Plant Circular RNA Database

Detail information of AT4G03200_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT4G03200_circ_g.6
					
						ID in PlantcircBase
						ath_circ_029539
					
						Alias
						4:1411374-1412310
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 1411374-1412310  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						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.4 AT4G03200_circ_g.5 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
						1/2
					
						Tissues
						leaf;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
						AT4G03200.1:4
AT4G03200.2:4

General Information
CircRNA Name	AT4G03200_circ_g.6
ID in PlantcircBase	ath_circ_029539
Alias	4:1411374-1412310
Organism	Arabidpsis thaliana
Position	chr4: 1411374-1412310 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
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.4 AT4G03200_circ_g.5 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	1/2
Tissues	leaf;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	AT4G03200.1:4 AT4G03200.2:4

			
						 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  
						
							TCCGTCGAGGAAACAAGTTGTATTGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACATGCTT
TCTGCAGCACATTCAGTCTATGATCCTAATAAAACGataatcgtgtcttggaacggtcttgtta
tctcgtctttcgcaagagcttccaagattcttaaggctgagcctgaaagcaccaaatattattt
ccctgtgg

									
								

					

						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: 717
Transcript exons: 1411374-1411484,1411556-1411780,1411853-1412056,1412134-
1412310
ATAATCGTGTCTTGGAACGGTCTTGTTATCTCGTCTTTCGCAAGAGCTTCCAAGATTCTTAAGG
CTGAGCCTGAAAGCACCAAATATTATTTCCCTGTGGTGAATAGTCAGCCAGAGGATTACATAGA
GGTTGCAGAGAAAGCAGCTTTGTTTATCAGAGGAAATCTCTATGATGAGCAGTCTCGCAGATTA
CAACACAGTTACAGACAGGGGCCATCCAAAGCTCCTGCCTTCTTAGACGATTATGCTTTCTTGA
TCTCTGGTTTACTCGATCTTTACGAGAATGGAGGTGGGATCGAATGGCTTAAGTGGGCGATTAA
ACTTCAAGAAACACAGGATGAGTTATATCTGGACCGAGAAGGAGGAGCATACTTCAATACTGAA
GGACAAGACCCATCGGTTCTTCTTCGTGTAAAAGAAGATCATGATGGTGCAGAACCTTCAGGGA
ACTCTGTTTCTGCTATCAATCTTGTGAGGTTAGCTTCCATAGTCGCCGGAGAAAAAGCTGAATC
CTACCTCAACACGGCACATCGTCTCCTGGCAGTCTTTGAGTTGAGGTTAAGAGAACTGGCGGTG
GCTGTGCCATTAATGTGCTGCTCCGCAGATATGATCTCTGTTCCGTCGAGGAAACAAGTTGTAT
TGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACATGCTTTCTGCAGCACATTCAGTCTATGA
TCCTAATAAAACG
						
					

						Genomic sequence
						
							ATAATCGTGTCTTGGAACGGTCTTGTTATCTCGTCTTTCGCAAGAGCTTCCAAGATTCTTAAGG
CTGAGCCTGAAAGCACCAAATATTATTTCCCTGTGGTGAATAGTCAGGTAATGAATGCTACACC
CTTTCCTTTAATTTCTTCTTTGACCGTTTTGTAATTAGAAGACTCATTTTTCAGCCAGAGGATT
ACATAGAGGTTGCAGAGAAAGCAGCTTTGTTTATCAGAGGAAATCTCTATGATGAGCAGTCTCG
CAGATTACAACACAGTTACAGACAGGGGCCATCCAAAGCTCCTGCCTTCTTAGACGATTATGCT
TTCTTGATCTCTGGTTTACTCGATCTTTACGAGAATGGAGGTGGGATCGAATGGCTTAAGTGGG
CGATTAAACTTCAAGAAACACAGGCAAGTGAGATCTTTACTAGCTCGATTTGTTAAAGTTCTTG
ATTTTGGCTAAAAAAGTTAAAAACATTTTAGGATGAGTTATATCTGGACCGAGAAGGAGGAGCA
TACTTCAATACTGAAGGACAAGACCCATCGGTTCTTCTTCGTGTAAAAGAAGATCATGATGGTG
CAGAACCTTCAGGGAACTCTGTTTCTGCTATCAATCTTGTGAGGTTAGCTTCCATAGTCGCCGG
AGAAAAAGCTGAATCCTACCTCAACACGGCACATCGTCTCCTGGTAAACAAACAAACAACTAAT
CCCATTTGCTATTCATAGAAAGAGATTATTGAGTCTCTTTGTTGTTGTTTTTGCAGGCAGTCTT
TGAGTTGAGGTTAAGAGAACTGGCGGTGGCTGTGCCATTAATGTGCTGCTCCGCAGATATGATC
TCTGTTCCGTCGAGGAAACAAGTTGTATTGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACA
TGCTTTCTGCAGCACATTCAGTCTATGATCCTAATAAAACG
						
