Plant Circular RNA Database

Detail information of AT3G17440_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G17440_circ_g.1
					
						ID in PlantcircBase
						ath_circ_022402
					
						Alias
						3:5969851-5972379
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 5969851-5972379  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G17440						
					
						Parent gene annotation
						
							Novel plant SNARE 13
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G17440_circ_g.2 AT3G17440_circ_g.3 AT3G17440_circ_g.4 AT3G17440_circ_g.5 AT3G17440_circ_g.6 AT3G17440_circ_g.7 AT3G17440_circ_g.8 AT3G17440_circ_g.9 AT3G17440_circ_g.10 AT3G17440_circ_g.11 						
					
						Support reads
						2/1/1/1
					
						Tissues
						seedling;root;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  
						
							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
						AT3G17440.2:10
AT3G17440.1:10

General Information
CircRNA Name	AT3G17440_circ_g.1
ID in PlantcircBase	ath_circ_022402
Alias	3:5969851-5972379
Organism	Arabidpsis thaliana
Position	chr3: 5969851-5972379 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G17440
Parent gene annotation	Novel plant SNARE 13
Parent gene strand	-
Alternative splicing	AT3G17440_circ_g.2 AT3G17440_circ_g.3 AT3G17440_circ_g.4 AT3G17440_circ_g.5 AT3G17440_circ_g.6 AT3G17440_circ_g.7 AT3G17440_circ_g.8 AT3G17440_circ_g.9 AT3G17440_circ_g.10 AT3G17440_circ_g.11
Support reads	2/1/1/1
Tissues	seedling;root;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	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	AT3G17440.2:10 AT3G17440.1:10

			
						 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  
						
							TTAGAAGCCATGTCGCCGGAGACAATTCAGAATCCGACGAAAATTTACCCAAAAACTACGTCAC
TGCATCTAAAATTTCCCTCCAATTTAAATTAAAACCctcaagatgcaatttcctcattcctcgt
gaataaatatacaaatagagatttatattctcacatgtagtcttgattcctcaagtacaatagc
ttcctcga

