Plant Circular RNA Database

Detail information of AT5G35200_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT5G35200_circ_g.7
					
						ID in PlantcircBase
						ath_circ_041027
					
						Alias
						5:13463619-13465612
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 13463619-13465612  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G35200						
					
						Parent gene annotation
						
							Putative clathrin assembly protein At5g35200
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G35200_circ_g.2 AT5G35200_circ_g.3 AT5G35200_circ_g.4 AT5G35200_circ_g.5 AT5G35200_circ_g.6 5_circ_ag.8 AT5G35200_circ_g.9 AT5G35200_circ_g.10 AT5G35200_circ_g.11 AT5G35200_circ_g.12 AT5G35200_circ_g.13 AT5G35200_circ_g.14 AT5G35200_circ_g.15 AT5G35200_circ_g.16 AT5G35200_circ_g.17 AT5G35200_circ_g.18 AT5G35200_circ_g.19 5_circ_ag.20 AT5G35210_circ_g.1 AT5G35210_circ_g.2 5_circ_ag.3 AT5G35210_circ_g.4 5_circ_ag.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 5_circ_ag.9 AT5G35210_circ_g.10 AT5G35210_circ_g.11 AT5G35210_circ_g.12 AT5G35210_circ_g.13 AT5G35210_circ_g.14 AT5G35210_circ_g.15 AT5G35210_circ_g.16 AT5G35210_circ_g.17 AT5G35210_circ_g.18 						
					
						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
						AT5G35200.2:11
AT5G35200.1:11

General Information
CircRNA Name	AT5G35200_circ_g.7
ID in PlantcircBase	ath_circ_041027
Alias	5:13463619-13465612
Organism	Arabidpsis thaliana
Position	chr5: 13463619-13465612 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G35200
Parent gene annotation	Putative clathrin assembly protein At5g35200
Parent gene strand	-
Alternative splicing	AT5G35200_circ_g.2 AT5G35200_circ_g.3 AT5G35200_circ_g.4 AT5G35200_circ_g.5 AT5G35200_circ_g.6 5_circ_ag.8 AT5G35200_circ_g.9 AT5G35200_circ_g.10 AT5G35200_circ_g.11 AT5G35200_circ_g.12 AT5G35200_circ_g.13 AT5G35200_circ_g.14 AT5G35200_circ_g.15 AT5G35200_circ_g.16 AT5G35200_circ_g.17 AT5G35200_circ_g.18 AT5G35200_circ_g.19 5_circ_ag.20 AT5G35210_circ_g.1 AT5G35210_circ_g.2 5_circ_ag.3 AT5G35210_circ_g.4 5_circ_ag.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 5_circ_ag.9 AT5G35210_circ_g.10 AT5G35210_circ_g.11 AT5G35210_circ_g.12 AT5G35210_circ_g.13 AT5G35210_circ_g.14 AT5G35210_circ_g.15 AT5G35210_circ_g.16 AT5G35210_circ_g.17 AT5G35210_circ_g.18
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	AT5G35200.2:11 AT5G35200.1:11

			
						 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  
						
							TGTGGTGGTATCTTTAATAGCTCCAAGATACCTCCTTAAACTACTCTGTGATCCACCACCACCT
GACATTTCGTTTCTCCCTCCTTAAACAATAGAAACCctgctctttcttgacccctgctgctaat
ggtgcttctttcacatactcttccattgcttgtagaaaagaagtgggaggcttcatacaaaaca
agatatgg

									
								

					

