Plant Circular RNA Database

Detail information of AT5G14260_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT5G14260_circ_g.5
					
						ID in PlantcircBase
						ath_circ_038210
					
						Alias
						5:4601859-4603341
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 4601859-4603341  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G14260						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g14260
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G14260_circ_g.1 AT5G14260_circ_g.2 AT5G14260_circ_g.3 AT5G14260_circ_g.4 AT5G14260_circ_g.6 AT5G14260_circ_g.7 AT5G14260_circ_g.8 						
					
						Support reads
						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  
						
							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
						AT5G14260.1:7
AT5G14260.2:7
AT5G14260.3:7
AT5G14260.4:7

General Information
CircRNA Name	AT5G14260_circ_g.5
ID in PlantcircBase	ath_circ_038210
Alias	5:4601859-4603341
Organism	Arabidpsis thaliana
Position	chr5: 4601859-4603341 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G14260
Parent gene annotation	Putative uncharacterized protein At5g14260
Parent gene strand	+
Alternative splicing	AT5G14260_circ_g.1 AT5G14260_circ_g.2 AT5G14260_circ_g.3 AT5G14260_circ_g.4 AT5G14260_circ_g.6 AT5G14260_circ_g.7 AT5G14260_circ_g.8
Support reads	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	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	AT5G14260.1:7 AT5G14260.2:7 AT5G14260.3:7 AT5G14260.4:7

			
						 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  
						
							AGAAGCTGTTCAAGACATGCTTCCCTACCTGCGGTTGGGTTACATGTCTGATCCTTCTGAAATG
CAGTCAGTAATTTCATCCCAAGGTCCAGTTTGTCCGctgaactgttgacgacgaacaaattatc
cgaactggcttgtctagctttgtatttgatgtatgagaagaaacaaggaaagaaatcagtatgg
tatcccta

									
								

					

						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: 833
Transcript exons: 4601859-4602064,4602145-4602231,4602332-4602424,4602639-
4602793,4602883-4602967,4603064-4603150,4603222-4603341
CTGAACTGTTGACGACGAACAAATTATCCGAACTGGCTTGTCTAGCTTTGTATTTGATGTATGA
GAAGAAACAAGGAAAGAAATCAGTATGGTATCCCTATATAAGAGAACTTGATCGTCAAAGAGGA
AGAGGTCAGTTAGATGCGGAATCCCCTTTGCTGTGGTCAGAGGCTGAGTTAGATTACCTAACTG
GTAGTCCTACCAAGGCCGAAGTTCTTGAGAGGGCTGAAGGGATCAAAAGAGAATACAATGAGCT
TGACACTGTCTGGTTCATGGCTGGATCTTTGTTTCAGCAATACCCATTTGACATACCAACTGAA
GCTTTTTCATTTGAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTAC
AAAATGTCGGTTTGGCTCGTCGGTTTGCTTTGGTTCCTCTTGGTCCTCCCTTGTTGGCCTATTG
TTCCAACTGCAAGGCAATGCTTACTGCTGTTGATGGTGCTGTTGAACTCGTGGTAGATAGGCCA
TATAAGGCCGGGGATCCTATAGTTGTCTGGTGTGGGCCACAACCAAATGCGAAATTGCTTCTGA
ACTATGGATTTGTTGATGAGGATAACCCTTATGATAGAGTAATAGTTGAGGCAGCGTTGAACAC
TGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAA
GTATTTCAGGTTCGTGTGGGAAAAGAAAGAGAAGCTGTTCAAGACATGCTTCCCTACCTGCGGT
TGGGTTACATGTCTGATCCTTCTGAAATGCAGTCAGTAATTTCATCCCAAGGTCCAGTTTGTCC
G
						
					

