Plant Circular RNA Database

Detail information of 4_circ_ag.6

			
						 General Information
					
						CircRNA Name
						4_circ_ag.6
					
						ID in PlantcircBase
						ath_circ_031324
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 9516075-9550380  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.7 4_circ_ag.8 AT4G16860_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 4_circ_ag.15 4_circ_ag.16 4_circ_ag.17 4_circ_ag.18 4_circ_ag.19 4_circ_ag.20 AT4G16890_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 AT4G16950_circ_g.1 4_circ_ag.2 AT4G16960_circ_g.1 AT4G16970_circ_g.1 						
					
						Support reads
						5
					
						Tissues
						seed
					
						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
						NA

General Information
CircRNA Name	4_circ_ag.6
ID in PlantcircBase	ath_circ_031324
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 9516075-9550380 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.7 4_circ_ag.8 AT4G16860_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.6 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 4_circ_ag.15 4_circ_ag.16 4_circ_ag.17 4_circ_ag.18 4_circ_ag.19 4_circ_ag.20 AT4G16890_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 4_circ_ag.7 4_circ_ag.8 4_circ_ag.9 4_circ_ag.10 4_circ_ag.11 4_circ_ag.12 4_circ_ag.13 4_circ_ag.14 AT4G16950_circ_g.1 4_circ_ag.2 AT4G16960_circ_g.1 AT4G16970_circ_g.1
Support reads	5
Tissues	seed
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	NA

			
						 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  
						
							ATCCTCAATTCCGACTAAGTCACCAAAACCCTTTGGCAGAGGAAAAAGTTTATTCGAAACATCA
TTAGCTATCTTTACAACCATGGCTGCTTCACTAGGCccgtttcgaagatcttctccggctatat
ttgttatgtctactagagcttgcatccatctttgtttctgatcctcttctttgtcctcgcatgt
ctttttaa

									
								

					

