Plant Circular RNA Database

Detail information of AT3G03250_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G03250_circ_g.1
					
						ID in PlantcircBase
						ath_circ_019428
					
						Alias
						3:750235-754038
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 750235-754038  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G03250						
					
						Parent gene annotation
						
							UDP-GLUCOSE PYROPHOSPHORYLASE 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G03250_circ_g.2 AT3G03250_circ_g.3 AT3G03250_circ_g.4 AT3G03250_circ_g.5 AT3G03250_circ_g.6 AT3G03250_circ_g.7 AT3G03250_circ_g.8 AT3G03250_circ_g.9 AT3G03250_circ_g.10 AT3G03250_circ_g.11 AT3G03250_circ_g.12 AT3G03250_circ_g.13 AT3G03250_circ_g.14 						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-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
						AT3G03250.1:17
AT3G03250.2:17
AT3G03250.3:17

General Information
CircRNA Name	AT3G03250_circ_g.1
ID in PlantcircBase	ath_circ_019428
Alias	3:750235-754038
Organism	Arabidpsis thaliana
Position	chr3: 750235-754038 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G03250
Parent gene annotation	UDP-GLUCOSE PYROPHOSPHORYLASE 1
Parent gene strand	-
Alternative splicing	AT3G03250_circ_g.2 AT3G03250_circ_g.3 AT3G03250_circ_g.4 AT3G03250_circ_g.5 AT3G03250_circ_g.6 AT3G03250_circ_g.7 AT3G03250_circ_g.8 AT3G03250_circ_g.9 AT3G03250_circ_g.10 AT3G03250_circ_g.11 AT3G03250_circ_g.12 AT3G03250_circ_g.13 AT3G03250_circ_g.14
Support reads	2
Tissues	root
Exon boundary	Yes-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	AT3G03250.1:17 AT3G03250.2:17 AT3G03250.3:17

			
						 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  
						
							AGAACACGAACCTCATCTCAGTAAGGCCATCGACGGCGGATTTGAGTTGAGGGAGATTCTCAGT
GGTGGCGGCCATTGTTGATTTACAGATTTAAGAGAGcttgagaacaatggaagagccaaaccag
acatcaccagacaccttaaggctgtcgagctcgactatactaggaatggacttaaaccggctca
agaaagta

									
								

					