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTCAAGATGCAATTTCCTCATTCCTCGTGAATAAATATACAAATAGAGATTTATATTCTCACAT
GTAGTCTTGATTCCTCAAGTACAATAGCTTCCTCGATTGCGCTGGAGGAGCTAATCCTGGGATG
TCCCTAATGTCTTTGTTATTCGGATTCACGATCTGAAGAATTAATACAAAAACCAGAGTTACAA
CTTGCTAATGAGCAATCACAACTTTCAACAGAGAGAGAAAAGACAGTACCTTCACTATGATTAT
GGCTACTACACCGCATACAATGAGAAACAGGAACCCCATTATGCATTTATCGGTAGCCACCTGA
AATAAGTAGACATAAGCATTCAGGTTTTGAGGTCAAGCCAAAAAGGATAAATCTACATATGTCC
ATATGAGGTTACACACCTGTCTCCCTATCTCTTTCACCAGCTGGGAGGCCTTCTTGATTGAGAA
TTGAATAGTGTCCAAGTGGTTAACTACGCGTCCCATTTGATCCGTCTGCAAAATTTTCAGGTTG
TTTAAGACTCTACTCATAAGATTAATATGGAAGTAAAGGAGAATAATTTGCATTACCTGTCCCT
TTAAATTAGCTGCAGTTTGAGTTCCAACTTCGAGTGTTTGTTCTACAACCTGAAAGGAACAAGA
ATGTTACCATAGATATATTCATATAGTAACAAAGGCTAAGGGGAACATAATTCCTTCTGTAACT
TACCTGTTTTGAGCGCTCAATGGCCTGATCAGTCTCATCCATTCTTTTCATTCCAGCATCAACA
AGCTCCTGGTTTGACATAGCTATACATAATAAAATGACAAAAGCCTTCATCAGTTTTTACATTC
CCAATATAATATACTTCGCGCCTAATCAAATTATCAGAATCATTCATTTCTATTATCTAGGCCA
CCGATAACATTTCTAGTGCCATATTACCATCTGCCAGAAATTTACTGACAGACATCACAAATTA
TGCCAGACGAATAACCAGAGAGCATTAGTTACCAATCCAACATATTCAAGTACATATAGCATTA
AAAAGTCTAAACTTCAAGCATGTCAATCTCTAATTGTTCTAAGCAAACTCATATTTTGGTGGCA
ACTGAAGACAAGAATGCATAAGGACTCACATGAAGCCACTTGAACATTTTCCTCAGCTGTAGGT
TCGCCACTAACTCCAGCTCCCATATCAAAAAGCTCAACTTTCTTGTTGCCAAGGGTACTCATAT
ACCTGAGATTCAAGACCAATTTCACATGTATGAACACATAAAAGTCAAATGAAATCCTATATAG
ATATTCTGAACGGATCGATATGAAATCAAAACCCTAAAAGAACAGGTTGAGATTCAAATAATCA
GCTTTCTTAAAGAGGAATGATAGAAATACTAACGTTTTTCTTAGAGCAACGTAAGAATTGAGCT
CCTTGATCTGTAACATTATACAAAAGAAAAAGTTAAACACAGATGTTAAAAAGTTCATACAAAC
AAAATGTTAGCAGATACAAAGTACAGAGGGGAGTGATAGATACACAATGACACTCAATATCCAC
CTTAATATATCCATTCGGTTATAAACACACCTAAAGATTGACCAAACTGAATACGACTGATGCT
GTATAATGGAACTTTACGAAGGTGCCAAGTAAGAGTTAATATTCACATATTTACTTCAGATACA
TATGACATTGTAGTATAATCAAAGAAAGGCCTCAATGAATTTAATAAACAAAGGATAAAAACTC
ACCATAGATTGTTTCTCATCGTTCAATTGCTTATTTACTTCAGGAGAATTTCTAGCTTCCTCAT
CCTTGAGTTCACGGTCGAACTCTTTGACCAATCTGACATGAAGTACACATTAGACAAGCAAATA
CAGATTATTGAATCATGGATTTGTCACATCAATACTCTTTCCTTCTCAATTCTCATTATACGGC
ATCGTATCCAGCTCAAAGAAAAAGAAGTACGCATAACAGTGATCAAAGAGCACATTCTACTAAA
GGCAATTAGCAAACAATGTTGTAACGCCGAGAACATAATGGTAAAGCATAGCAATTATGAAATA
AGTATACCTTTTACACTCTCTCATCTTGTCAGTAAGTTCTTCAAGTTGTTTGCTTTGTCTAGTT
GAATCCTTAATCTTATCCAACCTCTGGAAACCATTCCTGCAAAACAGATAATGGTGAATCATTA
AAAGAACAATCTTTTGAGTGATGACTAAATCTAATTCTTATCATCAGCATTAAGCAAAACACGC
ATAAATCCTATTGAGCACACATAATCAAAAAATTCCAAAACCCTAAAATATATATCACAGTGTT
TCGTAACCACGACAGAGATAGTTAGAAAATTGAACAAGAGGATAACATGTAAAACATACGCGAG
GGCTCGGAAATGGTCACGGATTTCGCCATGGATCTGCTCCAATTGAGGGCTCATGGGGAGATTA
GAAGCCATGTCGCCGGAGACAATTCAGAATCCGACGAAAATTTACCCAAAAACTACGTCACTGC
ATCTAAAATTTCCCTCCAATTTAAATTAAAACC
						
					

			
		

