Plant Circular RNA Database

Detail information of AT5G17920_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G17920_circ_g.3
					
						ID in PlantcircBase
						ath_circ_038881
					
						Alias
						5:5935762-5938099
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 5935762-5938099  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G17920						
					
						Parent gene annotation
						
							5-methyltetrahydropteroyltriglutamate--homocysteine methyltransf
erase 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G17920_circ_g.2 AT5G17920_circ_g.4 AT5G17920_circ_g.5 AT5G17920_circ_g.6 AT5G17920_circ_g.7 AT5G17920_circ_g.8 AT5G17920_circ_g.9 AT5G17920_circ_g.10 AT5G17920_circ_g.11 AT5G17920_circ_g.12 AT5G17920_circ_g.13 AT5G17920_circ_g.14 AT5G17920_circ_g.15 AT5G17920_circ_g.16 AT5G17920_circ_g.17 AT5G17920_circ_g.18 AT5G17920_circ_g.19 AT5G17920_circ_g.20 AT5G17920_circ_g.21 AT5G17920_circ_g.22 AT5G17920_circ_g.23 AT5G17920_circ_g.24 AT5G17920_circ_g.25 AT5G17920_circ_g.26 AT5G17920_circ_g.27 AT5G17920_circ_g.28 AT5G17920_circ_g.29 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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
						AT5G17920.2:8
AT5G17920.1:8

General Information
CircRNA Name	AT5G17920_circ_g.3
ID in PlantcircBase	ath_circ_038881
Alias	5:5935762-5938099
Organism	Arabidpsis thaliana
Position	chr5: 5935762-5938099 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G17920
Parent gene annotation	5-methyltetrahydropteroyltriglutamate--homocysteine methyltransf erase 1
Parent gene strand	+
Alternative splicing	AT5G17920_circ_g.2 AT5G17920_circ_g.4 AT5G17920_circ_g.5 AT5G17920_circ_g.6 AT5G17920_circ_g.7 AT5G17920_circ_g.8 AT5G17920_circ_g.9 AT5G17920_circ_g.10 AT5G17920_circ_g.11 AT5G17920_circ_g.12 AT5G17920_circ_g.13 AT5G17920_circ_g.14 AT5G17920_circ_g.15 AT5G17920_circ_g.16 AT5G17920_circ_g.17 AT5G17920_circ_g.18 AT5G17920_circ_g.19 AT5G17920_circ_g.20 AT5G17920_circ_g.21 AT5G17920_circ_g.22 AT5G17920_circ_g.23 AT5G17920_circ_g.24 AT5G17920_circ_g.25 AT5G17920_circ_g.26 AT5G17920_circ_g.27 AT5G17920_circ_g.28 AT5G17920_circ_g.29
Support reads	2
Tissues	seedling
Exon boundary	No-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	AT5G17920.2:8 AT5G17920.1:8

			
						 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  
						
							AGAGGAGGACTACGTTAAAGCCATCAAGGAAGAGATCAAGAAAGTTGTTGACCTCCAAGAGGAA
CTTGACATCGATGTTCTTGTCCACGGAGAGCCAGAGaaaatcaaaatggcttcacacattgttg
gatacccacgtatgggccctaagagagagctcaagtttgcattggaatctttctgggatggtaa
gagcactg

									
								

					

