTGAAGGTGGCTTTAGTGAATTCGCATCCGCAAAGG TAAAATTGTCATTGGCAGGGTTTGTTCCCATATAAAGATCGAGATTATCCTTGCTAATTCCTAC ATCGCCATATTGCATGACATGAGAACCATAAGAGTACCCAACAGGTGCAGTCCTCCTTTTCACC TGAAAACACAAAGACACACTTTATGATGCACATCTTTGCTAACAATCTAATTTACAGTTGAAAA AGTTTTAGCTCCATCATTACAGGCAAACCACAAAAACTAGAAACTTACAAGTTCATATTGCTGG TGCAGAGTCTCAGTCTGTAAATTGTGCATACCACTGTTGCATTTTAAACAAATCAGAATCAATA TAAGGGACATCCATAGAGATTCATAAACATGAGAAACAGAACACTGCAACTCTTATTGGCGTAT CTGGATTCTTTAGCTTACCTATCTTCCATCCAAGCAACACTGTACAAGTCACCTAAACAAGTTT CATACTCCGGTGGAGGACTGGGTTCCTCTCCAGGGCAATAGGTACCCCAACTGCTTTCTTCGGC GTTTGATGCAGTTGTGGCATAGATGTTCAAACCCTCAGGAAGAAGCCCTTCAAAGATACTTCCA GATTCGCAAGCTTCGAGATAAAACACCTGCAGGTTTGCCTTTTAGTATTACTCATAGGCAGCAC CAACAACAAAAGTATTTCAGAGGAACCTTCACGATTTATACCAAGCTTTTATATGTTCCTAAAG CATGTTTCTTCTTCAAGACATCATTGAGATCATTTGCATATAGGTAAGGAGAAGTTGGCATCCC TGCAAATAAAAGACAGAATCATCAAAAAATGTTGGTCCAAAACCATTCAATTTCTGTGTGTATA ACGGAACTCACCAAGAACTCCAGGACCACCATGGTCACTGTAGAATATGAAGATATGATCATTA GGACCACTATCCACAACCTTCCCACTTCCCCCTTTAACAGCAGTTTTGTCTCCAAGGATCACAG CAAATAGATTATCAACATTGACATCATCTCCAGTATAATCCTGCCATACGAAGAATAATCCCAA CCAAATGAGTAAACACATATTGAGAGAATCAATCAAAAACGTAAGAAAGCAAAAGACCTTGGGA ACTCCTTGATAGACATCTTTTCCATGAGGGCTGTTGATAATGGTTCCAGGCCTTGGATTCTCGT AATTGTTAGCAATATCATCATACATGAATACCACAATATTCTCCTCTTTCAATCCACCTTTCCT CAGAAGTTGATAGGCATGGCATATATCAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.298212384

Conservation Information
Conserved circRNAs	NA
PMCS	0.298212384

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							15902609-15901050(-)
						
					

						Potential amino acid sequence
						
							MYDDIANNYENPRPGTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVD
SGPNDHIFIFYSDHGGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEG
LLPEGLNIYATTASNAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQ
QYELVKRRTAPVGYSYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQR
DADLVHFWEKYRKAPEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRS
AGQPLVDDWNCLKNQADICHAYQLLRKGGLKEENIVVFMYDDIANNYENPRPGTIINSPHGKDV
YQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSP
YLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCP
GEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQQYELVKRRTAPVGYSYGSHVMQYGDV
GISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQRDADLVHFWEKYRKAPEGSARKTEAQK
QVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRSAGQPLVDDWNCLKNQADICHAYQLLR
KGGLKEENIVVFMYDDIANNYENPRPGTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDK
TAVKGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFY
LEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDS
GMHNLQTETLHQQYELVKRRTAPVGYSYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADAN
SLKPPSRVTNQRDADLVHFWEKYRKAPEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGI
SRGPEVLNKVRSAGQPLVDDWNCLKNQADICHAYQLLRKGGLKEENIVVFMYDDIANNYENPRP
GTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVDSGPNDHIFIFYSDH
GGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEGLLPEGLNIYATTAS
NAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQQYELVKRRTAPVGY
SYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQRDADLVHFWEKYRKA
PEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRSAGQPLVDDWNCLKN
Q(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	15902609-15901050(-)
Potential amino acid sequence	MYDDIANNYENPRPGTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVD SGPNDHIFIFYSDHGGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEG LLPEGLNIYATTASNAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQ QYELVKRRTAPVGYSYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQR DADLVHFWEKYRKAPEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRS AGQPLVDDWNCLKNQADICHAYQLLRKGGLKEENIVVFMYDDIANNYENPRPGTIINSPHGKDV YQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSP YLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCP GEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQQYELVKRRTAPVGYSYGSHVMQYGDV GISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQRDADLVHFWEKYRKAPEGSARKTEAQK QVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRSAGQPLVDDWNCLKNQADICHAYQLLR KGGLKEENIVVFMYDDIANNYENPRPGTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDK TAVKGGSGKVVDSGPNDHIFIFYSDHGGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFY LEACESGSIFEGLLPEGLNIYATTASNAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDS GMHNLQTETLHQQYELVKRRTAPVGYSYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADAN SLKPPSRVTNQRDADLVHFWEKYRKAPEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGI SRGPEVLNKVRSAGQPLVDDWNCLKNQADICHAYQLLRKGGLKEENIVVFMYDDIANNYENPRP GTIINSPHGKDVYQGVPKDYTGDDVNVDNLFAVILGDKTAVKGGSGKVVDSGPNDHIFIFYSDH GGPGVLGMPTSPYLYANDLNDVLKKKHALGTYKSLVFYLEACESGSIFEGLLPEGLNIYATTAS NAEESSWGTYCPGEEPSPPPEYETCLGDLYSVAWMEDSGMHNLQTETLHQQYELVKRRTAPVGY SYGSHVMQYGDVGISKDNLDLYMGTNPANDNFTFADANSLKPPSRVTNQRDADLVHFWEKYRKA PEGSARKTEAQKQVLEAMSHRLHIDNSVILVGKILFGISRGPEVLNKVRSAGQPLVDDWNCLKN Q(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT4G32940_circ_g.5

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