Plant Circular RNA Database

Detail information of AT1G03780_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT1G03780_circ_g.8
					
						ID in PlantcircBase
						ath_circ_000463
					
						Alias
						1:948429-950500
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 948429-950500  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G03780						
					
						Parent gene annotation
						
							Protein TPX2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G03780_circ_g.1 AT1G03780_circ_g.2 AT1G03780_circ_g.3 AT1G03780_circ_g.4 AT1G03780_circ_g.5 AT1G03780_circ_g.6 AT1G03780_circ_g.7 AT1G03780_circ_g.9 AT1G03780_circ_g.10 AT1G03780_circ_g.11 AT1G03780_circ_g.12 AT1G03780_circ_g.13 AT1G03780_circ_g.14 AT1G03780_circ_g.15 AT1G03780_circ_g.16 AT1G03780_circ_g.17 AT1G03780_circ_g.18 AT1G03780_circ_g.19 AT1G03780_circ_g.20 AT1G03780_circ_g.21 AT1G03780_circ_g.22 AT1G03780_circ_g.23 AT1G03780_circ_g.24 AT1G03780_circ_g.25 AT1G03780_circ_g.26 AT1G03780_circ_g.27 AT1G03780_circ_g.28 AT1G03780_circ_g.29 AT1G03780_circ_g.30 AT1G03780_circ_g.31 AT1G03780_circ_g.32 AT1G03780_circ_g.33 AT1G03780_circ_g.34 						
					
						Support reads
						1/1
					
						Tissues
						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  
						
							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
						AT1G03780.1:8
AT1G03780.3:10
AT1G03780.2:10

General Information
CircRNA Name	AT1G03780_circ_g.8
ID in PlantcircBase	ath_circ_000463
Alias	1:948429-950500
Organism	Arabidpsis thaliana
Position	chr1: 948429-950500 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G03780
Parent gene annotation	Protein TPX2
Parent gene strand	-
Alternative splicing	AT1G03780_circ_g.1 AT1G03780_circ_g.2 AT1G03780_circ_g.3 AT1G03780_circ_g.4 AT1G03780_circ_g.5 AT1G03780_circ_g.6 AT1G03780_circ_g.7 AT1G03780_circ_g.9 AT1G03780_circ_g.10 AT1G03780_circ_g.11 AT1G03780_circ_g.12 AT1G03780_circ_g.13 AT1G03780_circ_g.14 AT1G03780_circ_g.15 AT1G03780_circ_g.16 AT1G03780_circ_g.17 AT1G03780_circ_g.18 AT1G03780_circ_g.19 AT1G03780_circ_g.20 AT1G03780_circ_g.21 AT1G03780_circ_g.22 AT1G03780_circ_g.23 AT1G03780_circ_g.24 AT1G03780_circ_g.25 AT1G03780_circ_g.26 AT1G03780_circ_g.27 AT1G03780_circ_g.28 AT1G03780_circ_g.29 AT1G03780_circ_g.30 AT1G03780_circ_g.31 AT1G03780_circ_g.32 AT1G03780_circ_g.33 AT1G03780_circ_g.34
Support reads	1/1
Tissues	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	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	AT1G03780.1:8 AT1G03780.3:10 AT1G03780.2:10

			
						 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  
						
							CACCTGTCTTGATTTTCCATCATCTAGCTTTTGCCTTTTGATGGCTTGATTTTCTTGAATCAGA
TTGGTAGTGCTAGCTATGTTGTTAAGATTCGTTTCCtcttttataactggttgtgctttgaaga
gcctcttctgggcttcttctgtctccattctcctcctctcttccctttctcttcgcatttcctc
ttcgtgcc

									
								

					