						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
						
							CTTGAGAACAATGGAAGAGCCAAACCAGACATCACCAGACACCTTAAGGCTGTCGAGCTCGACT
ATACTAGGAATGGACTTAAACCGGCTCAAGAAAGTAGCCACCTGTTAGACAGACACACTAAGTG
AGGCTCAAGAGTCAAGATAGAAATGACAAATGGGACTTGTCAGGAAATCATTTTCTTCATTTAC
CTTCTTGAACTCGGGTCCCAATTCAATTGACGGGTTCGAGGGGTTAGTTCTAGCTTTGTTTCGA
GTGACAAAGCCATCAACTAAGGTGTAGAGATCAGACTGTGGAAGAAAGAAAACTTAAATCATTA
ATCAAATGTTTCAAAAGATATTTGTTACTCTGTTGCGTTGTTAAACGTGGTGTATAGAGTTTAC
CTGGACGAGCAGCAAGTCTGAACTTGCCTTCACTGGCAAGAACCGTGAGCGAGGTACATTAACA
CCGATAGCGTTGTCAAAGAACTGTTTTGAGACAGAATCACACGAAAAAGGAGTTAAGAAAAGAT
TAGAGTTTGCATTCTATATTTCAAAACGTGCCACTAGGACAGGCATGTATACCCTTATCGCAGC
ACCGGCTGCAGTTTCCAGTTGAAGAACTTTGACTCCATCAACTTCCTGAATAGAATTTGCAGTT
TTTCTTTGGTTAGATAATAATGAATGAAAAAATTGCAGAAATAAAAAACTGTGCATTAGCCACG
CAGGCACCTTTGGGTTTGGAATGATCTCCATTTTAAGTGCATCAGCTTCCACAAGCTTTTTGAT
GGCCTTCAAGTTAACCCATCTGTAAACTTACACAGTTAGTGTGTATCAAATAAGTTTATTTTGT
TTTACTATCATTAGGGACGTGATCTACTTACAGGTTGTTTGTGTTGAATATCTTGAACTTCTCA
ATTGATTTGAACTCATTGACCTACCACAAGGATCAAAACACGAATGCAACAACTCTTTTAAGCA
GATGATACAAGTTGAAGCAAACAGAAAGACGACACAAACAAAAGTCTACAGTTCACATTCTATT
GTTCTTTAACAAATTTGGCATTTACTATACTCCCATCATAAAGAAGGGCTTTGCAAAGCATCCA
TGAAATGATTTTCTAAACTAAGCTCGTTTATACCAACTTTCGCCGAATCTCTAATGAATATGCT
ACAACAGTTTCAAACAATCTCTAAAGACATTGAAACCCAAGGAAGTATAGACTTACATGTTCAT
CAGGAACCTGAGCAATCTCCAGAAGCTGGACTTTGCCTTCATAAGAAATGAGAGTTCCCCCCTT
TACATCAGCTAAGGTTTTGGGTGTAACCTCCATGCAGTATTCGTTCTTGTTCTGGATCAAATGC
TTCAGGATTGCTACAGCAATTTGACGAAAGACGAGATAAGCAAGAGAGTTAGTATGGGAATTTC
ATGTAAAAATATCTGATTAACCATATAAAACTATGTGTAAACAAGAACGAGAAAAAATACAAAG
AAGACATACTTAAGTCAACGATGGCACCCAAGTTGTCTGAATTGGCAACAAACACATATTCCTT
ACCCTGAGAGACACAGAAAACAGAACTTTCAATAAACATGGACATCAATCTTAGATGCTGGGAA
AAACGGTAGTTGACTACACTAAAGAAAGAACCTGTGATAAGAAAGTATCGAGCTTTCCACTGTT
CATGAGGGCTGGGAATACATCACCATGACCGGGAGGATACCTTCACAAAGACAATTTATTAGTA
GGCGATCTGATAAACAACAGAAGCTATTCTTTAAATGCAAACGTAATCTCTAATGAAAACGCAA
ACAAAGGCAAAAAAAAAAGAAAATCTGCGACGACTACAGCATATGGTCAACCAGCAAACAGATC