						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
						
							AAAATCAAAATGGCTTCACACATTGTTGGATACCCACGTATGGGCCCTAAGAGAGAGCTCAAGT
TTGCATTGGAATCTTTCTGGGATGGTAAGAGCACTGCTGAGGATCTTCAGAAGGTGTCTGCTGA
TCTCAGGTCATCCATCTGGAAACAGATGTCTGCCGCTGGGACTAAGTTCATCCCTAGCAACACC
TTTGCTCACTACGACCAGGTTCTTGACACCACCGCCATGCTCGGTGCTGTTCCACCTAGGTATG
GATACACTGGTGGTGAGATCGGCCTTGATGTTTACTTCTCCATGGCTAGAGGAAATGCCTCTGT
GCCTGCCATGGAAATGACCAAGTGGTTCGACACCAACTAGTGAGTCTTCATTGATCTCTTGTGT
TCTTTTTGTTGACATTGGTCTTTTTGAGTTGTGGACTAATTTGATTATGCTTTTGTTGATGCAG
CCATTACATCGTCCCTGAGTTGGGCCCTGAGGTTAACTTCTCTTACGCATCCCACAAGGCGGTG
AATGAGTACAAGGAGGCCAAGGCTGTACGTATCATTCTTTACTAATATCCGTTTCTTAGGAAAT
TACTGTTTGCTCGTCTAATTAACTATTAGAGATCATAGGCTTTAGTTTGAGGATATAGTGTTTA
AGCTTAGATTCATTGAGTGGTGTTTCACTGAGGATGCTAATATGCTAGGAAGGTCTCGGATGCA
TTGAATATAAAAACCGTTAGAAAAGTCATCTGGCACTGGTTGTCTAAAGTAGTTTTTTTTTCTA
CGAAGTTCTGATCTGGTTTACTTGATGTTTATGCAGCTTGGTGTTGACACCGTCCCTGTACTTG
TTGGCCCAGTCTCTTACTTGCTGCTTTCCAAGGCTGCCAAGGGTGTTGACAAGTCATTCGAACT
TCTTTCTCTTCTCCCTAAGATTCTCCCGATCTACAAGTAAGAAATCACTTTATTGTTTTTCTTT
ATTATGCCATCCGTATCCTTGATGTTATCAATGATCCTCTGACATACCACTGATATAATGACTT
TGATTTGTGTACAGGGAAGTGATTACCGAGCTTAAGGCTGCTGGTGCCACCTGGATTCAGCTTG
ACGAGCCTGTCCTTGTTATGGATCTTGAGGGTCAGAAACTCCAGGCCTTTACTGGTGCCTATGC
TGAACTTGAATCAACTCTTTCTGGTTTGAATGTTCTTGTCGAGACCTACTTCGCTGATATCCCT
GCTGAGGCATACAAGACCCTAACCTCATTGAAGGGTGTGACTGCCTTTGGATTTGATTTGGTTC
GTGGCACCAAGACCCTTGATTTGGTCAAGGCAGGTTTCCCTGAGGGAAAGTACCTCTTTGCTGG
TGTTGTTGATGGAAGGAACATCTGGGCCAACGACTTTGCTGCGTCCCTAAGCACCTTGCAGGCA
CTTGAAGGCATTGTTGGTAAAGGTAATTGTTCTTCCAAAATCATCTGCCTTTTACCTGACATTA
CTAGGGAATTATTGAAAAACAACTGTATGAAATGTTGATCTGTTGTCTTTTTGATGCAGACAAG
CTTGTGGTCTCAACCTCCTGCTCTCTTCTCCACACCGCTGTTGATCTTATCAATGAGACTAAGC
TTGATGATGAAATCAAGTCATGGTTGGCGTTTGCTGCCCAGAAGGTCGTTGAAGTGAACGCTTT
GGCCAAGGCTTTGGCTGGTCAGAAGGACGAGGTATTTTACCCACATGCTCCCCTAGTAGTGGAC
CCTTGAATTATCTGTAGTGTAATTGATCCAGAAAAATCTAGAACTCAATATTTTTTTTCTTTCA
GGCTCTTTTCTCTGCCAATGCTGCGGCTTTGGCTTCAAGGAGATCTTCCCCAAGAGTCACCAAC
GAGGGTGTCCAGAAGGCTGTAAGTTTGATTTCAAACTGATGCACTGTGCTCACCCAATGGTTTA
TTTTCCTAATCTTGTATTGATTGAGATAGTTTCTCATTCTTGTTATCTCAGGCTGCTGCTTTGA
AGGGATCTGACCACCGTCGTGCAACCAATGTTAGTGCTAGGCTAGATGCTCAGCAGAAGAAGCT
CAATCTCCCAATCCTACCAACCACAACCATTGGATCCTTCCCACAGACTGTAGAGCTCAGGAGA
GTTCGTCGTGAGTACAAGGCCAAAAAGTTAGTCTCCTAAATTTAATCCTTGGGCTTATGCGTCA
CACATTTTCTTAAATTGTTGTGATGCTAATGGTTTCTTTAATCTCTCTTTTACTAGGGTCTCAG
AGGAGGACTACGTTAAAGCCATCAAGGAAGAGATCAAGAAAGTTGTTGACCTCCAAGAGGAACT
TGACATCGATGTTCTTGTCCACGGAGAGCCAGAG
						
					

			
		

