Plant Circular RNA Database

Detail information of AT5G25270_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G25270_circ_g.3
					
						ID in PlantcircBase
						ath_circ_040357
					
						Alias
						5:8758261-8759834
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 8758261-8759834  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G25270						
					
						Parent gene annotation
						
							Ubiquitin-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G25270_circ_g.2 AT5G25270_circ_g.4 AT5G25270_circ_g.5 AT5G25270_circ_g.6 AT5G25270_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						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
						AT5G25270.1:5

General Information
CircRNA Name	AT5G25270_circ_g.3
ID in PlantcircBase	ath_circ_040357
Alias	5:8758261-8759834
Organism	Arabidpsis thaliana
Position	chr5: 8758261-8759834 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G25270
Parent gene annotation	Ubiquitin-like superfamily protein
Parent gene strand	-
Alternative splicing	AT5G25270_circ_g.2 AT5G25270_circ_g.4 AT5G25270_circ_g.5 AT5G25270_circ_g.6 AT5G25270_circ_g.7
Support reads	2
Tissues	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	AT5G25270.1:5

			
						 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  
						
							TCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCGGT
CACATTTACATGATCCACGAGCTGCCTCGAAAGATTctctgcctctctcgaagaggcttgtcta
ctattgctgcctctgcctgtagcagcttcacctgagcttgaggaggctacgttttgagatataa
acggcatg

									
								

					

						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: 309
Transcript exons: 8758261-8758434,8759700-8759834
CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG
CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT
TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACGGCACGGCCAAGCTCCAG
GAGTGAAATGCCTAAACTCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTT
CGGGTTGGCGGATCGGTCACATTTACATGATCCACGAGCTGCCTCGAAAGATT
Transcript length: 981
Transcript exons: 8758261-8758598,8758825-8759112,8759254-8759377,8759467-
8759532,8759670-8759834
CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG
CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT
TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACTGCTTCGTTTGTTTCTGT
GGACGCTGTGGCAGAGGGATTTGCTGCACCCTGAGACTCCGTGCTCCCGGCTTGGTTTTCTCGA
CGAGATAAGGGCCTCAAAAACTGATGGATTCTGTTTCTCAATTCAGACAAACCCCGACCGCCAG
GAGAAGCACTGCTATCACCTTCTCTTCCTGGAGTACCGACGCTCTGTGGCTGCCTAGAAGATTC
AGTAACAGGCTGATGTACACCATCCAATCCAGTAGAGCTACGTCCACCAAGAGATATCTGCTGA
TATCGAGCAACAACAGGTATAACTAAGGCCACAGGATTTCGAAGAGGTTCAGATGGACCTCTCG
TTGAGGGGGCAGGATCAGTAGTGCTGCTGGGTGTAGAAGGGATTGTCTGCCCAGGGGTTTGTTG
TGTAGTACTTTCCTCTCTCTGGTTGGTCCCACTGGCGGGCACCCAAGATCCTGTACGTATTCTT
ATCTCAATATTTCTTGGGGCAGAGGCAAGTGATTGTCCCGCAAAGGGGTTAGAATGTGCGGTTC
CTGCTTGTAAGCTTCCAATACTCGTGCCCAGCCGAGAGGAGTGTGACGGCAAGGGATTTCGCCC
TGTAGGGGATATGAACACTGCAGGTCCAGCATCAACAACAGCATCATCAGGTGTTTGTCCCAAA
CGAAGCATCATGGTGGCACGGCCAAGCTCCAGGAGTGAAATGCCTAAACTCTCCAAGAGGGATC
CTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCGGTCACATTTACATGATC
CACGAGCTGCCTCGAAAGATT
						
					