						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
						
							TCTTTTATAACTGGTTGTGCTTTGAAGAGCCTCTTCTGGGCTTCTTCTGTCTCCATTCTCCTCC
TCTCTTCCCTTTCTCTTCGCATTTCCTCTTCGTGCCTTACTAGACTCTCTAACTGGAACGGTTC
TGGTTGTGTGCATTGCTTAGGTTCTGGTTTTGGTGGTACCTGAGAGTTGGAACACGTAAGATTT
ATCAACACCATCTCTCTCTTCTGCAACACAAAAACAAAACCAAGGAAGGAAAATAAGAAGTTTA
GGATGTACATACCACTGGATAGTCCGTCGTGTAAGGATATGGATTTGCCTTTGGAACTCTTGCC
TTTACATCTCCTAATTTCTTATACATGAGTTCCATATAAAATTTCTTCTCTTTCTCAGCGCCTC
TTTCCTGGATTCCACAAAAAAGTAGTTTTCAAAGAACGGTCAGCAAAGATTGGTGGCAAGTCAT
TTGGACCTTAGAGAGGTTGTTCGTTGTACACATACTTCTGTCTTAAGATTGAAGGGGTTTGGAG
CAGTGTTCCTTGGTAGAGGTTTTTCATGGCAAGATTCGGAGTTCAGTGAGAGCTGAAAAGAAAA
ATTGTGTCAAAGACCGAGACATCCAGAGGAAAATACTAAAGAATACAGTGGTTCTGTTAATTGA
AGTATACCTTGTCGAATATATCTAAGACAGATTCTGGTCGTGATATCCTCTCATCTGTCGCAAA
GTGAAACTCTTGAGGTATCGTTATGTGCTTCTTGGTGTTGCAAAAGATACCCATTTCTCCTTTA
CTTTCAAATATCTGGGTGATTTGATGTGATTTCAAGTTAGATTAAGAGAGAGAAATGAAGTAAA
CAGTATTAAACTACACCAGTTCAGTAGTTGTAGTACCTTTTTGTTCAAAGGTTTTGCTTTGAAC
TTTGGTGCCTTCTCCAGTTCCTCTTGCTCAAGTTCTGCAGTAGTTTTTGCTATAGTAGGACGAG
CTCTTAGCATTGTTTGGAGCACAGGGCTCTTTGGTTCAGTAAGGTGATGCTTCTGATCATTATG
CTGCGTGGAAAACAGAGGAATATCAGATGGCATGAAATCAATTTATGTATACATACAACTTTTC
TGGGAGTGAAAAGAAGCTCCAGACCTGCTTAGACACTTCTGTTGAAGCTATTGAAGATGTCTCT
GCATGCTGGTTAGCCCTTGCCATTGTTTGAAGATGAAATTCCTGCGACAGTAAGAAATGAGATC
CTTGTAGAATAATAAAACAGTATCATTCAGCTATGAGTCAGTTCTAATGTGATGATACTCTCTG
ATGTGGGTGGGGAGAGGTTATTTACCTGAAATTCTGGCAGATGTGGTGTACTTCTTTGAGGTGC
AGGCAAAGCTGGAGCTGCCAAAATCTGCATCAAATAATATAATGCATTGGATTCTTTTAGTTTT
CTATTTCTGAAGTACAAATATACCTCGGTGAAACTAGATGGATTACCTTCTTGTTCACAGGTCG
AGCTTTAAACTTGGGAATCTTTGCCAACATCTCTTCCTCAAGTTCTGCACTGCTCTTAACTCTC
AAAGGACGAGCTCGTTGGGACGTCACAAATTCGGGTTCCTTTGGTCTTGTCAGTGTCAGCTTAG
GTCGATTCTGGACGAATAGGTCTCGCGTGCTTGTTTGGAACTTCTTCATCAATTCAGCAGTTGA
AACAAAAGGTGCAATTTGCTCACGAACATAAACCTGAAAAGTGAAAACAAGGTTTGAGAGGGTC
TGACAGAAAAAGTATACAAGCAACCATGAAGCACAACACACCTTTCTGTTTTCCTTCGGAGTGT
GCTTAGTGACTGAAGGGCATAAGTTGAAACCAGTGTTAACAAGACCATTTCTTGTCTTGTGGAG
CAGAGTTGCTGGTTTTGGATTGAGAATCTAGATAAATCAATGATAAGAAGGAAAAAGTTTCAGT
CATGCAGTGAGGTATGGAGTGAATGACATGCTGATTTTAAAACAATTTGGCTCACCTGTCTTGA
TTTTCCATCATCTAGCTTTTGCCTTTTGATGGCTTGATTTTCTTGAATCAGATTGGTAGTGCTA
GCTATGTTGTTAAGATTCGTTTCC
						
					

			
		