Sequences
Splice junction sequence	AGAGGAGGACTACGTTAAAGCCATCAAGGAAGAGATCAAGAAAGTTGTTGACCTCCAAGAGGAA CTTGACATCGATGTTCTTGTCCACGGAGAGCCAGAGaaaatcaaaatggcttcacacattgttg gatacccacgtatgggccctaagagagagctcaagtttgcattggaatctttctgggatggtaa gagcactg
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	AAAATCAAAATGGCTTCACACATTGTTGGATACCCACGTATGGGCCCTAAGAGAGAGCTCAAGT TTGCATTGGAATCTTTCTGGGATGGTAAGAGCACTGCTGAGGATCTTCAGAAGGTGTCTGCTGA TCTCAGGTCATCCATCTGGAAACAGATGTCTGCCGCTGGGACTAAGTTCATCCCTAGCAACACC TTTGCTCACTACGACCAGGTTCTTGACACCACCGCCATGCTCGGTGCTGTTCCACCTAGGTATG GATACACTGGTGGTGAGATCGGCCTTGATGTTTACTTCTCCATGGCTAGAGGAAATGCCTCTGT GCCTGCCATGGAAATGACCAAGTGGTTCGACACCAACTAGTGAGTCTTCATTGATCTCTTGTGT TCTTTTTGTTGACATTGGTCTTTTTGAGTTGTGGACTAATTTGATTATGCTTTTGTTGATGCAG CCATTACATCGTCCCTGAGTTGGGCCCTGAGGTTAACTTCTCTTACGCATCCCACAAGGCGGTG AATGAGTACAAGGAGGCCAAGGCTGTACGTATCATTCTTTACTAATATCCGTTTCTTAGGAAAT TACTGTTTGCTCGTCTAATTAACTATTAGAGATCATAGGCTTTAGTTTGAGGATATAGTGTTTA AGCTTAGATTCATTGAGTGGTGTTTCACTGAGGATGCTAATATGCTAGGAAGGTCTCGGATGCA TTGAATATAAAAACCGTTAGAAAAGTCATCTGGCACTGGTTGTCTAAAGTAGTTTTTTTTTCTA CGAAGTTCTGATCTGGTTTACTTGATGTTTATGCAGCTTGGTGTTGACACCGTCCCTGTACTTG TTGGCCCAGTCTCTTACTTGCTGCTTTCCAAGGCTGCCAAGGGTGTTGACAAGTCATTCGAACT TCTTTCTCTTCTCCCTAAGATTCTCCCGATCTACAAGTAAGAAATCACTTTATTGTTTTTCTTT ATTATGCCATCCGTATCCTTGATGTTATCAATGATCCTCTGACATACCACTGATATAATGACTT TGATTTGTGTACAGGGAAGTGATTACCGAGCTTAAGGCTGCTGGTGCCACCTGGATTCAGCTTG ACGAGCCTGTCCTTGTTATGGATCTTGAGGGTCAGAAACTCCAGGCCTTTACTGGTGCCTATGC TGAACTTGAATCAACTCTTTCTGGTTTGAATGTTCTTGTCGAGACCTACTTCGCTGATATCCCT GCTGAGGCATACAAGACCCTAACCTCATTGAAGGGTGTGACTGCCTTTGGATTTGATTTGGTTC GTGGCACCAAGACCCTTGATTTGGTCAAGGCAGGTTTCCCTGAGGGAAAGTACCTCTTTGCTGG TGTTGTTGATGGAAGGAACATCTGGGCCAACGACTTTGCTGCGTCCCTAAGCACCTTGCAGGCA CTTGAAGGCATTGTTGGTAAAGGTAATTGTTCTTCCAAAATCATCTGCCTTTTACCTGACATTA CTAGGGAATTATTGAAAAACAACTGTATGAAATGTTGATCTGTTGTCTTTTTGATGCAGACAAG CTTGTGGTCTCAACCTCCTGCTCTCTTCTCCACACCGCTGTTGATCTTATCAATGAGACTAAGC TTGATGATGAAATCAAGTCATGGTTGGCGTTTGCTGCCCAGAAGGTCGTTGAAGTGAACGCTTT GGCCAAGGCTTTGGCTGGTCAGAAGGACGAGGTATTTTACCCACATGCTCCCCTAGTAGTGGAC CCTTGAATTATCTGTAGTGTAATTGATCCAGAAAAATCTAGAACTCAATATTTTTTTTCTTTCA GGCTCTTTTCTCTGCCAATGCTGCGGCTTTGGCTTCAAGGAGATCTTCCCCAAGAGTCACCAAC GAGGGTGTCCAGAAGGCTGTAAGTTTGATTTCAAACTGATGCACTGTGCTCACCCAATGGTTTA TTTTCCTAATCTTGTATTGATTGAGATAGTTTCTCATTCTTGTTATCTCAGGCTGCTGCTTTGA AGGGATCTGACCACCGTCGTGCAACCAATGTTAGTGCTAGGCTAGATGCTCAGCAGAAGAAGCT CAATCTCCCAATCCTACCAACCACAACCATTGGATCCTTCCCACAGACTGTAGAGCTCAGGAGA GTTCGTCGTGAGTACAAGGCCAAAAAGTTAGTCTCCTAAATTTAATCCTTGGGCTTATGCGTCA CACATTTTCTTAAATTGTTGTGATGCTAATGGTTTCTTTAATCTCTCTTTTACTAGGGTCTCAG AGGAGGACTACGTTAAAGCCATCAAGGAAGAGATCAAGAAAGTTGTTGACCTCCAAGAGGAACT TGACATCGATGTTCTTGTCCACGGAGAGCCAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.243083273

Conservation Information
Conserved circRNAs	NA
PMCS	0.243083273

			
						 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 AT5G17920_circ_g.3

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