Plant Circular RNA Database

Detail information of AT4G31340_circ_g.11

			
						 General Information
					
						CircRNA Name
						AT4G31340_circ_g.11
					
						ID in PlantcircBase
						ath_circ_033843
					
						Alias
						4:15207332-15208434
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15207332-15208434  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G31340						
					
						Parent gene annotation
						
							AT4G31340 protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G31340_circ_g.1 AT4G31340_circ_g.2 AT4G31340_circ_g.3 AT4G31340_circ_g.4 AT4G31340_circ_g.5 AT4G31340_circ_g.6 AT4G31340_circ_g.7 AT4G31340_circ_g.8 AT4G31340_circ_g.9 AT4G31340_circ_g.10 AT4G31340_circ_g.12 AT4G31340_circ_g.13 AT4G31340_circ_g.14 AT4G31340_circ_g.15 AT4G31340_circ_g.16 						
					
						Support reads
						1/1
					
						Tissues
						seedling;flower
					
						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
						AT4G31340.2:6
AT4G31340.1:6

General Information
CircRNA Name	AT4G31340_circ_g.11
ID in PlantcircBase	ath_circ_033843
Alias	4:15207332-15208434
Organism	Arabidpsis thaliana
Position	chr4: 15207332-15208434 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G31340
Parent gene annotation	AT4G31340 protein
Parent gene strand	+
Alternative splicing	AT4G31340_circ_g.1 AT4G31340_circ_g.2 AT4G31340_circ_g.3 AT4G31340_circ_g.4 AT4G31340_circ_g.5 AT4G31340_circ_g.6 AT4G31340_circ_g.7 AT4G31340_circ_g.8 AT4G31340_circ_g.9 AT4G31340_circ_g.10 AT4G31340_circ_g.12 AT4G31340_circ_g.13 AT4G31340_circ_g.14 AT4G31340_circ_g.15 AT4G31340_circ_g.16
Support reads	1/1
Tissues	seedling;flower
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	AT4G31340.2:6 AT4G31340.1:6

			
						 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  
						
							ACATGTTGATAAAATGAAGGTTGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATACA
GAGTTCCTTGAATCCGCCACAACTTATCACAATCAGgaagaaatgttgaggacaaagctcgaag
caaccacaaaggcgaaggaactgctagaggtattagtttgacacagttttacatttggctttct
ctgatgct

									
								

					

						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: 549
Transcript exons: 15207332-15207388,15207526-15207579,15207665-15207727,15
207824-15207886,15208021-15208176,15208279-15208434
GAAGAAATGTTGAGGACAAAGCTCGAAGCAACCACAAAGGCGAAGGAACTGCTAGAGGCTCATG
GTTCGTGGCTTCCCCCTTGGCTTGCTGTTCACTGGTTTAAATTTCAGACTTATACCGAGACACA
TTGGGAGGCCCATGGGAAACCTGCTGTGGAGACAGTAATTCTAAAGGTGACGGAAGCAAAAGCT
CAAGCTGAAAAGTGGGCTGAACCACATGTCGAAAACGTTAAAACTAAATATATTCCAGCCATCA
AGGAAACCGTTACTATACATGTTGAGCCACACTTCCGAACACTATCCATCAAAGCTAAAGAGGC
TTACCATTCATCAAAGAGTGCTGTTTCCCCTCACATTGTCACGGTTCAAGAATTTGTAGACCCC
TATTATCAGGAGGCCAAAAAGTTCAGCAAGCCATATGTCGACCAAGTGGCCACGACCACGAAAC
CACATGTTGATAAAATGAAGGTTGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATAC
AGAGTTCCTTGAATCCGCCACAACTTATCACAATCAG
						
					

						Genomic sequence
						
							GAAGAAATGTTGAGGACAAAGCTCGAAGCAACCACAAAGGCGAAGGAACTGCTAGAGGTATTAG
TTTGACACAGTTTTACATTTGGCTTTCTCTGATGCTATTATAGCATTAGATTTTCATTGTGTGG
GAAATTAGCGGAGCCTGGAATCTGGAAGTCGGCAGAAAGCTAATGTCAATTGTTTTATTTACTC
AGGCTCATGGTTCGTGGCTTCCCCCTTGGCTTGCTGTTCACTGGTTTAAATTTCAGGTAAGGTT
TATGCTGGCCTTTTTACAGTTTTACAACATAGTAGTTATCCCCCCCAATTAACATAGGGAATTT
CATGTACCTATAGACTTATACCGAGACACATTGGGAGGCCCATGGGAAACCTGCTGTGGAGACA
GTAATTCTAAAGGTACTGTTTAACTTTTGTCCTATACTCCTATTGAGATTTATGCCTCTAAACA
GTATGAGAGCATCTGGCTAATGAAGTTTACTTATTATTGAGTAGGTGACGGAAGCAAAAGCTCA
AGCTGAAAAGTGGGCTGAACCACATGTCGAAAACGTTAAAACTGTAAGCATCTTATTGGCAATT
TTTTTTGTAGTAAATTTCTTTGACATTAATGGAATGCCTGCATTTTTGGTGAATCACAAATCTC
TAGAGTTATAATTGGCTCATATTACTATGTCTTATGACACTACTTGCAGAAATATATTCCAGCC
ATCAAGGAAACCGTTACTATACATGTTGAGCCACACTTCCGAACACTATCCATCAAAGCTAAAG
AGGCTTACCATTCATCAAAGAGTGCTGTTTCCCCTCACATTGTCACGGTTCAAGAATTTGTAGA
CCCCTATTATCAGGTATAGTGTCTTTTTCAGTTTATTTTTTCACTGATAGGTTTGGTACACAAT
TAATCAACTAGTATTTACGGATGTAAACTTTATGCCTGTTACAATTTCCAGGAGGCCAAAAAGT
TCAGCAAGCCATATGTCGACCAAGTGGCCACGACCACGAAACCACATGTTGATAAAATGAAGGT
TGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATACAGAGTTCCTTGAATCCGCCACA
ACTTATCACAATCAG
						
