Plant Circular RNA Database

Detail information of 1_circ_ag.6

			
						 General Information
					
						CircRNA Name
						1_circ_ag.6
					
						ID in PlantcircBase
						ath_circ_001486
					
						Alias
						At_ciR4615
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2849952-2853843  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT1G08890_circ_g.1 1_circ_ag.2 1_circ_ag.3 AT1G08890_circ_g.4 1_circ_ag.5 AT1G08890_circ_g.7 AT1G08900_circ_g.1 AT1G08900_circ_g.2 						
					
						Support reads
						3
					
						Tissues
						leaf
					
						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	1_circ_ag.6
ID in PlantcircBase	ath_circ_001486
Alias	At_ciR4615
Organism	Arabidpsis thaliana
Position	chr1: 2849952-2853843 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT1G08890_circ_g.1 1_circ_ag.2 1_circ_ag.3 AT1G08890_circ_g.4 1_circ_ag.5 AT1G08890_circ_g.7 AT1G08900_circ_g.1 AT1G08900_circ_g.2
Support reads	3
Tissues	leaf
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  
						
							GACTAATTCTTGATATTCAATCTACGATCGACTAGGTGCAATCCCAAGTGCTTTCCAAGTGATA
TGTTTATTTTTTATTCCTGAATCTCCTAGATGGCTGgctatgtatggtagagaacgagagcttg
aggttactttgaagaggctaagaggagaaaatggtgatattctcgaagaagcagctgaaatcag
agtattat

									
								

					