						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: 970
Transcript exons: 13463619-13463696,13463778-13463858,13463951-13464016,13
464094-13464159,13464252-13464302,13464417-13464500,1346
4587-13464687,13464775-13464916,13465133-13465230,134653
42-13465411,13465480-13465612
CTGCTCTTTCTTGACCCCTGCTGCTAATGGTGCTTCTTTCACATACTCTTCCATTGCTTGTAGA
AAAGAAGTGGGAGGCTGCTCAATCTTTATAAATCTCTCTCCACGTCCAACATTAACACTTTTGC
AAACTTCGAAAAATTCAGAAAGCCTCCCTGCCTGTTTTACCGCTCGTCTGTACATATCCAAAGC
CTTCACAGCATCATTCCGTTGCATATCAAAGAACTTATCAACCAAATTGTCTATGCCATCTGTC
AGTGCTTGATATATTTTAGTGCTCTCAGATATAACCATTGAGAGTGCCAATTGGATAATGTGGT
TTTGAACAGCTGCCCCTTCAGGCTGACAGTCAAGAACACGGAAAAGAAGTTCTTGCAGAGCAGG
AAGTTGCTCGAGCAAATCAGGAGTGTCCAAATCTTTGGTTCTTGGGGGGTCAACCTCAACATCG
TACTTCAAAACACGGAAACACTCTAATCGCTCCTCTAAGAATAGAGCATAGAAACGGACCCAAG
CAGAATAAGCCCAAGCATTTGGACCAGAATCATCTTTAAAATGAGACATATTCAGCATATGACT
TCTGCTTCTGCTATAATTAATAACTTCTTCATGAAATGTCTGGTCCACTTCTCTCAAGGCACGG
TGAATAACAATAAGAGTTTTCAGTGCAACCGCCCAGTTATGTGTTCTTGATAACCGCCTAGCAA
GAGCATGGATACAATAAGCCACATCTGCACGAGGCCTTGTTGCTGAAATAGCCATAAAAATAGC
TCTGATGTATCTTTCTTTAGAAGGACGTTCCACATGATTAGTAGCCTTCACAATAGCAATATCC
AATTCCTTGTAATCACTATTGACCTTAGCTAATGAAACTGTGGTGGTATCTTTAATAGCTCCAA
GATACCTCCTTAAACTACTCTGTGATCCACCACCACCTGACATTTCGTTTCTCCCTCCTTAAAC
AATAGAAACC
						
					

						Genomic sequence
						
							CTGCTCTTTCTTGACCCCTGCTGCTAATGGTGCTTCTTTCACATACTCTTCCATTGCTTGTAGA
AAAGAAGTGGGAGGCTTCATACAAAACAAGATATGGTGAGGAAAAAGCTCAGACAAATAACCGA
ATAAATATTCACATTTGTAAGAAAATCCAACCTGCTCAATCTTTATAAATCTCTCTCCACGTCC
AACATTAACACTTTTGCAAACTTCGAAAAATTCAGAAAGCCTCCCTGCCTGAACGACCAATGAA
ACCAAACTTAAGGGGGTTCTTATGCCACACAAACGTGAAAGAAGAAACCAACATACCAGTCAGA
GGTTGTATGTACCTGTTTTACCGCTCGTCTGTACATATCCAAAGCCTTCACAGCATCATTCCGT
TGCATATCAAAGAACTGTCATCAAGGAAAAATTGTGTTTGAATAAGTCAGGAAAGGTAGAAAAT
ATATACAGAAAAAGAGCTTTTGCGTACCTTATCAACCAAATTGTCTATGCCATCTGTCAGTGCT
TGATATATTTTAGTGCTCTCAGATATAACCTAATCGGTGAGAAGTAGATTGAAAATCATAAATG
CTGTTAACCATATTTAATCGAGGAGCTATTAACTCCAGTTAATTGTATATAGCATACCATTGAG
AGTGCCAATTGGATAATGTGGTTTTGAACAGCTGCCCCTTCAGGCTGCAAAGATGCACCAATGT
TGAATGAGTGTAAAAGAGATACAAATCTTATCCATTGCTAAGAAAATCAACATCAAACACAACA
GAAGAAGTAGATGCTGAGTTGGATTATCACCTGACAGTCAAGAACACGGAAAAGAAGTTCTTGC
AGAGCAGGAAGTTGCTCGAGCAAATCAGGAGTGTCCAAATCTTTGGTTCTCTGTATTTATAGCA
CGTTCTTGTGATTTCAAGAGTGAAAGAAAACTCTGAGAGCTCATAACAAAAGAGATGTAACCAG
ACACTTACTGGGGGGTCAACCTCAACATCGTACTTCAAAACACGGAAACACTCTAATCGCTCCT
CTAAGAATAGAGCATAGAAACGGACCCAAGCAGAATAAGCCCAAGCTGAAAATAGGGGTGAAAG
AAAGATAAGTGAACCAAAGAGCTTCTTGTATAAAAAAGATTCAACGAAAGTAAAAAGCAGTCTA
CTACCATTTGGACCAGAATCATCTTTAAAATGAGACATATTCAGCATATGACTTCTGCTTCTGC
TATAATTAATAACTTCTTCATGAAATGTCTGGTCCACTTCTCTCAAGGCACGGTGAATAACAAT
AAGAGTTTTCAGTGCAACCTGTAAAACTAAGGAGAATCAGTGGCAAGTACTAAATAGAAAACAG
CCACCTTTTCTTTACAACGATAGATAATCAACCGAAAATGAAGCTGTAGACAGATCATACACAC
CTAACAAACTAAGAATTCCCAACTACTGGTACATATCTAGCAATTCCAGTTGTTTCCAGAGTTC
TAATAAGTAAACCTATAGGAAGGCCATAGAAAAAGCCATTACCGCCCAGTTATGTGTTCTTGAT
AACCGCCTAGCAAGAGCATGGATACAATAAGCCACATCTGCACGAGGCCTTGTTGCTGAAATAG
CCATAAAAATAGCTGCAAAGAGACACACACAACTTGTAATACGCCATTTGGTATATCGAAATCA
ATGGCGCAAAAGAACATTTGCAACCAAGGCACTAACCATCTATGATCTATGATACCCACCTCTG
ATGTATCTTTCTTTAGAAGGACGTTCCACATGATTAGTAGCCTTCACAATAGCAATATCCAATT
CCTGCAAAACAAACCGTTGTTAGCTTAAGCAAAAACAGAATTCACTTGGGAACAAAGTTAGTTT
TTTACCTTGTAATCACTATTGACCTTAGCTAATGAAACTGTGGTGGTATCTTTAATAGCTCCAA
GATACCTCCTTAAACTACTCTGTGATCCACCACCACCTGACATTTCGTTTCTCCCTCCTTAAAC
AATAGAAACC
						