						Genomic sequence
						
							CTGAACTGTTGACGACGAACAAATTATCCGAACTGGCTTGTCTAGCTTTGTATTTGATGTATGA
GAAGAAACAAGGAAAGAAATCAGTATGGTATCCCTATATAAGAGAACTTGATCGTCAAAGAGGA
AGAGGTCAGTTAGATGCGGAATCCCCTTTGCTGTGGTCAGAGGCTGAGTTAGATTACCTAACTG
GTAGTCCTACCAAGGTATTGCGTTAGTATATGCCGGACGTGTGATGAACTAGTATAGTGGGTTC
TTAGTGGTTAACTTCTTTAACATGGTTCAGGCCGAAGTTCTTGAGAGGGCTGAAGGGATCAAAA
GAGAATACAATGAGCTTGACACTGTCTGGTTCATGGCTGGATCTTTGTTTCAGGTGTTTGGCTA
CCTACGATTTCGGCTTCTTCTTGTCATTTTAATATATGGAATGCTAAACATCGGCCTCGGACTT
ACACCATTTTATTTGTGTTTTGCAGCAATACCCATTTGACATACCAACTGAAGCTTTTTCATTT
GAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTACAAGTAATTTTCA
TTCTTTTGGGGTTTACTTTTCACAACTTGAATGTCTTTCTGTATTTGAAAGAATAGTTAGAGTA
AAATATAATAATATGGTCTTACCTCTATTACTCTATCGCTGAATCTAAAGTTTAGCTTGCAGCT
CATCATTTAAGCAAGTAGTCAGGTGGTGCTTGTTGCTTCTTCTAATTTAGATTGTTATGCTTCT
TCTTGTACTCAGAATGTCGGTTTGGCTCGTCGGTTTGCTTTGGTTCCTCTTGGTCCTCCCTTGT
TGGCCTATTGTTCCAACTGCAAGGCAATGCTTACTGCTGTTGATGGTGCTGTTGAACTCGTGGT
AGATAGGCCATATAAGGCCGGGGATCCTATAGTTGTCTGGTGCGTCTGTAAGCCAAATTGCTTC
CTACAGCTAGCTTTTTCATTCTGATCTATTTTTCATACTTTTGCATTTCCTCCTTTATTTGAAG
GTGTGGGCCACAACCAAATGCGAAATTGCTTCTGAACTATGGATTTGTTGATGAGGATAACCCT
TATGATAGAGTAATAGTTGAGGTAATTACAAAACTTTGTTGCGTTACTGTAAACACTAGTGTAG
TGTTCATGTAATTCCTCACTGTTTGCATGTTTTATGCGTCATACACATTCAAGGCAGCGTTGAA
CACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAA
CAAGTATTTCAGGTATGACTTTCCCATGGCAACAAGTCTACTTTGAGATGTTCTGTCTGATTTT
GGTTTTGCATCCATCTCAGGTTCGTGTGGGAAAAGAAAGAGAAGCTGTTCAAGACATGCTTCCC
TACCTGCGGTTGGGTTACATGTCTGATCCTTCTGAAATGCAGTCAGTAATTTCATCCCAAGGTC
CAGTTTGTCCG
						
					

			
		