Sequences
Splice junction sequence	TTAGAAGCCATGTCGCCGGAGACAATTCAGAATCCGACGAAAATTTACCCAAAAACTACGTCAC TGCATCTAAAATTTCCCTCCAATTTAAATTAAAACCctcaagatgcaatttcctcattcctcgt gaataaatatacaaatagagatttatattctcacatgtagtcttgattcctcaagtacaatagc ttcctcga
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTCAAGATGCAATTTCCTCATTCCTCGTGAATAAATATACAAATAGAGATTTATATTCTCACAT GTAGTCTTGATTCCTCAAGTACAATAGCTTCCTCGATTGCGCTGGAGGAGCTAATCCTGGGATG TCCCTAATGTCTTTGTTATTCGGATTCACGATCTGAAGAATTAATACAAAAACCAGAGTTACAA CTTGCTAATGAGCAATCACAACTTTCAACAGAGAGAGAAAAGACAGTACCTTCACTATGATTAT GGCTACTACACCGCATACAATGAGAAACAGGAACCCCATTATGCATTTATCGGTAGCCACCTGA AATAAGTAGACATAAGCATTCAGGTTTTGAGGTCAAGCCAAAAAGGATAAATCTACATATGTCC ATATGAGGTTACACACCTGTCTCCCTATCTCTTTCACCAGCTGGGAGGCCTTCTTGATTGAGAA TTGAATAGTGTCCAAGTGGTTAACTACGCGTCCCATTTGATCCGTCTGCAAAATTTTCAGGTTG TTTAAGACTCTACTCATAAGATTAATATGGAAGTAAAGGAGAATAATTTGCATTACCTGTCCCT TTAAATTAGCTGCAGTTTGAGTTCCAACTTCGAGTGTTTGTTCTACAACCTGAAAGGAACAAGA ATGTTACCATAGATATATTCATATAGTAACAAAGGCTAAGGGGAACATAATTCCTTCTGTAACT TACCTGTTTTGAGCGCTCAATGGCCTGATCAGTCTCATCCATTCTTTTCATTCCAGCATCAACA AGCTCCTGGTTTGACATAGCTATACATAATAAAATGACAAAAGCCTTCATCAGTTTTTACATTC CCAATATAATATACTTCGCGCCTAATCAAATTATCAGAATCATTCATTTCTATTATCTAGGCCA CCGATAACATTTCTAGTGCCATATTACCATCTGCCAGAAATTTACTGACAGACATCACAAATTA TGCCAGACGAATAACCAGAGAGCATTAGTTACCAATCCAACATATTCAAGTACATATAGCATTA AAAAGTCTAAACTTCAAGCATGTCAATCTCTAATTGTTCTAAGCAAACTCATATTTTGGTGGCA ACTGAAGACAAGAATGCATAAGGACTCACATGAAGCCACTTGAACATTTTCCTCAGCTGTAGGT TCGCCACTAACTCCAGCTCCCATATCAAAAAGCTCAACTTTCTTGTTGCCAAGGGTACTCATAT ACCTGAGATTCAAGACCAATTTCACATGTATGAACACATAAAAGTCAAATGAAATCCTATATAG ATATTCTGAACGGATCGATATGAAATCAAAACCCTAAAAGAACAGGTTGAGATTCAAATAATCA GCTTTCTTAAAGAGGAATGATAGAAATACTAACGTTTTTCTTAGAGCAACGTAAGAATTGAGCT CCTTGATCTGTAACATTATACAAAAGAAAAAGTTAAACACAGATGTTAAAAAGTTCATACAAAC AAAATGTTAGCAGATACAAAGTACAGAGGGGAGTGATAGATACACAATGACACTCAATATCCAC CTTAATATATCCATTCGGTTATAAACACACCTAAAGATTGACCAAACTGAATACGACTGATGCT GTATAATGGAACTTTACGAAGGTGCCAAGTAAGAGTTAATATTCACATATTTACTTCAGATACA TATGACATTGTAGTATAATCAAAGAAAGGCCTCAATGAATTTAATAAACAAAGGATAAAAACTC ACCATAGATTGTTTCTCATCGTTCAATTGCTTATTTACTTCAGGAGAATTTCTAGCTTCCTCAT CCTTGAGTTCACGGTCGAACTCTTTGACCAATCTGACATGAAGTACACATTAGACAAGCAAATA CAGATTATTGAATCATGGATTTGTCACATCAATACTCTTTCCTTCTCAATTCTCATTATACGGC ATCGTATCCAGCTCAAAGAAAAAGAAGTACGCATAACAGTGATCAAAGAGCACATTCTACTAAA GGCAATTAGCAAACAATGTTGTAACGCCGAGAACATAATGGTAAAGCATAGCAATTATGAAATA AGTATACCTTTTACACTCTCTCATCTTGTCAGTAAGTTCTTCAAGTTGTTTGCTTTGTCTAGTT GAATCCTTAATCTTATCCAACCTCTGGAAACCATTCCTGCAAAACAGATAATGGTGAATCATTA AAAGAACAATCTTTTGAGTGATGACTAAATCTAATTCTTATCATCAGCATTAAGCAAAACACGC ATAAATCCTATTGAGCACACATAATCAAAAAATTCCAAAACCCTAAAATATATATCACAGTGTT TCGTAACCACGACAGAGATAGTTAGAAAATTGAACAAGAGGATAACATGTAAAACATACGCGAG GGCTCGGAAATGGTCACGGATTTCGCCATGGATCTGCTCCAATTGAGGGCTCATGGGGAGATTA GAAGCCATGTCGCCGGAGACAATTCAGAATCCGACGAAAATTTACCCAAAAACTACGTCACTGC ATCTAAAATTTCCCTCCAATTTAAATTAAAACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.288392597

Conservation Information
Conserved circRNAs	NA
PMCS	0.288392597

			
						 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 AT3G17440_circ_g.1

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