AAACTTATATAATTGAAAACATGCCGTATTCTCAAATAGATTTCAGTATAACCTGTTAGAAAAT
TCACAACTTCTTGTTCTCTGCAATCATGGACTGATCTTAGAGAGCACAAGGCATTACAATTCAG
TTATCAGTTATGATACTTCATCACGTAGGTAGATTAACCAGTTCTAACTTGCATAAGAAGATAA
AATGCGACTTAATATGAACATGAACCATAGCCACTTAAAGTATCAAGATTAAGTAATGAATACT
GTTTTGATAGTCTGTTTCCTGTTATCTAAACTGCAGAATGACAGATTTCAATCGTTTTGACGAA
GTTGATAAACTTGAGTGATAATGAAGAACAAGGCCCAACAAAGAAAGAAACTAATACATAAATA
TTTGAAATCATACCAGCCCTCCTTGTCGGTCTTTCCCTTGCTGGGCCATGGCACAAACTCATCT
GCCACAACACGGGGATATTTGCTCTACAATATCCAAGTAAACGTTAGTAGTTGCAGATCTGATG
TCAGTTTTTACATACAAATGAAATTTTCGTTTCCTAATTTGATATGCATCGACATCACAAACCT
GGTTAAAAGTGTGAATGTCAACATTTGAGTTGGTGTACTTTTCCACAATCTGAATATGACAAAA
ACAGTCAGCCAAGAAGAATAGCAGAAATATAGAAGTGAAGAAATGTGATCCACAGTGAAAGAGA
AGTACCTTATGTGTGTCATCATGTGTATTAAACGAGTTCATGAGAACTAACGGAACCTTGCAGC
CATACTTGTTGTTGAGATTCTGCGAGTGAGCAATATATTGATCATTAGATTAGCAAACATTAAG
TAGGGAAGAGTAAGAAACAAAAAAAGAAGCCATACCTCAATCTGGATAACAATCAGATCAAGAA
ATGTCAAACCATCACGAACTTCGATAACGGACCTGCACAGACACAAGTAAGCTATAATTTCTTC
ACTCCCTGAATCTTAGACTGACTACTAGTACATGCCTGCTATGCCAAAAAATTCACAATGGATC
ATGGTTCACTATCTTCAATTTGAGCATTACACCCACTAGCGATGATAGCAAATTTTAAACTGTA
CACAATAAGATTGAAAAGAAAAAAAGACTAAAACAGACAAGCAAGAAAATGCTTACTTCGGGCC
AGTGCATCCCATTGTTGTTCCAAGACCTCCATTAAGCTTCAACACAACAAGTTTGTCCAACAGA
TTCTTGGTCTCGGCAACATCTACATTATTTTTAAAATTAGTATCACAGAGAAACTGCAAGCATA
TTGAAACAAACCAAAAAAGCTTCAATAATAAAACCTTGGGAGACAGGGGTCATTTTCTCGTAGG
GAACAACGATTTCATCGGTAGGAGTCTGGATCTTACTCCACTCAATGTGTTGTGCCTCACCGCT
TCAAAATTCAATACAAAGTGATTGTGGAACAAATCAGTCTGTTGTTATTATGTAAACAACGACG
AAAACAACTCAGATCTATATCCAGATCCGATTAAACTTAGGTCTAACAATCGTTCAGATTGAAA
GCAATTCCAGAAATCACGATCAGGAATAACCGACAGCATGATAAACTAGGCAGTATTGTTTGAT
CGTCACAAATTCATGAGAAGATCAACAACCAATCGATTGATATATCGGAAGTAAGCATCCACAC
AAAAACACAATCGGAAGCGAGAAAGAGAAAGACGAACCTCAGGTAACGTGAAACCAGGCTGATG
AATCCGCTCTTCTCACTCTCACTGAAACATTTAAAAAAAAAATCAGTCGAAATAATAACGAAAA
AGCAGATCTGGAATCATGAAGATCCAACAGATTTAGGAAGAAACGAGACTAATCAGAGAACACG
AACCTCATCTCAGTAAGGCCATCGACGGCGGATTTGAGTTGAGGGAGATTCTCAGTGGTGGCGG
CCATTGTTGATTTACAGATTTAAGAGAG
						