						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
						
							GCTATGTATGGTAGAGAACGAGAGCTTGAGGTTACTTTGAAGAGGCTAAGAGGAGAAAATGGTG
ATATTCTCGAAGAAGCAGCTGAAATCAGAGTATTATTGTTTGTTCCGAAAATACTACTACTACT
TTGGCTAACATATACGTATTTTGGTTAACTATTAATTCGGTTTAAAATGTGAAACAGGAAACAG
TGGAAACCTCTAGAAGAGAATCTCGAAGTGGACTAAAAGATTTGTTCAATATGAAAAACGCACA
TCCGTTAATCGTAAGTCTCATCAAATACCTATCATTTATACAAATAATTTAGAAGAGATCGAGT
TCTTATCTAGTTTTGTGACCTATTGATGATCAACTTAATAAACAGATAGACATGTATTTATGCG
TATGTAGATCTAACATTCTGCCTATACGTATGAATGAAATACTCCCAAGTCCTAACGGAAAAAA
ATGTTTTAACTTGTTTAGTGAAATAAATAAAGATTAATTTGTTTTTGTTTGTTTATTAATTCGT
TGAAAACGATTAGATTGGATTGGGCCTAATGCTCTTGCAACAATTTTGTGGGAGTTCGGCGATA
AGTGCTTATGCTGCTCGTATTTTCGACACAGCCGGTAAACCATGATTTAAAAAAAAAAAAAAAA
AAAAAAATCATTGGCATGTCATATCTTGTTTGATTTTGTATCGCATTTCATCTCACGATTTTTG
AATATATTGTCTTGGGTATTTAGGTTTTCCAAGCGACATAGGAACATCCATCCTTGCAGTTATT
TTGGTAAATCAAAACATTGTCTTTTTAGTATTTAACATTTTATAATCGAAAATATAGTATTTCA
CATTTTCACTACAACTTATTCTTGTTTTTAGGTACCGCAATCTATTATTGTCATGTTTGCCGTC
GACCGATGTGGACGCCGACCACTTTTGATGGTAATCATTTCATTACCTTCGTTATATATAATTT
GCGTAATTGATTTCCCTAGATAAATATTTTATTTGTGGTTTGAAACTTTTTTTGCAGAGCTCTT
CTATCGGTCTGTGCATATGTTCATTTTTAATTGGCCTCTCTTACTATCTTCAGGTTTAGTCATC
TTAACTATTTTATTCTTTGTAACTTCGTTTGATTTTTGGTTATTATAGACTAAATATTATTTAT
CCCCCACAAGCAGAACCATGGTGATTTTCAAGAGTTTTGTTCCCCTATCTTAATCGTCGGTTTA
GTGGTACGTGAATGCCAATCTTGTTTCAGTCAATTACTATTTTTGGTTTAATTCATATATTACT
TTGTTGAAACCACAACACTAATCAACCAAGTCATACTATATACCAGGGTTATGTCTTATCCTTT
GGCATTGGTCTAGGTGGACTACCATGGGTTATTATGTCTGAGGTATTTGTTTTTTTTTTTATTT
TAAACTAGAAATATTTCATAATGTAATCATTATCTTTTTTTTTTTTTGGACAACAATTTATTCA
TTATCTATGGCAGGTGTTTCCGGTGAATGTGAAAATTACCGCCGGTAGTCTTGTAACAGTGTCA
AACTGGTTTTTCAGTTGGATTATCATTTTCAGTTTTAATTTCATGATGCAATGGAGTGCTTTCG
GTAAATTTCTATCCATTAATTTGACATTTTTGTTTCTTCAGAATATTACACATCTAACACAAAA
ATGCTTTATTTCGACAGTATTTAATAATTATTACAATAAAATGAAAATAAATAAATAAACAAAC
AACCAGCTCTTAAAATTGTTTAAAGAGTATAGGGTTATGTATAATCAAATCATGGTAAATATAT
CTTTTAAATTATTAAAAATACTAAAACGGGAAGATTAGAGAATTTTATGTTAGGAATGTCCCCT
CGAATTAATATTTTCATTATATAATAACTTAGATATGAAATTAAAGAGAATGATTATATAGTTA
TTTTGTTTTATTGGAATTTGCAGGAACATATTTCATATTTGCTGGAGTTTCTCTGATGTCATTC
GTATTTGTATGGACTTTGGTGCCTGAGACGAAAGGCCGAACACTTGAAGATATTCAACAATCAC
TAGGCCAACTTTCATAAATCCAAAGTTGATTCTTTACTCCACAATGCCAGACATTGTTCTTTTA
TGTTACATTTATAAGTCATGTATTATCCGATTTGGAGGGGGGGGATATGGATTTCCGAATTTTT
TTACTTTGATAAATTTTGTCAATATATTTTGTTGACAGAAAAAAGAATAATCAATATACTGTAT
GTGGTATTATTCTAACAATATTTTTTAAACGTATAATATGATTATGTACCAATATTTATAACCA
TATCATATGATTATGTACTTTTGTAAAAAAAATTCACACCCCACTTAAAACTTGGTTACTACTA
ATTGGATCTTGCAACTCAATTTTCTAAATCGCATTACAAAATACTGAATGAGCAAATTAATAAA
AGATTAGTCAAATGTGACAACGACCAATGAGGCATGGCCAAATAAAAGCTTGAAGAGACTATTC
AAAGTTAAGGATAAGAATCAAAGAAAGAAGATGGAATCTGAAAGACTCGAATCACATCTTCTGA
ATAAGCAAGAAGAAGAAGCTTCTTCCTTCACTTCTGGTCTTCTTCTCAGCACATCCGTCGTTGT
CGCTGGATCCTTCTGTTATGGCTGCGCCGTGAGATCTCTTCCTTTCTCTCTCAATTTGCTATCC
ACTGATTTTGGATATTACAGTTTTAGAATCCTAATTTCTTCGTGCATAATTTTCATAACTATAA
CATACTTTGTAGATGTCATATTCGTCGCCTGCTCAGTCCAAAATCATGGAAGAACTGGGACTTT
CCGTTGCAGATGTAAGCCCACCTGTGTTCAATGTTCATCATATAGATCAAAATCATTTTTTTCT
TTTAAGACTCTCAAACCGGTTCAATAAACCAGACCAGTAACCCGGTTTGAATGGTCTACTTCTA
TGTTGGCCAGTATTCGTTTTTCACTTCGGTAATGACATTAGGAGGAATGATTACCGCCGTGTTC
AGCGGTAAAATCTCTGCTCTCGTTGGTCGTCGACAGGTAATTAGTTATTACTGTTGGACCGGTT
CCGGTTTATCTTTTGAATTTTTTTGGATCTTCTATGATGACGTCATTCTTTATGCGTTTTGATT
TATTCGTCTGTTGATATCTCAGACAATGTGGATCTCAGATGTTTGCTGTATTTTTGGTTGGCTC
GCTGTAGCGTTTGCACATGTTTGTTTCTCCAAATCTCCCTGTTTAAAACTTTCTATATATTTAT
CTACTCAAATTTTGTGTTAAAAAGTTAACATGTTATTTACTGTGATTATGTGTAGGATATTATA
ATGCTTAATACTGGACGACTCTTCTTGGGGTTTGGGGTTGGTCTCATTAGTTATGTGGTAATTA
ACTTTCTCTCCCCTTTTCATTTAGACAAAATTTCTAGTCCTTTATTAGAGTGTTAATGTCGTAT
TACTCCATTTTATTTATAAAATAAATAGGTTCCTGTGTATATAGCAGAAATTACACCCAAAACA
TTTCGTGGAGGATTTTCTTATTCCAATCAGGTAAATAACAAATAGAGACACAATATCAAATAAC
TTATAGTAATATCTTTCAATAAATTCATAAGCAAAATATTTATTGTCATCTTGCGTTTGAACTT
GCAGCTTCTACAATGTCTTGGGATTTCACTCATGTTCTTCACCGGAAACTTTTTCCATTGGCGA
ACATTAGCTCTTTTAAGTAACCATATTTTTCTCATCTGAACTATCTTAATAATAAGATTTGTAC
TTGAGTCATATTCCTAGACTAATTCTTGATATTCAATCTACGATCGACTAGGTGCAATCCCAAG
TGCTTTCCAAGTGATATGTTTATTTTTTATTCCTGAATCTCCTAGATGGCTG
						