Sequences
Splice junction sequence	CACCTGTCTTGATTTTCCATCATCTAGCTTTTGCCTTTTGATGGCTTGATTTTCTTGAATCAGA TTGGTAGTGCTAGCTATGTTGTTAAGATTCGTTTCCtcttttataactggttgtgctttgaaga gcctcttctgggcttcttctgtctccattctcctcctctcttccctttctcttcgcatttcctc ttcgtgcc
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	TCTTTTATAACTGGTTGTGCTTTGAAGAGCCTCTTCTGGGCTTCTTCTGTCTCCATTCTCCTCC TCTCTTCCCTTTCTCTTCGCATTTCCTCTTCGTGCCTTACTAGACTCTCTAACTGGAACGGTTC TGGTTGTGTGCATTGCTTAGGTTCTGGTTTTGGTGGTACCTGAGAGTTGGAACACGTAAGATTT ATCAACACCATCTCTCTCTTCTGCAACACAAAAACAAAACCAAGGAAGGAAAATAAGAAGTTTA GGATGTACATACCACTGGATAGTCCGTCGTGTAAGGATATGGATTTGCCTTTGGAACTCTTGCC TTTACATCTCCTAATTTCTTATACATGAGTTCCATATAAAATTTCTTCTCTTTCTCAGCGCCTC TTTCCTGGATTCCACAAAAAAGTAGTTTTCAAAGAACGGTCAGCAAAGATTGGTGGCAAGTCAT TTGGACCTTAGAGAGGTTGTTCGTTGTACACATACTTCTGTCTTAAGATTGAAGGGGTTTGGAG CAGTGTTCCTTGGTAGAGGTTTTTCATGGCAAGATTCGGAGTTCAGTGAGAGCTGAAAAGAAAA ATTGTGTCAAAGACCGAGACATCCAGAGGAAAATACTAAAGAATACAGTGGTTCTGTTAATTGA AGTATACCTTGTCGAATATATCTAAGACAGATTCTGGTCGTGATATCCTCTCATCTGTCGCAAA GTGAAACTCTTGAGGTATCGTTATGTGCTTCTTGGTGTTGCAAAAGATACCCATTTCTCCTTTA CTTTCAAATATCTGGGTGATTTGATGTGATTTCAAGTTAGATTAAGAGAGAGAAATGAAGTAAA CAGTATTAAACTACACCAGTTCAGTAGTTGTAGTACCTTTTTGTTCAAAGGTTTTGCTTTGAAC TTTGGTGCCTTCTCCAGTTCCTCTTGCTCAAGTTCTGCAGTAGTTTTTGCTATAGTAGGACGAG CTCTTAGCATTGTTTGGAGCACAGGGCTCTTTGGTTCAGTAAGGTGATGCTTCTGATCATTATG CTGCGTGGAAAACAGAGGAATATCAGATGGCATGAAATCAATTTATGTATACATACAACTTTTC TGGGAGTGAAAAGAAGCTCCAGACCTGCTTAGACACTTCTGTTGAAGCTATTGAAGATGTCTCT GCATGCTGGTTAGCCCTTGCCATTGTTTGAAGATGAAATTCCTGCGACAGTAAGAAATGAGATC CTTGTAGAATAATAAAACAGTATCATTCAGCTATGAGTCAGTTCTAATGTGATGATACTCTCTG ATGTGGGTGGGGAGAGGTTATTTACCTGAAATTCTGGCAGATGTGGTGTACTTCTTTGAGGTGC AGGCAAAGCTGGAGCTGCCAAAATCTGCATCAAATAATATAATGCATTGGATTCTTTTAGTTTT CTATTTCTGAAGTACAAATATACCTCGGTGAAACTAGATGGATTACCTTCTTGTTCACAGGTCG AGCTTTAAACTTGGGAATCTTTGCCAACATCTCTTCCTCAAGTTCTGCACTGCTCTTAACTCTC AAAGGACGAGCTCGTTGGGACGTCACAAATTCGGGTTCCTTTGGTCTTGTCAGTGTCAGCTTAG GTCGATTCTGGACGAATAGGTCTCGCGTGCTTGTTTGGAACTTCTTCATCAATTCAGCAGTTGA AACAAAAGGTGCAATTTGCTCACGAACATAAACCTGAAAAGTGAAAACAAGGTTTGAGAGGGTC TGACAGAAAAAGTATACAAGCAACCATGAAGCACAACACACCTTTCTGTTTTCCTTCGGAGTGT GCTTAGTGACTGAAGGGCATAAGTTGAAACCAGTGTTAACAAGACCATTTCTTGTCTTGTGGAG CAGAGTTGCTGGTTTTGGATTGAGAATCTAGATAAATCAATGATAAGAAGGAAAAAGTTTCAGT CATGCAGTGAGGTATGGAGTGAATGACATGCTGATTTTAAAACAATTTGGCTCACCTGTCTTGA TTTTCCATCATCTAGCTTTTGCCTTTTGATGGCTTGATTTTCTTGAATCAGATTGGTAGTGCTA GCTATGTTGTTAAGATTCGTTTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.210994169

Conservation Information
Conserved circRNAs	NA
PMCS	0.210994169

			
						 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 AT1G03780_circ_g.8

Address

Any questions?

Supported by