Plant Circular RNA Database

Detail information of AT4G31150_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT4G31150_circ_g.5
					
						ID in PlantcircBase
						ath_circ_033794
					
						Alias
						4:15144493-15145446
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15144493-15145446  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G31150						
					
						Parent gene annotation
						
							At4g31150
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G31150_circ_g.1 AT4G31150_circ_g.2 AT4G31150_circ_g.3 AT4G31150_circ_g.4 AT4G31150_circ_g.6 						
					
						Support reads
						1/1/1/1
					
						Tissues
						seedling;root
					
						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
						AT4G31150.4:5
AT4G31150.3:5
AT4G31150.2:5
AT4G31150.1:5

General Information
CircRNA Name	AT4G31150_circ_g.5
ID in PlantcircBase	ath_circ_033794
Alias	4:15144493-15145446
Organism	Arabidpsis thaliana
Position	chr4: 15144493-15145446 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G31150
Parent gene annotation	At4g31150
Parent gene strand	-
Alternative splicing	AT4G31150_circ_g.1 AT4G31150_circ_g.2 AT4G31150_circ_g.3 AT4G31150_circ_g.4 AT4G31150_circ_g.6
Support reads	1/1/1/1
Tissues	seedling;root
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	AT4G31150.4:5 AT4G31150.3:5 AT4G31150.2:5 AT4G31150.1:5

			
						 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  
						
							CTTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGATAACTTCCATGTGAAGTCATCG
TACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCTtactccccatgtaattccagagtttcct
accaaagtgatagtttgctcatgctcgtttatttggagctgaagcgactgtttaacctcagatt
gattcaga

									
								

					

						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: 547
Transcript exons: 15144493-15144609,15144720-15144784,15144869-15144908,15
145019-15145081,15145185-15145446
TACTCCCCATGTAATTCCAGAGTTTCCTACCAAAGTGATAGTTTGCTCATGCTCGTTTATTTGG
AGCTGAAGCGACTGTTTAACCTCAGATTGATTCAGACCATCCACATGATGCAGATTCTTTCCGA
CCCCAATGGTTGGTAGGTGAGCAAGAACACCTAAATGACACGCCAAGCCAAATCCTCGTGGATG
AAGTATTCCATTTCCATCCACCATCAGTACCTGAGGATAGAATGGATGCTTCTCATCTCTCATC
TTCTGCAGAATCTGCAAAAGAACCGGAGCCTCACGAAAGGCAAGAAATCCAGGGACATAAGGAA
CATGGAGGCGGAGAAGAGAGAAGTCATGGTGGACTACACGGAGAGAAGGAAGCTCAAGAACGAC
GAGACAAGCGCATGCGACGGAAGAATCTTCTTTGCAAAAGCTCATGTCTACACCTCCAACATAC
TTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGATAACTTCCATGTGAAGTCATCGT
ACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCT
						
					

						Genomic sequence
						
							TACTCCCCATGTAATTCCAGAGTTTCCTACCAAAGTGATAGTTTGCTCATGCTCGTTTATTTGG
AGCTGAAGCGACTGTTTAACCTCAGATTGATTCAGACCATCCACATGATGCAGCTGAAAATGTT
ACAACATCATAAATTCCACATTAACGATCAGATGGAAAATGCAAGGCAAAACAAAAATAACATC
ACAAATTTCAGAGCTTGAGATTCTGAAGACCGTACATTCTTTCCGACCCCAATGGTTGGTAGGT
GAGCAAGAACACCTAAATGACACGCCAAGCCAAATCCTATAGAAGACAATTACATCTAACACCA
TAATTACAGAGCTTGAAATGCAACTACAAAACAAAGGTAAAGTTGTGTGTTTATACCTCGTGGA
TGAAGTATTCCATTTCCATCCACCATCAGTACCTTTGCAAGAGCAAAGCAAGAGACTTTTAGAA
GAAAAAAAATCAACGCAAAAGCAATGGTTTAAGAGTAGCCAATTGCAAACTAAAGCAACTTATA
GATAAAACTGAAACCTGAGGATAGAATGGATGCTTCTCATCTCTCATCTTCTGCAGAATCTGCA
AAAGAACCGGAGCCTGTAACATGAAAAATCCAATTTTGGGATCTGAGATACTTTAGTGAAGCAA
ATGAATTTAGCAGAGCATTGCTCGGGGACACGAAGTAGTAGGAGAAGGAAACCTCACGAAAGGC
AAGAAATCCAGGGACATAAGGAACATGGAGGCGGAGAAGAGAGAAGTCATGGTGGACTACACGG
AGAGAAGGAAGCTCAAGAACGACGAGACAAGCGCATGCGACGGAAGAATCTTCTTTGCAAAAGC
TCATGTCTACACCTCCAACATACTTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGA
TAACTTCCATGTGAAGTCATCGTACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCT
						
