Plant Circular RNA Database

Detail information of AT4G03200_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT4G03200_circ_g.4
					
						ID in PlantcircBase
						ath_circ_029537
					
						Alias
						At_ciR2371
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 1408786-1409967  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT4G03200						
					
						Parent gene annotation
						
							catalytics
							
						Parent gene strand
						+
					
						Alternative splicing
						
							4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 ENSRNA049493837_circ_g.1 AT4G02980_circ_g.1 AT4G02980_circ_g.2 AT4G02980_circ_g.3 AT4G02990_circ_g.1 AT4G03000_circ_g.1 AT4G03020_circ_g.1 AT4G03020_circ_g.2 AT4G03020_circ_g.3 AT4G03020_circ_g.4 AT4G03050_circ_g.1 AT4G03080_circ_g.1 AT4G03080_circ_g.2 AT4G03080_circ_g.3 AT4G03080_circ_g.4 AT4G03080_circ_g.5 AT4G03080_circ_g.6 AT4G03080_circ_g.7 AT4G03080_circ_g.8 AT4G03080_circ_g.9 AT4G03080_circ_g.10 AT4G03080_circ_g.11 AT4G03080_circ_g.12 AT4G03090_circ_g.1 AT4G03090_circ_g.2 AT4G03110_circ_g.1 AT4G03110_circ_g.2 AT4G03115_circ_g.1 AT4G03120_circ_g.1 AT4G03180_circ_g.1 AT4G03190_circ_g.1 AT4G03200_circ_g.1 AT4G03200_circ_g.2 AT4G03200_circ_g.3 AT4G03200_circ_g.5 AT4G03200_circ_g.6 AT4G03200_circ_g.7 AT4G03200_circ_g.8 AT4G03200_circ_g.9 AT4G03200_circ_g.10 AT4G03210_circ_g.1 AT4G03210_circ_g.2 AT4G03210_circ_g.3 AT4G03230_circ_g.1 AT4G03240_circ_g.1 AT4G03250_circ_g.1 AT4G03250_circ_g.2 AT4G03250_circ_g.3 AT4G03260_circ_g.1 AT4G03270_circ_g.1 AT4G03280_circ_g.1 AT4G03280_circ_g.2 AT4G03280_circ_g.3 AT4G03280_circ_g.4 AT4G03280_circ_g.5 AT4G03290_circ_g.1 4_circ_igg.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 ENSRNA049493832_circ_g.1 4_circ_ag.2 ENSRNA049493835_circ_g.1 ENSRNA049493835_circ_g.2 ENSRNA049493835_circ_g.3 ENSRNA049493835_circ_g.4 ENSRNA049493835_circ_g.5 ENSRNA049493835_circ_g.6 ENSRNA049493835_circ_g.7 ENSRNA049493835_circ_g.8 AT4G03390_circ_g.1 AT4G03390_circ_g.2 AT4G03390_circ_g.3 AT4G03390_circ_g.4 AT4G03400_circ_g.1 AT4G03400_circ_g.2 AT4G03400_circ_g.3 AT4G03400_circ_g.4 AT4G03410_circ_g.1 AT4G03410_circ_g.2 AT4G03410_circ_g.3 AT4G03410_circ_g.4 AT4G03420_circ_g.1 AT4G03420_circ_g.2 AT4G03420_circ_g.3 						
					
						Support reads
						3
					
						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  
						
							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
						AT4G03200.2:4
AT4G03200.1:5