					

			
		

Sequences
Splice junction sequence	GACTAATTCTTGATATTCAATCTACGATCGACTAGGTGCAATCCCAAGTGCTTTCCAAGTGATA TGTTTATTTTTTATTCCTGAATCTCCTAGATGGCTGgctatgtatggtagagaacgagagcttg aggttactttgaagaggctaagaggagaaaatggtgatattctcgaagaagcagctgaaatcag agtattat
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	GCTATGTATGGTAGAGAACGAGAGCTTGAGGTTACTTTGAAGAGGCTAAGAGGAGAAAATGGTG ATATTCTCGAAGAAGCAGCTGAAATCAGAGTATTATTGTTTGTTCCGAAAATACTACTACTACT TTGGCTAACATATACGTATTTTGGTTAACTATTAATTCGGTTTAAAATGTGAAACAGGAAACAG TGGAAACCTCTAGAAGAGAATCTCGAAGTGGACTAAAAGATTTGTTCAATATGAAAAACGCACA TCCGTTAATCGTAAGTCTCATCAAATACCTATCATTTATACAAATAATTTAGAAGAGATCGAGT TCTTATCTAGTTTTGTGACCTATTGATGATCAACTTAATAAACAGATAGACATGTATTTATGCG TATGTAGATCTAACATTCTGCCTATACGTATGAATGAAATACTCCCAAGTCCTAACGGAAAAAA ATGTTTTAACTTGTTTAGTGAAATAAATAAAGATTAATTTGTTTTTGTTTGTTTATTAATTCGT TGAAAACGATTAGATTGGATTGGGCCTAATGCTCTTGCAACAATTTTGTGGGAGTTCGGCGATA AGTGCTTATGCTGCTCGTATTTTCGACACAGCCGGTAAACCATGATTTAAAAAAAAAAAAAAAA AAAAAAATCATTGGCATGTCATATCTTGTTTGATTTTGTATCGCATTTCATCTCACGATTTTTG AATATATTGTCTTGGGTATTTAGGTTTTCCAAGCGACATAGGAACATCCATCCTTGCAGTTATT TTGGTAAATCAAAACATTGTCTTTTTAGTATTTAACATTTTATAATCGAAAATATAGTATTTCA CATTTTCACTACAACTTATTCTTGTTTTTAGGTACCGCAATCTATTATTGTCATGTTTGCCGTC GACCGATGTGGACGCCGACCACTTTTGATGGTAATCATTTCATTACCTTCGTTATATATAATTT GCGTAATTGATTTCCCTAGATAAATATTTTATTTGTGGTTTGAAACTTTTTTTGCAGAGCTCTT CTATCGGTCTGTGCATATGTTCATTTTTAATTGGCCTCTCTTACTATCTTCAGGTTTAGTCATC TTAACTATTTTATTCTTTGTAACTTCGTTTGATTTTTGGTTATTATAGACTAAATATTATTTAT CCCCCACAAGCAGAACCATGGTGATTTTCAAGAGTTTTGTTCCCCTATCTTAATCGTCGGTTTA GTGGTACGTGAATGCCAATCTTGTTTCAGTCAATTACTATTTTTGGTTTAATTCATATATTACT TTGTTGAAACCACAACACTAATCAACCAAGTCATACTATATACCAGGGTTATGTCTTATCCTTT GGCATTGGTCTAGGTGGACTACCATGGGTTATTATGTCTGAGGTATTTGTTTTTTTTTTTATTT TAAACTAGAAATATTTCATAATGTAATCATTATCTTTTTTTTTTTTTGGACAACAATTTATTCA TTATCTATGGCAGGTGTTTCCGGTGAATGTGAAAATTACCGCCGGTAGTCTTGTAACAGTGTCA AACTGGTTTTTCAGTTGGATTATCATTTTCAGTTTTAATTTCATGATGCAATGGAGTGCTTTCG GTAAATTTCTATCCATTAATTTGACATTTTTGTTTCTTCAGAATATTACACATCTAACACAAAA ATGCTTTATTTCGACAGTATTTAATAATTATTACAATAAAATGAAAATAAATAAATAAACAAAC AACCAGCTCTTAAAATTGTTTAAAGAGTATAGGGTTATGTATAATCAAATCATGGTAAATATAT CTTTTAAATTATTAAAAATACTAAAACGGGAAGATTAGAGAATTTTATGTTAGGAATGTCCCCT CGAATTAATATTTTCATTATATAATAACTTAGATATGAAATTAAAGAGAATGATTATATAGTTA TTTTGTTTTATTGGAATTTGCAGGAACATATTTCATATTTGCTGGAGTTTCTCTGATGTCATTC