					

			
		

Sequences
Splice junction sequence	AGAACACGAACCTCATCTCAGTAAGGCCATCGACGGCGGATTTGAGTTGAGGGAGATTCTCAGT GGTGGCGGCCATTGTTGATTTACAGATTTAAGAGAGcttgagaacaatggaagagccaaaccag acatcaccagacaccttaaggctgtcgagctcgactatactaggaatggacttaaaccggctca agaaagta
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	CTTGAGAACAATGGAAGAGCCAAACCAGACATCACCAGACACCTTAAGGCTGTCGAGCTCGACT ATACTAGGAATGGACTTAAACCGGCTCAAGAAAGTAGCCACCTGTTAGACAGACACACTAAGTG AGGCTCAAGAGTCAAGATAGAAATGACAAATGGGACTTGTCAGGAAATCATTTTCTTCATTTAC CTTCTTGAACTCGGGTCCCAATTCAATTGACGGGTTCGAGGGGTTAGTTCTAGCTTTGTTTCGA GTGACAAAGCCATCAACTAAGGTGTAGAGATCAGACTGTGGAAGAAAGAAAACTTAAATCATTA ATCAAATGTTTCAAAAGATATTTGTTACTCTGTTGCGTTGTTAAACGTGGTGTATAGAGTTTAC CTGGACGAGCAGCAAGTCTGAACTTGCCTTCACTGGCAAGAACCGTGAGCGAGGTACATTAACA CCGATAGCGTTGTCAAAGAACTGTTTTGAGACAGAATCACACGAAAAAGGAGTTAAGAAAAGAT TAGAGTTTGCATTCTATATTTCAAAACGTGCCACTAGGACAGGCATGTATACCCTTATCGCAGC ACCGGCTGCAGTTTCCAGTTGAAGAACTTTGACTCCATCAACTTCCTGAATAGAATTTGCAGTT TTTCTTTGGTTAGATAATAATGAATGAAAAAATTGCAGAAATAAAAAACTGTGCATTAGCCACG CAGGCACCTTTGGGTTTGGAATGATCTCCATTTTAAGTGCATCAGCTTCCACAAGCTTTTTGAT GGCCTTCAAGTTAACCCATCTGTAAACTTACACAGTTAGTGTGTATCAAATAAGTTTATTTTGT TTTACTATCATTAGGGACGTGATCTACTTACAGGTTGTTTGTGTTGAATATCTTGAACTTCTCA ATTGATTTGAACTCATTGACCTACCACAAGGATCAAAACACGAATGCAACAACTCTTTTAAGCA GATGATACAAGTTGAAGCAAACAGAAAGACGACACAAACAAAAGTCTACAGTTCACATTCTATT GTTCTTTAACAAATTTGGCATTTACTATACTCCCATCATAAAGAAGGGCTTTGCAAAGCATCCA TGAAATGATTTTCTAAACTAAGCTCGTTTATACCAACTTTCGCCGAATCTCTAATGAATATGCT ACAACAGTTTCAAACAATCTCTAAAGACATTGAAACCCAAGGAAGTATAGACTTACATGTTCAT CAGGAACCTGAGCAATCTCCAGAAGCTGGACTTTGCCTTCATAAGAAATGAGAGTTCCCCCCTT TACATCAGCTAAGGTTTTGGGTGTAACCTCCATGCAGTATTCGTTCTTGTTCTGGATCAAATGC TTCAGGATTGCTACAGCAATTTGACGAAAGACGAGATAAGCAAGAGAGTTAGTATGGGAATTTC ATGTAAAAATATCTGATTAACCATATAAAACTATGTGTAAACAAGAACGAGAAAAAATACAAAG AAGACATACTTAAGTCAACGATGGCACCCAAGTTGTCTGAATTGGCAACAAACACATATTCCTT ACCCTGAGAGACACAGAAAACAGAACTTTCAATAAACATGGACATCAATCTTAGATGCTGGGAA AAACGGTAGTTGACTACACTAAAGAAAGAACCTGTGATAAGAAAGTATCGAGCTTTCCACTGTT CATGAGGGCTGGGAATACATCACCATGACCGGGAGGATACCTTCACAAAGACAATTTATTAGTA GGCGATCTGATAAACAACAGAAGCTATTCTTTAAATGCAAACGTAATCTCTAATGAAAACGCAA ACAAAGGCAAAAAAAAAAGAAAATCTGCGACGACTACAGCATATGGTCAACCAGCAAACAGATC