Plant Circular RNA Database

Detail information of AT5G06600_circ_g.10

			
						 General Information
					
						CircRNA Name
						AT5G06600_circ_g.10
					
						ID in PlantcircBase
						ath_circ_036747
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 2022015-2022957  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT5G06600						
					
						Parent gene annotation
						
							Ubiquitin carboxyl-terminal hydrolase 12
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G06600_circ_g.1 AT5G06600_circ_g.2 AT5G06600_circ_g.3 AT5G06600_circ_g.4 AT5G06600_circ_g.5 AT5G06600_circ_g.6 AT5G06600_circ_g.7 AT5G06600_circ_g.8 AT5G06600_circ_g.9 AT5G06600_circ_g.11 AT5G06600_circ_g.12 AT5G06600_circ_g.13 AT5G06600_circ_g.14 AT5G06600_circ_g.15 AT5G06600_circ_g.16 AT5G06600_circ_g.17 AT5G06600_circ_g.18 AT5G06600_circ_g.19 AT5G06600_circ_g.20 						
					
						Support reads
						1
					
						Tissues
						whole_plant
					
						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
						AT5G06600.3:5
AT5G06600.2:5
AT5G06600.1:5

General Information
CircRNA Name	AT5G06600_circ_g.10
ID in PlantcircBase	ath_circ_036747
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 2022015-2022957 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder
Parent gene	AT5G06600
Parent gene annotation	Ubiquitin carboxyl-terminal hydrolase 12
Parent gene strand	-
Alternative splicing	AT5G06600_circ_g.1 AT5G06600_circ_g.2 AT5G06600_circ_g.3 AT5G06600_circ_g.4 AT5G06600_circ_g.5 AT5G06600_circ_g.6 AT5G06600_circ_g.7 AT5G06600_circ_g.8 AT5G06600_circ_g.9 AT5G06600_circ_g.11 AT5G06600_circ_g.12 AT5G06600_circ_g.13 AT5G06600_circ_g.14 AT5G06600_circ_g.15 AT5G06600_circ_g.16 AT5G06600_circ_g.17 AT5G06600_circ_g.18 AT5G06600_circ_g.19 AT5G06600_circ_g.20
Support reads	1
Tissues	whole_plant
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	AT5G06600.3:5 AT5G06600.2:5 AT5G06600.1:5

			
						 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  
						
							AAACTTTGCAACCACGCGTTCTTACCAGGTGCTCTACTTCCAAAAAAAGCTTGAGTTCTGCAGT
GTTTGCCTTATTAGATGCTTCCCTTATTTGTCCAACctgtctattctggacatattcaagaaac
gaaggcacagctgggtagaggcattcaatctccttgttaacaagaggtttctgaaagcaaatga
tatctcca

						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: 450
Transcript exons: 2022015-2022122,2022197-2022265,2022355-2022463,2022673-
2022761,2022883-2022957
CTGTCTATTCTGGACATATTCAAGAAACGAAGGCACAGCTGGGTAGAGGCATTCAATCTCCTTG
TTAACAAGAGGTTTCTGAAAGCAAATGATATCTCCATCTTCAATTTGACACAATCTGAATGAAG
TTTTCTTATCCAAGTGTTCGCACATAACACAAGGTTCAAACTTGATTTCCTCAAAAAGTTCTAT
TTCTTCATCAGGAGCAAAGCCAACCATTTCATTCAGTTTTCCAGTTATATCCATAGGCTTACTG
GAACTTTTCACCATCAGCCTGCCAGCATAGCTTAATACTGCCTTCTCGGGGTCATAAAGCTTGA
AGAAAAGAAGAATATCTTCTTTTGATTTTTCAGGAGGAGGAATAGGACGTAAATCCAGGTGCTC
TACTTCCAAAAAAAGCTTGAGTTCTGCAGTGTTTGCCTTATTAGATGCTTCCCTTATTTGTCCA
AC
						