General Information
CircRNA Name	AT4G03200_circ_g.4
ID in PlantcircBase	ath_circ_029537
Alias	At_ciR2371
Organism	Arabidpsis thaliana
Position	chr4: 1408786-1409967 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	AT4G03200
Parent gene annotation	catalytics
Parent gene strand	+
Alternative splicing	4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 ENSRNA049493837_circ_g.1 AT4G02980_circ_g.1 AT4G02980_circ_g.2 AT4G02980_circ_g.3 AT4G02990_circ_g.1 AT4G03000_circ_g.1 AT4G03020_circ_g.1 AT4G03020_circ_g.2 AT4G03020_circ_g.3 AT4G03020_circ_g.4 AT4G03050_circ_g.1 AT4G03080_circ_g.1 AT4G03080_circ_g.2 AT4G03080_circ_g.3 AT4G03080_circ_g.4 AT4G03080_circ_g.5 AT4G03080_circ_g.6 AT4G03080_circ_g.7 AT4G03080_circ_g.8 AT4G03080_circ_g.9 AT4G03080_circ_g.10 AT4G03080_circ_g.11 AT4G03080_circ_g.12 AT4G03090_circ_g.1 AT4G03090_circ_g.2 AT4G03110_circ_g.1 AT4G03110_circ_g.2 AT4G03115_circ_g.1 AT4G03120_circ_g.1 AT4G03180_circ_g.1 AT4G03190_circ_g.1 AT4G03200_circ_g.1 AT4G03200_circ_g.2 AT4G03200_circ_g.3 AT4G03200_circ_g.5 AT4G03200_circ_g.6 AT4G03200_circ_g.7 AT4G03200_circ_g.8 AT4G03200_circ_g.9 AT4G03200_circ_g.10 AT4G03210_circ_g.1 AT4G03210_circ_g.2 AT4G03210_circ_g.3 AT4G03230_circ_g.1 AT4G03240_circ_g.1 AT4G03250_circ_g.1 AT4G03250_circ_g.2 AT4G03250_circ_g.3 AT4G03260_circ_g.1 AT4G03270_circ_g.1 AT4G03280_circ_g.1 AT4G03280_circ_g.2 AT4G03280_circ_g.3 AT4G03280_circ_g.4 AT4G03280_circ_g.5 AT4G03290_circ_g.1 4_circ_igg.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 ENSRNA049493832_circ_g.1 4_circ_ag.2 ENSRNA049493835_circ_g.1 ENSRNA049493835_circ_g.2 ENSRNA049493835_circ_g.3 ENSRNA049493835_circ_g.4 ENSRNA049493835_circ_g.5 ENSRNA049493835_circ_g.6 ENSRNA049493835_circ_g.7 ENSRNA049493835_circ_g.8 AT4G03390_circ_g.1 AT4G03390_circ_g.2 AT4G03390_circ_g.3 AT4G03390_circ_g.4 AT4G03400_circ_g.1 AT4G03400_circ_g.2 AT4G03400_circ_g.3 AT4G03400_circ_g.4 AT4G03410_circ_g.1 AT4G03410_circ_g.2 AT4G03410_circ_g.3 AT4G03410_circ_g.4 AT4G03420_circ_g.1 AT4G03420_circ_g.2 AT4G03420_circ_g.3
Support reads	3
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	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	AT4G03200.2:4 AT4G03200.1:5

			
						 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  
						
							TGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGA
CAATTATGGACGACCAGGATTCAAAACTCTCCTTAAgttgattggtacccatggggagaagaag
cttttgaagaagcaaggaagagagacgtgcccatcttcttatcaagttgtttactttatcctct
tttgatcg

									
								

					

						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: 356
Transcript exons: 1408786-1408858,1408987-1409008,1409308-1409386,1409475-
1409507,1409819-1409967
GTTGATTGGTACCCATGGGGAGAAGAAGCTTTTGAAGAAGCAAGGAAGAGAGACGTGCCCATCT
TCTTATCAATTGGATACAGTACCTGTCACTGGTGCCATGTCATGGAAGTTGAGTCATTTGAAGA
TGAAGAAGTGGCAAAACTCTTGAACAATTCATTCGTTAGTATCAAGGTTGATCGAGAAGAGCGG
CCTGATGTCGACAAGGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCAC
TGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGA
CAATTATGGACGACCAGGATTCAAAACTCTCCTTAA
						
					

						Genomic sequence
						
							GTTGATTGGTACCCATGGGGAGAAGAAGCTTTTGAAGAAGCAAGGAAGAGAGACGTGCCCATCT
TCTTATCAAGTTGTTTACTTTATCCTCTTTTGATCGTTTTAATTACTGCTTGATTAGATTCCAT
TAATGACTTTTAGTTTGTGAAACTAATTTGGTTCCTTTTGTTTTCAAAATCTCTTTTATATGGA
ATCTTGAAGTTGGATACAGTACCTGTCACTGGTGAGACTTTCAATTGTTTTCTTGGATTTGAGT
TTGACTTCTTCTTTTTACTGAATTGGAGGATTAAGAGAATGAATGACAGATTCAAAGACTCTGG
ATCTGTTAGTATCATTACTCTTCTCTCCTCATAGGTGTAACTCTAATGAAGGATTTAAGGATTT
TATAAATTGAAAGTGGAAAGAAGTCTTATAGCCTAAGAACTAAGTGTTATTGTTTGAAATGTTA
GGAGTAGAGAAGCAGATAATCTTATATTCCTATTTTGAAATGTATGTTTAAGTAACAGTTAACT
CTTTTGTCAGGTGCCATGTCATGGAAGTTGAGTCATTTGAAGATGAAGAAGTGGCAAAACTCTT
GAACAATTCATTCGTTAGTATCAAGGTTAGCGTTTAACACGGAAAAACATTTTAAAGCACTGTC
TTTGAACTGGTTACTGTTGAAACATGTTAGTAACATGTCTATGCAACAGGTTGATCGAGAAGAG
CGGCCTGATGTCGACAAGGTAAACTACTTTCTGCACTCTTTGATGTCTTGAATAAATTGCTCAA
AACTCAAATTTTCATTTATTTCTCTGAATGCTTAGTTTCAGAAATATCTTTTCTTTTTGGCTCA
ATCATGTTGTGGGTCATATTAATAGCTTCTTTTACTTTGTTGGCGAATATTTGTGTCTTCGGTA
ACTCTAGTAAGAGATGCAAAACCTTAGAAACCATAGTAGACTTGTGTAGAATTTGTTCTAGCTG
GATCAGTGTCTACTAGAGAAAGTAGCCTTGACTATATTCATGGACTTACGATTCTTTTTACTGG
CACTTTTAGGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCACTGTCGG
TATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGACAATTA
TGGACGACCAGGATTCAAAACTCTCCTTAA
						