						Genomic sequence
						
							CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG
CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT
TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACTGCTTCGTTTGTTTCTGT
GGACGCTGTGGCAGAGGGATTTGCTGCACCCTGAGACTCCGTGCTCCCGGCTTGGTTTTCTCGA
CGAGATAAGGGCCTCAAAAACTGATGGATTCTGTTTCTCAATTCAGACAAACCCCGACCGCCAG
GAGAAGCACTGCTATCACCTACATATTTCATAGAAGCAAAGATTTATGACATATCCTGCGTTTA
GGTAACACATCATCTACCAGGTCTAAGAAGATTGAAGCCAAAACAACCAAGGGAAACATCAAAT
CAAACATAATATGAGACAACCCAGTAATAAAAGGTAACAGACGTGAAGTTTTCTCTTATCGACA
ATTCAACAAATAAATCAGTACAATAGTGTAGGGAAGTTATATTAGAACTAACCTTCTCTTCCTG
GAGTACCGACGCTCTGTGGCTGCCTAGAAGATTCAGTAACAGGCTGATGTACACCATCCAATCC
AGTAGAGCTACGTCCACCAAGAGATATCTGCTGATATCGAGCAACAACAGGTATAACTAAGGCC
ACAGGATTTCGAAGAGGTTCAGATGGACCTCTCGTTGAGGGGGCAGGATCAGTAGTGCTGCTGG
GTGTAGAAGGGATTGTCTGCCCAGGGGTTTGTTGTGTAGTACTTTCCTCTCTCTGGTTGGTCCC
ACTGGCGGGCACCCAAGATCCTAATATAACACATCACCAAGATGAATCCAGATATAAGATTAAA
AAAAGGAACTTAATATGAAGTTTTTCAATATATAGCAGGAAAGAACAGTTAATACTTCGAAATT
ACGGATATGAATAGCACCTGTACGTATTCTTACCTGTACGTATTCTTATCTCAATATTTCTTGG
GGCAGAGGCAAGTGATTGTCCCGCAAAGGGGTTAGAATGTGCGGTTCCTGCTTGTAAGCTTCCA
ATACTCGTGCCCAGCCGAGAGGAGTGTGACTACAAAAGTTAAAGGTAACACAAAGGTAAGGTGA
GCAGGACAAGTGGACACACTGGTAATGGTGAAAGAAAGTAACAAATAGATAGACCGGCAAGGGA
TTTCGCCCTGTAGGGGATATGAACACTGCAGGTCCAGCATCAACAACAGCATCATCCTGACATG
TAACATAACAAGTGTCATATAGATGTATGGGTGTATCATATTCTGTGAACAAAATCATATGCAA
ACTAATGCATCAATAATAAAAATTGCAAGATTTAGATCCACAATATGTAGCAAAAGAATACGCA
CAGGTGTTTGTCCCAAACGAAGCATCATGGTGGCACGGCCAAGCTCCAGGAGTGAAATGCCTAA
ACTCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCG
GTCACATTTACATGATCCACGAGCTGCCTCGAAAGATT
						
					

			
		