					

			
		

Sequences
Splice junction sequence	CTTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGATAACTTCCATGTGAAGTCATCG TACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCTtactccccatgtaattccagagtttcct accaaagtgatagtttgctcatgctcgtttatttggagctgaagcgactgtttaacctcagatt gattcaga
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: 547 Transcript exons: 15144493-15144609,15144720-15144784,15144869-15144908,15 145019-15145081,15145185-15145446 TACTCCCCATGTAATTCCAGAGTTTCCTACCAAAGTGATAGTTTGCTCATGCTCGTTTATTTGG AGCTGAAGCGACTGTTTAACCTCAGATTGATTCAGACCATCCACATGATGCAGATTCTTTCCGA CCCCAATGGTTGGTAGGTGAGCAAGAACACCTAAATGACACGCCAAGCCAAATCCTCGTGGATG AAGTATTCCATTTCCATCCACCATCAGTACCTGAGGATAGAATGGATGCTTCTCATCTCTCATC TTCTGCAGAATCTGCAAAAGAACCGGAGCCTCACGAAAGGCAAGAAATCCAGGGACATAAGGAA CATGGAGGCGGAGAAGAGAGAAGTCATGGTGGACTACACGGAGAGAAGGAAGCTCAAGAACGAC GAGACAAGCGCATGCGACGGAAGAATCTTCTTTGCAAAAGCTCATGTCTACACCTCCAACATAC TTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGATAACTTCCATGTGAAGTCATCGT ACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCT
Genomic sequence	TACTCCCCATGTAATTCCAGAGTTTCCTACCAAAGTGATAGTTTGCTCATGCTCGTTTATTTGG AGCTGAAGCGACTGTTTAACCTCAGATTGATTCAGACCATCCACATGATGCAGCTGAAAATGTT ACAACATCATAAATTCCACATTAACGATCAGATGGAAAATGCAAGGCAAAACAAAAATAACATC ACAAATTTCAGAGCTTGAGATTCTGAAGACCGTACATTCTTTCCGACCCCAATGGTTGGTAGGT GAGCAAGAACACCTAAATGACACGCCAAGCCAAATCCTATAGAAGACAATTACATCTAACACCA TAATTACAGAGCTTGAAATGCAACTACAAAACAAAGGTAAAGTTGTGTGTTTATACCTCGTGGA TGAAGTATTCCATTTCCATCCACCATCAGTACCTTTGCAAGAGCAAAGCAAGAGACTTTTAGAA GAAAAAAAATCAACGCAAAAGCAATGGTTTAAGAGTAGCCAATTGCAAACTAAAGCAACTTATA GATAAAACTGAAACCTGAGGATAGAATGGATGCTTCTCATCTCTCATCTTCTGCAGAATCTGCA AAAGAACCGGAGCCTGTAACATGAAAAATCCAATTTTGGGATCTGAGATACTTTAGTGAAGCAA ATGAATTTAGCAGAGCATTGCTCGGGGACACGAAGTAGTAGGAGAAGGAAACCTCACGAAAGGC AAGAAATCCAGGGACATAAGGAACATGGAGGCGGAGAAGAGAGAAGTCATGGTGGACTACACGG AGAGAAGGAAGCTCAAGAACGACGAGACAAGCGCATGCGACGGAAGAATCTTCTTTGCAAAAGC TCATGTCTACACCTCCAACATACTTAAGTATCTCCGATCCCTGAGACAGTTCCGTTGATGAAGA TAACTTCCATGTGAAGTCATCGTACGCGATCAGTTTCTTCTTCAGCTCATCCTGCTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239607431

Conservation Information
Conserved circRNAs	NA
PMCS	0.239607431

			
						 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 AT4G31150_circ_g.5

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