					

			
		

Sequences
Splice junction sequence	TGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGA CAATTATGGACGACCAGGATTCAAAACTCTCCTTAAgttgattggtacccatggggagaagaag cttttgaagaagcaaggaagagagacgtgcccatcttcttatcaagttgtttactttatcctct tttgatcg
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: 356 Transcript exons: 1408786-1408858,1408987-1409008,1409308-1409386,1409475- 1409507,1409819-1409967 GTTGATTGGTACCCATGGGGAGAAGAAGCTTTTGAAGAAGCAAGGAAGAGAGACGTGCCCATCT TCTTATCAATTGGATACAGTACCTGTCACTGGTGCCATGTCATGGAAGTTGAGTCATTTGAAGA TGAAGAAGTGGCAAAACTCTTGAACAATTCATTCGTTAGTATCAAGGTTGATCGAGAAGAGCGG CCTGATGTCGACAAGGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCAC TGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGA CAATTATGGACGACCAGGATTCAAAACTCTCCTTAA
Genomic sequence	GTTGATTGGTACCCATGGGGAGAAGAAGCTTTTGAAGAAGCAAGGAAGAGAGACGTGCCCATCT TCTTATCAAGTTGTTTACTTTATCCTCTTTTGATCGTTTTAATTACTGCTTGATTAGATTCCAT TAATGACTTTTAGTTTGTGAAACTAATTTGGTTCCTTTTGTTTTCAAAATCTCTTTTATATGGA ATCTTGAAGTTGGATACAGTACCTGTCACTGGTGAGACTTTCAATTGTTTTCTTGGATTTGAGT TTGACTTCTTCTTTTTACTGAATTGGAGGATTAAGAGAATGAATGACAGATTCAAAGACTCTGG ATCTGTTAGTATCATTACTCTTCTCTCCTCATAGGTGTAACTCTAATGAAGGATTTAAGGATTT TATAAATTGAAAGTGGAAAGAAGTCTTATAGCCTAAGAACTAAGTGTTATTGTTTGAAATGTTA GGAGTAGAGAAGCAGATAATCTTATATTCCTATTTTGAAATGTATGTTTAAGTAACAGTTAACT CTTTTGTCAGGTGCCATGTCATGGAAGTTGAGTCATTTGAAGATGAAGAAGTGGCAAAACTCTT GAACAATTCATTCGTTAGTATCAAGGTTAGCGTTTAACACGGAAAAACATTTTAAAGCACTGTC TTTGAACTGGTTACTGTTGAAACATGTTAGTAACATGTCTATGCAACAGGTTGATCGAGAAGAG CGGCCTGATGTCGACAAGGTAAACTACTTTCTGCACTCTTTGATGTCTTGAATAAATTGCTCAA AACTCAAATTTTCATTTATTTCTCTGAATGCTTAGTTTCAGAAATATCTTTTCTTTTTGGCTCA ATCATGTTGTGGGTCATATTAATAGCTTCTTTTACTTTGTTGGCGAATATTTGTGTCTTCGGTA ACTCTAGTAAGAGATGCAAAACCTTAGAAACCATAGTAGACTTGTGTAGAATTTGTTCTAGCTG GATCAGTGTCTACTAGAGAAAGTAGCCTTGACTATATTCATGGACTTACGATTCTTTTTACTGG CACTTTTAGGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCACTGTCGG TATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACTTTCCTCCAAATGACAATTA TGGACGACCAGGATTCAAAACTCTCCTTAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239977156

Conservation Information
Conserved circRNAs	NA
PMCS	0.239977156

			
						 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
						Ye et al., 2015

circRNA

Detail information of AT4G03200_circ_g.4

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