						Genomic sequence
						
							CTGTCTATTCTGGACATATTCAAGAAACGAAGGCACAGCTGGGTAGAGGCATTCAATCTCCTTG
TTAACAAGAGGTTTCTGAAAGCAAATGATATCTCCATCTTCAATCTGCAAGCAAGAAACAAAAT
GTCACCAAAGAGAAACGCGACAGGAAGATTCAATAGATAAAAGTGAAATATTACTTGACACAAT
CTGAATGAAGTTTTCTTATCCAAGTGTTCGCACATAACACAAGGTTCAAACTTGATTTCCTGTA
AATAAGCCCAAAAACTGTTAAATAACATAATCAATAACCATATAAGCATAATAAAAAGGTTAAG
AGGCACCAGCAGCTGCAAACCTCAAAAAGTTCTATTTCTTCATCAGGAGCAAAGCCAACCATTT
CATTCAGTTTTCCAGTTATATCCATAGGCTTACTGGAACTTTTCACCATCAGCCTGCCAGCATA
GCTGGTAGCACAAGAAAAAAAAAATTACAAAAGAAAACAACGTATAGTGGATAAAACACAAGGG
ACAAAAGAAGACAAACAAATAGAAGTGTTTTTCTCACAAAAAAGCAAAGAAAGACCTCGTTCTT
GTGGAATATTTGTTACTTAAGTAGTGGTAGACCAATTTATATAAAAGCCAGAGGGAATAAATAA
GAGGGAACACAATACTACCTTAATACTGCCTTCTCGGGGTCATAAAGCTTGAAGAAAAGAAGAA
TATCTTCTTTTGATTTTTCAGGAGGAGGAATAGGACGTAAATCCTGTAATAATCAAGAATTAGT
AAAAAAAAACAAGTTAGCTCACCTTCTCTGTAACTAGCTTCTGTTTTCCTTTCAATGATAAGGG
TCTTAACAATTAAACTTTGCAACCACGCGTTCTTACCAGGTGCTCTACTTCCAAAAAAAGCTTG
AGTTCTGCAGTGTTTGCCTTATTAGATGCTTCCCTTATTTGTCCAAC