Sequences
Splice junction sequence	TCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCGGT CACATTTACATGATCCACGAGCTGCCTCGAAAGATTctctgcctctctcgaagaggcttgtcta ctattgctgcctctgcctgtagcagcttcacctgagcttgaggaggctacgttttgagatataa acggcatg
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: 309 Transcript exons: 8758261-8758434,8759700-8759834 CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACGGCACGGCCAAGCTCCAG GAGTGAAATGCCTAAACTCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTT CGGGTTGGCGGATCGGTCACATTTACATGATCCACGAGCTGCCTCGAAAGATT Transcript length: 981 Transcript exons: 8758261-8758598,8758825-8759112,8759254-8759377,8759467- 8759532,8759670-8759834 CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACTGCTTCGTTTGTTTCTGT GGACGCTGTGGCAGAGGGATTTGCTGCACCCTGAGACTCCGTGCTCCCGGCTTGGTTTTCTCGA CGAGATAAGGGCCTCAAAAACTGATGGATTCTGTTTCTCAATTCAGACAAACCCCGACCGCCAG GAGAAGCACTGCTATCACCTTCTCTTCCTGGAGTACCGACGCTCTGTGGCTGCCTAGAAGATTC AGTAACAGGCTGATGTACACCATCCAATCCAGTAGAGCTACGTCCACCAAGAGATATCTGCTGA TATCGAGCAACAACAGGTATAACTAAGGCCACAGGATTTCGAAGAGGTTCAGATGGACCTCTCG TTGAGGGGGCAGGATCAGTAGTGCTGCTGGGTGTAGAAGGGATTGTCTGCCCAGGGGTTTGTTG TGTAGTACTTTCCTCTCTCTGGTTGGTCCCACTGGCGGGCACCCAAGATCCTGTACGTATTCTT ATCTCAATATTTCTTGGGGCAGAGGCAAGTGATTGTCCCGCAAAGGGGTTAGAATGTGCGGTTC CTGCTTGTAAGCTTCCAATACTCGTGCCCAGCCGAGAGGAGTGTGACGGCAAGGGATTTCGCCC TGTAGGGGATATGAACACTGCAGGTCCAGCATCAACAACAGCATCATCAGGTGTTTGTCCCAAA CGAAGCATCATGGTGGCACGGCCAAGCTCCAGGAGTGAAATGCCTAAACTCTCCAAGAGGGATC CTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCGGTCACATTTACATGATC CACGAGCTGCCTCGAAAGATT
Genomic sequence	CTCTGCCTCTCTCGAAGAGGCTTGTCTACTATTGCTGCCTCTGCCTGTAGCAGCTTCACCTGAG CTTGAGGAGGCTACGTTTTGAGATATAAACGGCATGATCTGCTGAAGAACACTCGATATGAAAT TCCCTTCATCTGTCGTAGTTGCTGGCTCTACTTGTGCATTTGCAACTGCTTCGTTTGTTTCTGT GGACGCTGTGGCAGAGGGATTTGCTGCACCCTGAGACTCCGTGCTCCCGGCTTGGTTTTCTCGA CGAGATAAGGGCCTCAAAAACTGATGGATTCTGTTTCTCAATTCAGACAAACCCCGACCGCCAG GAGAAGCACTGCTATCACCTACATATTTCATAGAAGCAAAGATTTATGACATATCCTGCGTTTA GGTAACACATCATCTACCAGGTCTAAGAAGATTGAAGCCAAAACAACCAAGGGAAACATCAAAT CAAACATAATATGAGACAACCCAGTAATAAAAGGTAACAGACGTGAAGTTTTCTCTTATCGACA ATTCAACAAATAAATCAGTACAATAGTGTAGGGAAGTTATATTAGAACTAACCTTCTCTTCCTG GAGTACCGACGCTCTGTGGCTGCCTAGAAGATTCAGTAACAGGCTGATGTACACCATCCAATCC AGTAGAGCTACGTCCACCAAGAGATATCTGCTGATATCGAGCAACAACAGGTATAACTAAGGCC ACAGGATTTCGAAGAGGTTCAGATGGACCTCTCGTTGAGGGGGCAGGATCAGTAGTGCTGCTGG GTGTAGAAGGGATTGTCTGCCCAGGGGTTTGTTGTGTAGTACTTTCCTCTCTCTGGTTGGTCCC ACTGGCGGGCACCCAAGATCCTAATATAACACATCACCAAGATGAATCCAGATATAAGATTAAA AAAAGGAACTTAATATGAAGTTTTTCAATATATAGCAGGAAAGAACAGTTAATACTTCGAAATT ACGGATATGAATAGCACCTGTACGTATTCTTACCTGTACGTATTCTTATCTCAATATTTCTTGG GGCAGAGGCAAGTGATTGTCCCGCAAAGGGGTTAGAATGTGCGGTTCCTGCTTGTAAGCTTCCA ATACTCGTGCCCAGCCGAGAGGAGTGTGACTACAAAAGTTAAAGGTAACACAAAGGTAAGGTGA GCAGGACAAGTGGACACACTGGTAATGGTGAAAGAAAGTAACAAATAGATAGACCGGCAAGGGA TTTCGCCCTGTAGGGGATATGAACACTGCAGGTCCAGCATCAACAACAGCATCATCCTGACATG TAACATAACAAGTGTCATATAGATGTATGGGTGTATCATATTCTGTGAACAAAATCATATGCAA ACTAATGCATCAATAATAAAAATTGCAAGATTTAGATCCACAATATGTAGCAAAAGAATACGCA CAGGTGTTTGTCCCAAACGAAGCATCATGGTGGCACGGCCAAGCTCCAGGAGTGAAATGCCTAA ACTCTCCAAGAGGGATCCTGATTGAAGCATGTTTGACTGGCACAACCTTCGGGTTGGCGGATCG GTCACATTTACATGATCCACGAGCTGCCTCGAAAGATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.366608921

Conservation Information
Conserved circRNAs	NA
PMCS	0.366608921

			
						 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 AT5G25270_circ_g.3

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