						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: 2198
Transcript exons: 9516075-9516233,9519220-9519389,9519519-9519551,9539190-
9539388,9539512-9539645,9541671-9541862,9541870-9542082,
9542182-9542209,9542294-9542475,9542660-9542836,9545478-
9545547,9546018-9546134,9548014-9548157,9548534-9548699,
9548942-9549155
CCGTTTCGAAGATCTTCTCCGGCTATATTTGTTATGTCTACTAGAGCTTGCATCCATCTTTGTT
TCTGATCCTCTTCTTTGTCCTCGCATGTCTTTTTAAAAACATCGCCAAATTCGCCGGTCTGTTT
TCTAACTTCCGAAGGATCAACGTCGTAAAAACTTCAGTTATCATGTAATCAACACACAAAGCTT
CCCCCTCTAGAGATGTTGATGATGATGCTTCTCCCTGCCCTAACGAAAGCTCCATATTTAGAGC
GGCCAATCCTGAGTCCGCTACAATTTGGCCATAGGGTAAGTTGATATATTCTTCAGATGTCCCC
GATGTCATCCCCCATCCGCTTCTCGCTTCTCGTAGTCTGTTGGAAAGGAATGTCTTCATCTTGT
TCTTTAGTTATCATATAATCAACAGACAAAGCTTCCCCCTCTAGAGATGTTGATGATGATGCTT
CTCCCTCCCCTAACGAAAGCTCCATATTTAGAGCGGCCAATCCTGTGTCTGCTACAATTTGGTC
ACCGGCTAAGTTGATATATTCTTCAGATGTTCCCGATGTCATCTGCATTCCGCATCCGCTTCTT
GCTTCTCGTAGTCTGTTGGTTGTACTCTGTTTCTTGAGAGACATACATGAGTCGTACACCGCAT
TCTTTGATCCTATTGGAGCAACAAAACTTAAACTCCACATCGTTGAAAGTCATTTCTGAGTTCC
ATCCCACAGCTTCTCAAGGTCACTATTCTCCATTCTGAGTTTAACCAGATACTCAACCTTAAAA
TTAGAATGCAAACGCTTCAATGGACAATTATTCCACAATAGCAATCTGAGTTTACTAGGGAAAT
AAACGATGCCCTGAGTGCCTTCCACACGTGAGCAATCAACTGATAGATATTCGAGATGCCTTCT
AATGATTTTAAATCTATTAATATCACCCCCGAACAATGTAACTTCCTCAGTTTAATGGCATTCT
GAATCGAGGAAGGAAGTGTCACCAAAGATTCGCATCCTTCAAGATCTAATTCCTCGAGGTTTCT
GGCATTAGAAAGATCTGGAATTTCTTTCAAATTTTTGGAACACAACAAATTCATCTTCTTGAGA
CTTCCAAGGGGCCAGAGTTCCTTCCCACAGTTTCTCAAGCAGCAATCTGAGTTTAAGGGGCAAA
TAAACGAGGCTCTGAGGTTGACCCCCATCTGACCAATCACCAATTTTTAGATATTGGAGATTAC
GCATGCCTTTGAACGATTCTTTATCTATTAATAACGGCCTTGTCGAAAAATATTCCTCGAATGG
CAAACGTATTCCAAGAAGAGTTTCTGTCCCCAGTTTTCTCGGTCACTACTTCATGAATATCCTC
AAAATTCGTCAGAAATTGACGTTTTCCAGGATTACCCTTGGACTTTGCACGATCAATTTCTCTA
CCCAATTTCTCTAGCAAATTGTGCATCTCTATATGTCCATCCGGTGTAATACGTATGAGGGACT
TCTCAGACAACATTGCGGTTGTGCAGCTTGGCTACTTCCCATAATTCTTCACTGCCTCGTAGTT
GCGCAATGCCCTTTATGTTCCCCATGCTCTAGAGTTGGAGACTTAAAAAGGCACCAGCGACGAA
GAGCTTGATGAGCCTGATGAGCCTGATGACCTATAAAAGAAGAAAGAACAGAGTCAAAGAGTCA
ACATTATAACCCCAATTGTAGAAGGTAACGTCACCAAACTTTTGCAATTTGAGAGGTTCAAATT
CACCAGATTGGTGGCCTTTGAAAGATCTGGAATTTCTATCAGGTTTTCACATTCTGACAGATCC
ATCCTCTCAAGTTTCCCAAGGGACTGGAGGTACTCGAGAGATTCCGAGTTGAGAGGACTTGGAA
AACTTTCTAGCACTTCGCAATCAGAAATATCTAATCTCTCGAGGTTCATGGCATAAGAAAGATC
TGGAATTTCTTTCAAATATTTGGAATTACGCAGAATCATCTTCTTTAGGCTTCCAAGTAGCTGA
ACCATAGCCATTTGAGTTTACGTGGCAAGTAAACGAGGCCGTTAGGTAGACGCATTCTGGTTTC
TCTCGGTTGCCACCATGAATGATCATGAATTTTTAGATATTGGAGATTAAGCATGCCTTGGAAC
GAGTTTTCATCTATTGAAATAAATGGCTTATCTATTTGTGAATCTGATGACGCGCTGAAATGTA
TTCCGAGCAATTTTTCAGTCCC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	ATCCTCAATTCCGACTAAGTCACCAAAACCCTTTGGCAGAGGAAAAAGTTTATTCGAAACATCA TTAGCTATCTTTACAACCATGGCTGCTTCACTAGGCccgtttcgaagatcttctccggctatat ttgttatgtctactagagcttgcatccatctttgtttctgatcctcttctttgtcctcgcatgt ctttttaa
