Plant Circular RNA Database

Detail information of 4_circ_ag.3

			
						 General Information
					
						CircRNA Name
						4_circ_ag.3
					
						ID in PlantcircBase
						ath_circ_031051
					
						Alias
						At_ciR125
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 8689979-8698223  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.4 AT4G15233_circ_g.1 4_circ_ag.2 4_circ_ag.4 4_circ_ag.5 AT4G15233_circ_g.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 						
					
						Support reads
						45/4
					
						Tissues
						leaf/root, inflorescences, 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  
						
							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
						NA

General Information
CircRNA Name	4_circ_ag.3
ID in PlantcircBase	ath_circ_031051
Alias	At_ciR125
Organism	Arabidpsis thaliana
Position	chr4: 8689979-8698223 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.4 AT4G15233_circ_g.1 4_circ_ag.2 4_circ_ag.4 4_circ_ag.5 AT4G15233_circ_g.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
Support reads	45/4
Tissues	leaf/root, inflorescences, 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	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	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  
						
							GTGTTTCAGATCCTAGGACTCACTATCTGTGCAGATACACGTGTTGGAGATGCTTCGAGACCAG
GAATATCTGGTGGCCAAAAGAGAAGATTAACTACAGgtgagatgattgtaggtccaatcaaaac
tctgttcatggatgaaatctcgaatggtttggatagctcaactacattccagattctatcatgt
ctccaaca

									
								

					

						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: 1948
Transcript exons: 8689979-8690171,8690246-8690282,8690349-8690632,8690711-
8690911,8691603-8691698,8691781-8691942,8692034-8692195,
8692825-8692887,8692969-8693100,8693240-8693409,8693514-
8693651,8693923-8694037,8694166-8694360
GTGAGATGATTGTAGGTCCAATCAAAACTCTGTTCATGGATGAAATCTCGAATGGTTTGGATAG
CTCAACTACATTCCAGATTCTATCATGTCTCCAACAGTTTGCACGTCTATCTGAAGGAACCATA
CTGGTTTCACTGCTTCAGCCTGCACCAGAAACGTTTGAGCTTTTCGACGATTTGATTCTTATGG
GCAAACAGGAAATCTGTTGCTGAATTCCTTCAGGAGGTAGGTTATCTCAAGGAAAGATCAAGAA
CAATATTGGTGTCACATAGAAAAAACATATTGTTATGTCTCTATTGAGTCATTTATTGAGAAAT
TTAAAAAATCTGATCTTGGGCTAGAACTACAAGACAGACTCTCCAAGACATATGACAAGTCTCA
GACTCAAAAGGATGGATTGTGCTTTAGAAAATACTCACTTAGTAACTGGGATATGCTTAAAGCT
TGCTCAAGGAGAGAATTTCTTCTGATGAAACGTAACTCTTTCGTTTACGTATTCAAATCTGGAC
TTTTAATTTTCATTGGATTCATTGCAATGACTGTTTATCTACGGACTGGGTCTACAAGAGATTC
TCTTCATGCTAATTATCTTATGGGTTCTTTGTTCTTCTCTCTCTTTAAACTTCTTGCTGATGGA
CTTCCAGAACTCACATTGACAATCTCGAGAATTGCCGTGTTCTGCAAGCAAAAGGAGCTATACT
TTTATCCTGCTTTGGAAATCAATCTTACTGGAATGCATTTGGCGCTTTGATTGGCTTCACACTC
TTCTTCAATACTGTTTTTGCACTGGCCTTGACCTTTCTGAAGACTTCACAGAGGTCTCGTGTGA
TTGTTTCTCATGAAAAGAACACTCAAAGCTCAGAGAATGATTCTAAAATTGCTTCCCGTTTCAA
AAATGCATTGCCTTTCGAACCTCTAACTTTCACATTTCAAGACGTACAATATATTATTGAGACT
CCCCAGGTAAAGAAGGGAAAGAAGCTGCAGCTTCTCTCTGGCGTTACAGGCGCATTCAAGCCTG
GTGTTCTCACTGCTTTAATGGGTGTGAGTGGCGCTGGTAAAACGACTCTGCTGGATGTTCTTTC
GGGAAGGAAAACCTTCGGTGACATTAAAGGACAGATTGAAGTAGGCGGGAAAAATTATCTATTA
CGGACCTCTTGGACAACATTCAAGCAAAGTTATTGAATACTTTATGACTTTAGAGGATTCATGG
AGTTCCAAAACTGAAAGAAAACTCTAACCCAGCCACTTGGATACTTGACATTACTTCTAAATCA
TCAGAAGACAAACTTGGAGTTGATTTGGCACAAATGTACGAGGAATCGACATCTTGTCATCACG
TTATGCTCAAACGAGTTGGGAACAATTCAAAGCATGCCTCTGGAAACAACATCTCTCTTATTGG
AGAAACCCTTCCTACAACCTCACTCGCATCATTTTCATGTCTTTTACTTGTATGCTCTGTGGCA
TTCTTTTCTGGCAAAAAGCTAAGGAAATGAAACAATCAGCAAGATCTATTCAACGTATTTGGCT
CAATGTTCACGGTGGTTCTATTCTCTGGAATAAACAATTGCTCAACAGTGTTATTTAGCGTTGC
AACTGAACGAAATGTCTTCTACCGTGAAAGATTTTCCCCTATTTTGGCATGCTTTTAGTCGTGG
TGACCCCAAACGTTCACATTGCTTTTACTCTCCGCTCTTCATTTTACGCAATCGTCAATCTCTT
TGCTGGTTATGTCATGCCAAAACCTAACATTCCGAGGTGGTGGATTTGGATGTATTACTTGAGC
CCGACGTCATGGGTTTTGAACGGATTGCTCACATCGCAGTATGGAGATATGGAGAAAGAGATAT
TAGCATTTGGAGAAAAGAAGAAAGTTTCAGATTTCTTGGAAGATTATTTTGGCTACAGATATGA
CTCTTTGGCTCTTGTAGCTGTTGTTCTT
						