					

			
		

Sequences
Splice junction sequence	TGTGGTGGTATCTTTAATAGCTCCAAGATACCTCCTTAAACTACTCTGTGATCCACCACCACCT GACATTTCGTTTCTCCCTCCTTAAACAATAGAAACCctgctctttcttgacccctgctgctaat ggtgcttctttcacatactcttccattgcttgtagaaaagaagtgggaggcttcatacaaaaca agatatgg
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: 970 Transcript exons: 13463619-13463696,13463778-13463858,13463951-13464016,13 464094-13464159,13464252-13464302,13464417-13464500,1346 4587-13464687,13464775-13464916,13465133-13465230,134653 42-13465411,13465480-13465612 CTGCTCTTTCTTGACCCCTGCTGCTAATGGTGCTTCTTTCACATACTCTTCCATTGCTTGTAGA AAAGAAGTGGGAGGCTGCTCAATCTTTATAAATCTCTCTCCACGTCCAACATTAACACTTTTGC AAACTTCGAAAAATTCAGAAAGCCTCCCTGCCTGTTTTACCGCTCGTCTGTACATATCCAAAGC CTTCACAGCATCATTCCGTTGCATATCAAAGAACTTATCAACCAAATTGTCTATGCCATCTGTC AGTGCTTGATATATTTTAGTGCTCTCAGATATAACCATTGAGAGTGCCAATTGGATAATGTGGT TTTGAACAGCTGCCCCTTCAGGCTGACAGTCAAGAACACGGAAAAGAAGTTCTTGCAGAGCAGG AAGTTGCTCGAGCAAATCAGGAGTGTCCAAATCTTTGGTTCTTGGGGGGTCAACCTCAACATCG TACTTCAAAACACGGAAACACTCTAATCGCTCCTCTAAGAATAGAGCATAGAAACGGACCCAAG CAGAATAAGCCCAAGCATTTGGACCAGAATCATCTTTAAAATGAGACATATTCAGCATATGACT TCTGCTTCTGCTATAATTAATAACTTCTTCATGAAATGTCTGGTCCACTTCTCTCAAGGCACGG TGAATAACAATAAGAGTTTTCAGTGCAACCGCCCAGTTATGTGTTCTTGATAACCGCCTAGCAA GAGCATGGATACAATAAGCCACATCTGCACGAGGCCTTGTTGCTGAAATAGCCATAAAAATAGC TCTGATGTATCTTTCTTTAGAAGGACGTTCCACATGATTAGTAGCCTTCACAATAGCAATATCC AATTCCTTGTAATCACTATTGACCTTAGCTAATGAAACTGTGGTGGTATCTTTAATAGCTCCAA GATACCTCCTTAAACTACTCTGTGATCCACCACCACCTGACATTTCGTTTCTCCCTCCTTAAAC AATAGAAACC
Genomic sequence	CTGCTCTTTCTTGACCCCTGCTGCTAATGGTGCTTCTTTCACATACTCTTCCATTGCTTGTAGA AAAGAAGTGGGAGGCTTCATACAAAACAAGATATGGTGAGGAAAAAGCTCAGACAAATAACCGA ATAAATATTCACATTTGTAAGAAAATCCAACCTGCTCAATCTTTATAAATCTCTCTCCACGTCC AACATTAACACTTTTGCAAACTTCGAAAAATTCAGAAAGCCTCCCTGCCTGAACGACCAATGAA ACCAAACTTAAGGGGGTTCTTATGCCACACAAACGTGAAAGAAGAAACCAACATACCAGTCAGA GGTTGTATGTACCTGTTTTACCGCTCGTCTGTACATATCCAAAGCCTTCACAGCATCATTCCGT