					

			
		

Sequences
Splice junction sequence	ACATGTTGATAAAATGAAGGTTGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATACA GAGTTCCTTGAATCCGCCACAACTTATCACAATCAGgaagaaatgttgaggacaaagctcgaag caaccacaaaggcgaaggaactgctagaggtattagtttgacacagttttacatttggctttct ctgatgct
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: 549 Transcript exons: 15207332-15207388,15207526-15207579,15207665-15207727,15 207824-15207886,15208021-15208176,15208279-15208434 GAAGAAATGTTGAGGACAAAGCTCGAAGCAACCACAAAGGCGAAGGAACTGCTAGAGGCTCATG GTTCGTGGCTTCCCCCTTGGCTTGCTGTTCACTGGTTTAAATTTCAGACTTATACCGAGACACA TTGGGAGGCCCATGGGAAACCTGCTGTGGAGACAGTAATTCTAAAGGTGACGGAAGCAAAAGCT CAAGCTGAAAAGTGGGCTGAACCACATGTCGAAAACGTTAAAACTAAATATATTCCAGCCATCA AGGAAACCGTTACTATACATGTTGAGCCACACTTCCGAACACTATCCATCAAAGCTAAAGAGGC TTACCATTCATCAAAGAGTGCTGTTTCCCCTCACATTGTCACGGTTCAAGAATTTGTAGACCCC TATTATCAGGAGGCCAAAAAGTTCAGCAAGCCATATGTCGACCAAGTGGCCACGACCACGAAAC CACATGTTGATAAAATGAAGGTTGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATAC AGAGTTCCTTGAATCCGCCACAACTTATCACAATCAG
Genomic sequence	GAAGAAATGTTGAGGACAAAGCTCGAAGCAACCACAAAGGCGAAGGAACTGCTAGAGGTATTAG TTTGACACAGTTTTACATTTGGCTTTCTCTGATGCTATTATAGCATTAGATTTTCATTGTGTGG GAAATTAGCGGAGCCTGGAATCTGGAAGTCGGCAGAAAGCTAATGTCAATTGTTTTATTTACTC AGGCTCATGGTTCGTGGCTTCCCCCTTGGCTTGCTGTTCACTGGTTTAAATTTCAGGTAAGGTT TATGCTGGCCTTTTTACAGTTTTACAACATAGTAGTTATCCCCCCCAATTAACATAGGGAATTT CATGTACCTATAGACTTATACCGAGACACATTGGGAGGCCCATGGGAAACCTGCTGTGGAGACA GTAATTCTAAAGGTACTGTTTAACTTTTGTCCTATACTCCTATTGAGATTTATGCCTCTAAACA GTATGAGAGCATCTGGCTAATGAAGTTTACTTATTATTGAGTAGGTGACGGAAGCAAAAGCTCA AGCTGAAAAGTGGGCTGAACCACATGTCGAAAACGTTAAAACTGTAAGCATCTTATTGGCAATT TTTTTTGTAGTAAATTTCTTTGACATTAATGGAATGCCTGCATTTTTGGTGAATCACAAATCTC TAGAGTTATAATTGGCTCATATTACTATGTCTTATGACACTACTTGCAGAAATATATTCCAGCC ATCAAGGAAACCGTTACTATACATGTTGAGCCACACTTCCGAACACTATCCATCAAAGCTAAAG AGGCTTACCATTCATCAAAGAGTGCTGTTTCCCCTCACATTGTCACGGTTCAAGAATTTGTAGA CCCCTATTATCAGGTATAGTGTCTTTTTCAGTTTATTTTTTCACTGATAGGTTTGGTACACAAT TAATCAACTAGTATTTACGGATGTAAACTTTATGCCTGTTACAATTTCCAGGAGGCCAAAAAGT TCAGCAAGCCATATGTCGACCAAGTGGCCACGACCACGAAACCACATGTTGATAAAATGAAGGT TGCCATGAAACCTTACACAACCAAGGTGATCATCGTCTATACAGAGTTCCTTGAATCCGCCACA ACTTATCACAATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.26989328

Conservation Information
Conserved circRNAs	NA
PMCS	0.26989328

			
						 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 AT4G31340_circ_g.11

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