					

			
		

Sequences
Splice junction sequence	TCCGTCGAGGAAACAAGTTGTATTGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACATGCTT TCTGCAGCACATTCAGTCTATGATCCTAATAAAACGataatcgtgtcttggaacggtcttgtta tctcgtctttcgcaagagcttccaagattcttaaggctgagcctgaaagcaccaaatattattt ccctgtgg
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: 717 Transcript exons: 1411374-1411484,1411556-1411780,1411853-1412056,1412134- 1412310 ATAATCGTGTCTTGGAACGGTCTTGTTATCTCGTCTTTCGCAAGAGCTTCCAAGATTCTTAAGG CTGAGCCTGAAAGCACCAAATATTATTTCCCTGTGGTGAATAGTCAGCCAGAGGATTACATAGA GGTTGCAGAGAAAGCAGCTTTGTTTATCAGAGGAAATCTCTATGATGAGCAGTCTCGCAGATTA CAACACAGTTACAGACAGGGGCCATCCAAAGCTCCTGCCTTCTTAGACGATTATGCTTTCTTGA TCTCTGGTTTACTCGATCTTTACGAGAATGGAGGTGGGATCGAATGGCTTAAGTGGGCGATTAA ACTTCAAGAAACACAGGATGAGTTATATCTGGACCGAGAAGGAGGAGCATACTTCAATACTGAA GGACAAGACCCATCGGTTCTTCTTCGTGTAAAAGAAGATCATGATGGTGCAGAACCTTCAGGGA ACTCTGTTTCTGCTATCAATCTTGTGAGGTTAGCTTCCATAGTCGCCGGAGAAAAAGCTGAATC CTACCTCAACACGGCACATCGTCTCCTGGCAGTCTTTGAGTTGAGGTTAAGAGAACTGGCGGTG GCTGTGCCATTAATGTGCTGCTCCGCAGATATGATCTCTGTTCCGTCGAGGAAACAAGTTGTAT TGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACATGCTTTCTGCAGCACATTCAGTCTATGA TCCTAATAAAACG
Genomic sequence	ATAATCGTGTCTTGGAACGGTCTTGTTATCTCGTCTTTCGCAAGAGCTTCCAAGATTCTTAAGG CTGAGCCTGAAAGCACCAAATATTATTTCCCTGTGGTGAATAGTCAGGTAATGAATGCTACACC CTTTCCTTTAATTTCTTCTTTGACCGTTTTGTAATTAGAAGACTCATTTTTCAGCCAGAGGATT ACATAGAGGTTGCAGAGAAAGCAGCTTTGTTTATCAGAGGAAATCTCTATGATGAGCAGTCTCG CAGATTACAACACAGTTACAGACAGGGGCCATCCAAAGCTCCTGCCTTCTTAGACGATTATGCT TTCTTGATCTCTGGTTTACTCGATCTTTACGAGAATGGAGGTGGGATCGAATGGCTTAAGTGGG CGATTAAACTTCAAGAAACACAGGCAAGTGAGATCTTTACTAGCTCGATTTGTTAAAGTTCTTG ATTTTGGCTAAAAAAGTTAAAAACATTTTAGGATGAGTTATATCTGGACCGAGAAGGAGGAGCA TACTTCAATACTGAAGGACAAGACCCATCGGTTCTTCTTCGTGTAAAAGAAGATCATGATGGTG CAGAACCTTCAGGGAACTCTGTTTCTGCTATCAATCTTGTGAGGTTAGCTTCCATAGTCGCCGG AGAAAAAGCTGAATCCTACCTCAACACGGCACATCGTCTCCTGGTAAACAAACAAACAACTAAT CCCATTTGCTATTCATAGAAAGAGATTATTGAGTCTCTTTGTTGTTGTTTTTGCAGGCAGTCTT TGAGTTGAGGTTAAGAGAACTGGCGGTGGCTGTGCCATTAATGTGCTGCTCCGCAGATATGATC TCTGTTCCGTCGAGGAAACAAGTTGTATTGGTTGGTTCTAAGTCTTCCCCAGAGCTTACCAACA TGCTTTCTGCAGCACATTCAGTCTATGATCCTAATAAAACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.233180663

Conservation Information
Conserved circRNAs	NA
PMCS	0.233180663

			
						 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 AT4G03200_circ_g.6

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