TGCATATCAAAGAACTGTCATCAAGGAAAAATTGTGTTTGAATAAGTCAGGAAAGGTAGAAAAT ATATACAGAAAAAGAGCTTTTGCGTACCTTATCAACCAAATTGTCTATGCCATCTGTCAGTGCT TGATATATTTTAGTGCTCTCAGATATAACCTAATCGGTGAGAAGTAGATTGAAAATCATAAATG CTGTTAACCATATTTAATCGAGGAGCTATTAACTCCAGTTAATTGTATATAGCATACCATTGAG AGTGCCAATTGGATAATGTGGTTTTGAACAGCTGCCCCTTCAGGCTGCAAAGATGCACCAATGT TGAATGAGTGTAAAAGAGATACAAATCTTATCCATTGCTAAGAAAATCAACATCAAACACAACA GAAGAAGTAGATGCTGAGTTGGATTATCACCTGACAGTCAAGAACACGGAAAAGAAGTTCTTGC AGAGCAGGAAGTTGCTCGAGCAAATCAGGAGTGTCCAAATCTTTGGTTCTCTGTATTTATAGCA CGTTCTTGTGATTTCAAGAGTGAAAGAAAACTCTGAGAGCTCATAACAAAAGAGATGTAACCAG ACACTTACTGGGGGGTCAACCTCAACATCGTACTTCAAAACACGGAAACACTCTAATCGCTCCT CTAAGAATAGAGCATAGAAACGGACCCAAGCAGAATAAGCCCAAGCTGAAAATAGGGGTGAAAG AAAGATAAGTGAACCAAAGAGCTTCTTGTATAAAAAAGATTCAACGAAAGTAAAAAGCAGTCTA CTACCATTTGGACCAGAATCATCTTTAAAATGAGACATATTCAGCATATGACTTCTGCTTCTGC TATAATTAATAACTTCTTCATGAAATGTCTGGTCCACTTCTCTCAAGGCACGGTGAATAACAAT AAGAGTTTTCAGTGCAACCTGTAAAACTAAGGAGAATCAGTGGCAAGTACTAAATAGAAAACAG CCACCTTTTCTTTACAACGATAGATAATCAACCGAAAATGAAGCTGTAGACAGATCATACACAC CTAACAAACTAAGAATTCCCAACTACTGGTACATATCTAGCAATTCCAGTTGTTTCCAGAGTTC TAATAAGTAAACCTATAGGAAGGCCATAGAAAAAGCCATTACCGCCCAGTTATGTGTTCTTGAT AACCGCCTAGCAAGAGCATGGATACAATAAGCCACATCTGCACGAGGCCTTGTTGCTGAAATAG CCATAAAAATAGCTGCAAAGAGACACACACAACTTGTAATACGCCATTTGGTATATCGAAATCA ATGGCGCAAAAGAACATTTGCAACCAAGGCACTAACCATCTATGATCTATGATACCCACCTCTG ATGTATCTTTCTTTAGAAGGACGTTCCACATGATTAGTAGCCTTCACAATAGCAATATCCAATT CCTGCAAAACAAACCGTTGTTAGCTTAAGCAAAAACAGAATTCACTTGGGAACAAAGTTAGTTT TTTACCTTGTAATCACTATTGACCTTAGCTAATGAAACTGTGGTGGTATCTTTAATAGCTCCAA GATACCTCCTTAAACTACTCTGTGATCCACCACCACCTGACATTTCGTTTCTCCCTCCTTAAAC AATAGAAACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.198628656

Conservation Information
Conserved circRNAs	NA
PMCS	0.198628656

			
						 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 AT5G35200_circ_g.7

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