Sequences
Splice junction sequence	AGAAGCTGTTCAAGACATGCTTCCCTACCTGCGGTTGGGTTACATGTCTGATCCTTCTGAAATG CAGTCAGTAATTTCATCCCAAGGTCCAGTTTGTCCGctgaactgttgacgacgaacaaattatc cgaactggcttgtctagctttgtatttgatgtatgagaagaaacaaggaaagaaatcagtatgg tatcccta
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: 833 Transcript exons: 4601859-4602064,4602145-4602231,4602332-4602424,4602639- 4602793,4602883-4602967,4603064-4603150,4603222-4603341 CTGAACTGTTGACGACGAACAAATTATCCGAACTGGCTTGTCTAGCTTTGTATTTGATGTATGA GAAGAAACAAGGAAAGAAATCAGTATGGTATCCCTATATAAGAGAACTTGATCGTCAAAGAGGA AGAGGTCAGTTAGATGCGGAATCCCCTTTGCTGTGGTCAGAGGCTGAGTTAGATTACCTAACTG GTAGTCCTACCAAGGCCGAAGTTCTTGAGAGGGCTGAAGGGATCAAAAGAGAATACAATGAGCT TGACACTGTCTGGTTCATGGCTGGATCTTTGTTTCAGCAATACCCATTTGACATACCAACTGAA GCTTTTTCATTTGAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTAC AAAATGTCGGTTTGGCTCGTCGGTTTGCTTTGGTTCCTCTTGGTCCTCCCTTGTTGGCCTATTG TTCCAACTGCAAGGCAATGCTTACTGCTGTTGATGGTGCTGTTGAACTCGTGGTAGATAGGCCA TATAAGGCCGGGGATCCTATAGTTGTCTGGTGTGGGCCACAACCAAATGCGAAATTGCTTCTGA ACTATGGATTTGTTGATGAGGATAACCCTTATGATAGAGTAATAGTTGAGGCAGCGTTGAACAC TGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAACAA GTATTTCAGGTTCGTGTGGGAAAAGAAAGAGAAGCTGTTCAAGACATGCTTCCCTACCTGCGGT TGGGTTACATGTCTGATCCTTCTGAAATGCAGTCAGTAATTTCATCCCAAGGTCCAGTTTGTCC G
Genomic sequence	CTGAACTGTTGACGACGAACAAATTATCCGAACTGGCTTGTCTAGCTTTGTATTTGATGTATGA GAAGAAACAAGGAAAGAAATCAGTATGGTATCCCTATATAAGAGAACTTGATCGTCAAAGAGGA AGAGGTCAGTTAGATGCGGAATCCCCTTTGCTGTGGTCAGAGGCTGAGTTAGATTACCTAACTG GTAGTCCTACCAAGGTATTGCGTTAGTATATGCCGGACGTGTGATGAACTAGTATAGTGGGTTC TTAGTGGTTAACTTCTTTAACATGGTTCAGGCCGAAGTTCTTGAGAGGGCTGAAGGGATCAAAA GAGAATACAATGAGCTTGACACTGTCTGGTTCATGGCTGGATCTTTGTTTCAGGTGTTTGGCTA CCTACGATTTCGGCTTCTTCTTGTCATTTTAATATATGGAATGCTAAACATCGGCCTCGGACTT ACACCATTTTATTTGTGTTTTGCAGCAATACCCATTTGACATACCAACTGAAGCTTTTTCATTT GAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTACAAGTAATTTTCA TTCTTTTGGGGTTTACTTTTCACAACTTGAATGTCTTTCTGTATTTGAAAGAATAGTTAGAGTA AAATATAATAATATGGTCTTACCTCTATTACTCTATCGCTGAATCTAAAGTTTAGCTTGCAGCT CATCATTTAAGCAAGTAGTCAGGTGGTGCTTGTTGCTTCTTCTAATTTAGATTGTTATGCTTCT TCTTGTACTCAGAATGTCGGTTTGGCTCGTCGGTTTGCTTTGGTTCCTCTTGGTCCTCCCTTGT TGGCCTATTGTTCCAACTGCAAGGCAATGCTTACTGCTGTTGATGGTGCTGTTGAACTCGTGGT AGATAGGCCATATAAGGCCGGGGATCCTATAGTTGTCTGGTGCGTCTGTAAGCCAAATTGCTTC CTACAGCTAGCTTTTTCATTCTGATCTATTTTTCATACTTTTGCATTTCCTCCTTTATTTGAAG GTGTGGGCCACAACCAAATGCGAAATTGCTTCTGAACTATGGATTTGTTGATGAGGATAACCCT TATGATAGAGTAATAGTTGAGGTAATTACAAAACTTTGTTGCGTTACTGTAAACACTAGTGTAG TGTTCATGTAATTCCTCACTGTTTGCATGTTTTATGCGTCATACACATTCAAGGCAGCGTTGAA CACTGAGGATCCTCAATACCAGGACAAGAGAATGGTTGCTCAAAGGAACGGAAAATTATCCCAA CAAGTATTTCAGGTATGACTTTCCCATGGCAACAAGTCTACTTTGAGATGTTCTGTCTGATTTT GGTTTTGCATCCATCTCAGGTTCGTGTGGGAAAAGAAAGAGAAGCTGTTCAAGACATGCTTCCC TACCTGCGGTTGGGTTACATGTCTGATCCTTCTGAAATGCAGTCAGTAATTTCATCCCAAGGTC CAGTTTGTCCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.330295439

Conservation Information
Conserved circRNAs	NA
PMCS	0.330295439

			
						 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 AT5G14260_circ_g.5

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