AAACTTATATAATTGAAAACATGCCGTATTCTCAAATAGATTTCAGTATAACCTGTTAGAAAAT TCACAACTTCTTGTTCTCTGCAATCATGGACTGATCTTAGAGAGCACAAGGCATTACAATTCAG TTATCAGTTATGATACTTCATCACGTAGGTAGATTAACCAGTTCTAACTTGCATAAGAAGATAA AATGCGACTTAATATGAACATGAACCATAGCCACTTAAAGTATCAAGATTAAGTAATGAATACT GTTTTGATAGTCTGTTTCCTGTTATCTAAACTGCAGAATGACAGATTTCAATCGTTTTGACGAA GTTGATAAACTTGAGTGATAATGAAGAACAAGGCCCAACAAAGAAAGAAACTAATACATAAATA TTTGAAATCATACCAGCCCTCCTTGTCGGTCTTTCCCTTGCTGGGCCATGGCACAAACTCATCT GCCACAACACGGGGATATTTGCTCTACAATATCCAAGTAAACGTTAGTAGTTGCAGATCTGATG TCAGTTTTTACATACAAATGAAATTTTCGTTTCCTAATTTGATATGCATCGACATCACAAACCT GGTTAAAAGTGTGAATGTCAACATTTGAGTTGGTGTACTTTTCCACAATCTGAATATGACAAAA ACAGTCAGCCAAGAAGAATAGCAGAAATATAGAAGTGAAGAAATGTGATCCACAGTGAAAGAGA AGTACCTTATGTGTGTCATCATGTGTATTAAACGAGTTCATGAGAACTAACGGAACCTTGCAGC CATACTTGTTGTTGAGATTCTGCGAGTGAGCAATATATTGATCATTAGATTAGCAAACATTAAG TAGGGAAGAGTAAGAAACAAAAAAAGAAGCCATACCTCAATCTGGATAACAATCAGATCAAGAA ATGTCAAACCATCACGAACTTCGATAACGGACCTGCACAGACACAAGTAAGCTATAATTTCTTC ACTCCCTGAATCTTAGACTGACTACTAGTACATGCCTGCTATGCCAAAAAATTCACAATGGATC ATGGTTCACTATCTTCAATTTGAGCATTACACCCACTAGCGATGATAGCAAATTTTAAACTGTA CACAATAAGATTGAAAAGAAAAAAAGACTAAAACAGACAAGCAAGAAAATGCTTACTTCGGGCC AGTGCATCCCATTGTTGTTCCAAGACCTCCATTAAGCTTCAACACAACAAGTTTGTCCAACAGA TTCTTGGTCTCGGCAACATCTACATTATTTTTAAAATTAGTATCACAGAGAAACTGCAAGCATA TTGAAACAAACCAAAAAAGCTTCAATAATAAAACCTTGGGAGACAGGGGTCATTTTCTCGTAGG GAACAACGATTTCATCGGTAGGAGTCTGGATCTTACTCCACTCAATGTGTTGTGCCTCACCGCT TCAAAATTCAATACAAAGTGATTGTGGAACAAATCAGTCTGTTGTTATTATGTAAACAACGACG AAAACAACTCAGATCTATATCCAGATCCGATTAAACTTAGGTCTAACAATCGTTCAGATTGAAA GCAATTCCAGAAATCACGATCAGGAATAACCGACAGCATGATAAACTAGGCAGTATTGTTTGAT CGTCACAAATTCATGAGAAGATCAACAACCAATCGATTGATATATCGGAAGTAAGCATCCACAC AAAAACACAATCGGAAGCGAGAAAGAGAAAGACGAACCTCAGGTAACGTGAAACCAGGCTGATG AATCCGCTCTTCTCACTCTCACTGAAACATTTAAAAAAAAAATCAGTCGAAATAATAACGAAAA AGCAGATCTGGAATCATGAAGATCCAACAGATTTAGGAAGAAACGAGACTAATCAGAGAACACG AACCTCATCTCAGTAAGGCCATCGACGGCGGATTTGAGTTGAGGGAGATTCTCAGTGGTGGCGG CCATTGTTGATTTACAGATTTAAGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120670526

Conservation Information
Conserved circRNAs	NA
PMCS	0.120670526

			
						 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 AT3G03250_circ_g.1

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