GTATTTGTATGGACTTTGGTGCCTGAGACGAAAGGCCGAACACTTGAAGATATTCAACAATCAC TAGGCCAACTTTCATAAATCCAAAGTTGATTCTTTACTCCACAATGCCAGACATTGTTCTTTTA TGTTACATTTATAAGTCATGTATTATCCGATTTGGAGGGGGGGGATATGGATTTCCGAATTTTT TTACTTTGATAAATTTTGTCAATATATTTTGTTGACAGAAAAAAGAATAATCAATATACTGTAT GTGGTATTATTCTAACAATATTTTTTAAACGTATAATATGATTATGTACCAATATTTATAACCA TATCATATGATTATGTACTTTTGTAAAAAAAATTCACACCCCACTTAAAACTTGGTTACTACTA ATTGGATCTTGCAACTCAATTTTCTAAATCGCATTACAAAATACTGAATGAGCAAATTAATAAA AGATTAGTCAAATGTGACAACGACCAATGAGGCATGGCCAAATAAAAGCTTGAAGAGACTATTC AAAGTTAAGGATAAGAATCAAAGAAAGAAGATGGAATCTGAAAGACTCGAATCACATCTTCTGA ATAAGCAAGAAGAAGAAGCTTCTTCCTTCACTTCTGGTCTTCTTCTCAGCACATCCGTCGTTGT CGCTGGATCCTTCTGTTATGGCTGCGCCGTGAGATCTCTTCCTTTCTCTCTCAATTTGCTATCC ACTGATTTTGGATATTACAGTTTTAGAATCCTAATTTCTTCGTGCATAATTTTCATAACTATAA CATACTTTGTAGATGTCATATTCGTCGCCTGCTCAGTCCAAAATCATGGAAGAACTGGGACTTT CCGTTGCAGATGTAAGCCCACCTGTGTTCAATGTTCATCATATAGATCAAAATCATTTTTTTCT TTTAAGACTCTCAAACCGGTTCAATAAACCAGACCAGTAACCCGGTTTGAATGGTCTACTTCTA TGTTGGCCAGTATTCGTTTTTCACTTCGGTAATGACATTAGGAGGAATGATTACCGCCGTGTTC AGCGGTAAAATCTCTGCTCTCGTTGGTCGTCGACAGGTAATTAGTTATTACTGTTGGACCGGTT CCGGTTTATCTTTTGAATTTTTTTGGATCTTCTATGATGACGTCATTCTTTATGCGTTTTGATT TATTCGTCTGTTGATATCTCAGACAATGTGGATCTCAGATGTTTGCTGTATTTTTGGTTGGCTC GCTGTAGCGTTTGCACATGTTTGTTTCTCCAAATCTCCCTGTTTAAAACTTTCTATATATTTAT CTACTCAAATTTTGTGTTAAAAAGTTAACATGTTATTTACTGTGATTATGTGTAGGATATTATA ATGCTTAATACTGGACGACTCTTCTTGGGGTTTGGGGTTGGTCTCATTAGTTATGTGGTAATTA ACTTTCTCTCCCCTTTTCATTTAGACAAAATTTCTAGTCCTTTATTAGAGTGTTAATGTCGTAT TACTCCATTTTATTTATAAAATAAATAGGTTCCTGTGTATATAGCAGAAATTACACCCAAAACA TTTCGTGGAGGATTTTCTTATTCCAATCAGGTAAATAACAAATAGAGACACAATATCAAATAAC TTATAGTAATATCTTTCAATAAATTCATAAGCAAAATATTTATTGTCATCTTGCGTTTGAACTT GCAGCTTCTACAATGTCTTGGGATTTCACTCATGTTCTTCACCGGAAACTTTTTCCATTGGCGA ACATTAGCTCTTTTAAGTAACCATATTTTTCTCATCTGAACTATCTTAATAATAAGATTTGTAC TTGAGTCATATTCCTAGACTAATTCTTGATATTCAATCTACGATCGACTAGGTGCAATCCCAAG TGCTTTCCAAGTGATATGTTTATTTTTTATTCCTGAATCTCCTAGATGGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.449328387

Conservation Information
Conserved circRNAs	NA
PMCS	0.449328387

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5632-3p 						
					
						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-miR5632-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of 1_circ_ag.6

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