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: 2198 Transcript exons: 9516075-9516233,9519220-9519389,9519519-9519551,9539190- 9539388,9539512-9539645,9541671-9541862,9541870-9542082, 9542182-9542209,9542294-9542475,9542660-9542836,9545478- 9545547,9546018-9546134,9548014-9548157,9548534-9548699, 9548942-9549155 CCGTTTCGAAGATCTTCTCCGGCTATATTTGTTATGTCTACTAGAGCTTGCATCCATCTTTGTT TCTGATCCTCTTCTTTGTCCTCGCATGTCTTTTTAAAAACATCGCCAAATTCGCCGGTCTGTTT TCTAACTTCCGAAGGATCAACGTCGTAAAAACTTCAGTTATCATGTAATCAACACACAAAGCTT CCCCCTCTAGAGATGTTGATGATGATGCTTCTCCCTGCCCTAACGAAAGCTCCATATTTAGAGC GGCCAATCCTGAGTCCGCTACAATTTGGCCATAGGGTAAGTTGATATATTCTTCAGATGTCCCC GATGTCATCCCCCATCCGCTTCTCGCTTCTCGTAGTCTGTTGGAAAGGAATGTCTTCATCTTGT TCTTTAGTTATCATATAATCAACAGACAAAGCTTCCCCCTCTAGAGATGTTGATGATGATGCTT CTCCCTCCCCTAACGAAAGCTCCATATTTAGAGCGGCCAATCCTGTGTCTGCTACAATTTGGTC ACCGGCTAAGTTGATATATTCTTCAGATGTTCCCGATGTCATCTGCATTCCGCATCCGCTTCTT GCTTCTCGTAGTCTGTTGGTTGTACTCTGTTTCTTGAGAGACATACATGAGTCGTACACCGCAT TCTTTGATCCTATTGGAGCAACAAAACTTAAACTCCACATCGTTGAAAGTCATTTCTGAGTTCC ATCCCACAGCTTCTCAAGGTCACTATTCTCCATTCTGAGTTTAACCAGATACTCAACCTTAAAA TTAGAATGCAAACGCTTCAATGGACAATTATTCCACAATAGCAATCTGAGTTTACTAGGGAAAT AAACGATGCCCTGAGTGCCTTCCACACGTGAGCAATCAACTGATAGATATTCGAGATGCCTTCT AATGATTTTAAATCTATTAATATCACCCCCGAACAATGTAACTTCCTCAGTTTAATGGCATTCT GAATCGAGGAAGGAAGTGTCACCAAAGATTCGCATCCTTCAAGATCTAATTCCTCGAGGTTTCT GGCATTAGAAAGATCTGGAATTTCTTTCAAATTTTTGGAACACAACAAATTCATCTTCTTGAGA CTTCCAAGGGGCCAGAGTTCCTTCCCACAGTTTCTCAAGCAGCAATCTGAGTTTAAGGGGCAAA TAAACGAGGCTCTGAGGTTGACCCCCATCTGACCAATCACCAATTTTTAGATATTGGAGATTAC GCATGCCTTTGAACGATTCTTTATCTATTAATAACGGCCTTGTCGAAAAATATTCCTCGAATGG CAAACGTATTCCAAGAAGAGTTTCTGTCCCCAGTTTTCTCGGTCACTACTTCATGAATATCCTC AAAATTCGTCAGAAATTGACGTTTTCCAGGATTACCCTTGGACTTTGCACGATCAATTTCTCTA CCCAATTTCTCTAGCAAATTGTGCATCTCTATATGTCCATCCGGTGTAATACGTATGAGGGACT TCTCAGACAACATTGCGGTTGTGCAGCTTGGCTACTTCCCATAATTCTTCACTGCCTCGTAGTT GCGCAATGCCCTTTATGTTCCCCATGCTCTAGAGTTGGAGACTTAAAAAGGCACCAGCGACGAA GAGCTTGATGAGCCTGATGAGCCTGATGACCTATAAAAGAAGAAAGAACAGAGTCAAAGAGTCA ACATTATAACCCCAATTGTAGAAGGTAACGTCACCAAACTTTTGCAATTTGAGAGGTTCAAATT CACCAGATTGGTGGCCTTTGAAAGATCTGGAATTTCTATCAGGTTTTCACATTCTGACAGATCC ATCCTCTCAAGTTTCCCAAGGGACTGGAGGTACTCGAGAGATTCCGAGTTGAGAGGACTTGGAA AACTTTCTAGCACTTCGCAATCAGAAATATCTAATCTCTCGAGGTTCATGGCATAAGAAAGATC TGGAATTTCTTTCAAATATTTGGAATTACGCAGAATCATCTTCTTTAGGCTTCCAAGTAGCTGA ACCATAGCCATTTGAGTTTACGTGGCAAGTAAACGAGGCCGTTAGGTAGACGCATTCTGGTTTC TCTCGGTTGCCACCATGAATGATCATGAATTTTTAGATATTGGAGATTAAGCATGCCTTGGAAC GAGTTTTCATCTATTGAAATAAATGGCTTATCTATTTGTGAATCTGATGACGCGCTGAAATGTA TTCCGAGCAATTTTTCAGTCCC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.469973434

Conservation Information
Conserved circRNAs	NA
PMCS	0.469973434

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR854b ath-miR407 ath-miR5021 ath-miR414 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	ath-miR854b ath-miR407 ath-miR5021 ath-miR414
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 4_circ_ag.6

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