Sequences
Splice junction sequence	AAACTTTGCAACCACGCGTTCTTACCAGGTGCTCTACTTCCAAAAAAAGCTTGAGTTCTGCAGT GTTTGCCTTATTAGATGCTTCCCTTATTTGTCCAACctgtctattctggacatattcaagaaac gaaggcacagctgggtagaggcattcaatctccttgttaacaagaggtttctgaaagcaaatga tatctcca
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: 450 Transcript exons: 2022015-2022122,2022197-2022265,2022355-2022463,2022673- 2022761,2022883-2022957 CTGTCTATTCTGGACATATTCAAGAAACGAAGGCACAGCTGGGTAGAGGCATTCAATCTCCTTG TTAACAAGAGGTTTCTGAAAGCAAATGATATCTCCATCTTCAATTTGACACAATCTGAATGAAG TTTTCTTATCCAAGTGTTCGCACATAACACAAGGTTCAAACTTGATTTCCTCAAAAAGTTCTAT TTCTTCATCAGGAGCAAAGCCAACCATTTCATTCAGTTTTCCAGTTATATCCATAGGCTTACTG GAACTTTTCACCATCAGCCTGCCAGCATAGCTTAATACTGCCTTCTCGGGGTCATAAAGCTTGA AGAAAAGAAGAATATCTTCTTTTGATTTTTCAGGAGGAGGAATAGGACGTAAATCCAGGTGCTC TACTTCCAAAAAAAGCTTGAGTTCTGCAGTGTTTGCCTTATTAGATGCTTCCCTTATTTGTCCA AC
Genomic sequence	CTGTCTATTCTGGACATATTCAAGAAACGAAGGCACAGCTGGGTAGAGGCATTCAATCTCCTTG TTAACAAGAGGTTTCTGAAAGCAAATGATATCTCCATCTTCAATCTGCAAGCAAGAAACAAAAT GTCACCAAAGAGAAACGCGACAGGAAGATTCAATAGATAAAAGTGAAATATTACTTGACACAAT CTGAATGAAGTTTTCTTATCCAAGTGTTCGCACATAACACAAGGTTCAAACTTGATTTCCTGTA AATAAGCCCAAAAACTGTTAAATAACATAATCAATAACCATATAAGCATAATAAAAAGGTTAAG AGGCACCAGCAGCTGCAAACCTCAAAAAGTTCTATTTCTTCATCAGGAGCAAAGCCAACCATTT CATTCAGTTTTCCAGTTATATCCATAGGCTTACTGGAACTTTTCACCATCAGCCTGCCAGCATA GCTGGTAGCACAAGAAAAAAAAAATTACAAAAGAAAACAACGTATAGTGGATAAAACACAAGGG ACAAAAGAAGACAAACAAATAGAAGTGTTTTTCTCACAAAAAAGCAAAGAAAGACCTCGTTCTT GTGGAATATTTGTTACTTAAGTAGTGGTAGACCAATTTATATAAAAGCCAGAGGGAATAAATAA GAGGGAACACAATACTACCTTAATACTGCCTTCTCGGGGTCATAAAGCTTGAAGAAAAGAAGAA TATCTTCTTTTGATTTTTCAGGAGGAGGAATAGGACGTAAATCCTGTAATAATCAAGAATTAGT AAAAAAAAACAAGTTAGCTCACCTTCTCTGTAACTAGCTTCTGTTTTCCTTTCAATGATAAGGG TCTTAACAATTAAACTTTGCAACCACGCGTTCTTACCAGGTGCTCTACTTCCAAAAAAAGCTTG AGTTCTGCAGTGTTTGCCTTATTAGATGCTTCCCTTATTTGTCCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.254715573

Conservation Information
Conserved circRNAs	NA
PMCS	0.254715573

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2022448-2022017(-)
						
						Potential amino acid sequence
						
							MVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIICFQ
KPLVNKEIECLYPAVPSFLEYVQNRQVGQIREASNKANTAELKLFLEVEHLDLRPIPPPEKSKE
DILLFFKLYDPEKAVLSYAGRLMVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCE
HLDKKTSFRLCQIEDGDIICFQKPLVNKEIECLYPAVPSFLEYVQNRQVGQIREASNKANTAEL
KLFLEVEHLDLRPIPPPEKSKEDILLFFKLYDPEKAVLSYAGRLMVKSSSKPMDITGKLNEMVG
FAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIICFQKPLVNKEIECLYPAVPSFLE
YVQNRQVGQIREASNKANTAELKLFLEVEHLDLRPIPPPEKSKEDILLFFKLYDPEKAVLSYAG
RLMVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIIC
FQKPLVNKEIECLYPAVPSFLEYVQNRQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2022448-2022017(-)
Potential amino acid sequence	MVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIICFQ KPLVNKEIECLYPAVPSFLEYVQNRQVGQIREASNKANTAELKLFLEVEHLDLRPIPPPEKSKE DILLFFKLYDPEKAVLSYAGRLMVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCE HLDKKTSFRLCQIEDGDIICFQKPLVNKEIECLYPAVPSFLEYVQNRQVGQIREASNKANTAEL KLFLEVEHLDLRPIPPPEKSKEDILLFFKLYDPEKAVLSYAGRLMVKSSSKPMDITGKLNEMVG FAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIICFQKPLVNKEIECLYPAVPSFLE YVQNRQVGQIREASNKANTAELKLFLEVEHLDLRPIPPPEKSKEDILLFFKLYDPEKAVLSYAG RLMVKSSSKPMDITGKLNEMVGFAPDEEIELFEEIKFEPCVMCEHLDKKTSFRLCQIEDGDIIC FQKPLVNKEIECLYPAVPSFLEYVQNRQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G06600_circ_g.10

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