					

						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	GTGTTTCAGATCCTAGGACTCACTATCTGTGCAGATACACGTGTTGGAGATGCTTCGAGACCAG GAATATCTGGTGGCCAAAAGAGAAGATTAACTACAGgtgagatgattgtaggtccaatcaaaac tctgttcatggatgaaatctcgaatggtttggatagctcaactacattccagattctatcatgt ctccaaca
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: 1948 Transcript exons: 8689979-8690171,8690246-8690282,8690349-8690632,8690711- 8690911,8691603-8691698,8691781-8691942,8692034-8692195, 8692825-8692887,8692969-8693100,8693240-8693409,8693514- 8693651,8693923-8694037,8694166-8694360 GTGAGATGATTGTAGGTCCAATCAAAACTCTGTTCATGGATGAAATCTCGAATGGTTTGGATAG CTCAACTACATTCCAGATTCTATCATGTCTCCAACAGTTTGCACGTCTATCTGAAGGAACCATA CTGGTTTCACTGCTTCAGCCTGCACCAGAAACGTTTGAGCTTTTCGACGATTTGATTCTTATGG GCAAACAGGAAATCTGTTGCTGAATTCCTTCAGGAGGTAGGTTATCTCAAGGAAAGATCAAGAA CAATATTGGTGTCACATAGAAAAAACATATTGTTATGTCTCTATTGAGTCATTTATTGAGAAAT TTAAAAAATCTGATCTTGGGCTAGAACTACAAGACAGACTCTCCAAGACATATGACAAGTCTCA GACTCAAAAGGATGGATTGTGCTTTAGAAAATACTCACTTAGTAACTGGGATATGCTTAAAGCT TGCTCAAGGAGAGAATTTCTTCTGATGAAACGTAACTCTTTCGTTTACGTATTCAAATCTGGAC TTTTAATTTTCATTGGATTCATTGCAATGACTGTTTATCTACGGACTGGGTCTACAAGAGATTC TCTTCATGCTAATTATCTTATGGGTTCTTTGTTCTTCTCTCTCTTTAAACTTCTTGCTGATGGA CTTCCAGAACTCACATTGACAATCTCGAGAATTGCCGTGTTCTGCAAGCAAAAGGAGCTATACT TTTATCCTGCTTTGGAAATCAATCTTACTGGAATGCATTTGGCGCTTTGATTGGCTTCACACTC TTCTTCAATACTGTTTTTGCACTGGCCTTGACCTTTCTGAAGACTTCACAGAGGTCTCGTGTGA TTGTTTCTCATGAAAAGAACACTCAAAGCTCAGAGAATGATTCTAAAATTGCTTCCCGTTTCAA AAATGCATTGCCTTTCGAACCTCTAACTTTCACATTTCAAGACGTACAATATATTATTGAGACT CCCCAGGTAAAGAAGGGAAAGAAGCTGCAGCTTCTCTCTGGCGTTACAGGCGCATTCAAGCCTG GTGTTCTCACTGCTTTAATGGGTGTGAGTGGCGCTGGTAAAACGACTCTGCTGGATGTTCTTTC GGGAAGGAAAACCTTCGGTGACATTAAAGGACAGATTGAAGTAGGCGGGAAAAATTATCTATTA CGGACCTCTTGGACAACATTCAAGCAAAGTTATTGAATACTTTATGACTTTAGAGGATTCATGG AGTTCCAAAACTGAAAGAAAACTCTAACCCAGCCACTTGGATACTTGACATTACTTCTAAATCA TCAGAAGACAAACTTGGAGTTGATTTGGCACAAATGTACGAGGAATCGACATCTTGTCATCACG TTATGCTCAAACGAGTTGGGAACAATTCAAAGCATGCCTCTGGAAACAACATCTCTCTTATTGG AGAAACCCTTCCTACAACCTCACTCGCATCATTTTCATGTCTTTTACTTGTATGCTCTGTGGCA TTCTTTTCTGGCAAAAAGCTAAGGAAATGAAACAATCAGCAAGATCTATTCAACGTATTTGGCT CAATGTTCACGGTGGTTCTATTCTCTGGAATAAACAATTGCTCAACAGTGTTATTTAGCGTTGC AACTGAACGAAATGTCTTCTACCGTGAAAGATTTTCCCCTATTTTGGCATGCTTTTAGTCGTGG TGACCCCAAACGTTCACATTGCTTTTACTCTCCGCTCTTCATTTTACGCAATCGTCAATCTCTT TGCTGGTTATGTCATGCCAAAACCTAACATTCCGAGGTGGTGGATTTGGATGTATTACTTGAGC CCGACGTCATGGGTTTTGAACGGATTGCTCACATCGCAGTATGGAGATATGGAGAAAGAGATAT TAGCATTTGGAGAAAAGAAGAAAGTTTCAGATTTCTTGGAAGATTATTTTGGCTACAGATATGA CTCTTTGGCTCTTGTAGCTGTTGTTCTT
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
						0.697113953

Conservation Information
Conserved circRNAs	NA
PMCS	0.697113953

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

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of 4_circ_ag.3

Address

Any questions?

Supported by