Plant Circular RNA Database

Detail information of 2_circ_ag.4

			
						 General Information
					
						CircRNA Name
						2_circ_ag.4
					
						ID in PlantcircBase
						ath_circ_013941
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 8687774-8690699  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 2_circ_ag.9 						
					
						Support reads
						8
					
						Tissues
						siliques and seeds
					
						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	2_circ_ag.4
ID in PlantcircBase	ath_circ_013941
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 8687774-8690699 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	SMALT, Segemehl
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 2_circ_ag.9
Support reads	8
Tissues	siliques and seeds
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  
						
							TTTGAATAGTCACTTTAAGATTCATTTCCAATCGAGGCCAAAGGTTTATCAAGAGTCGATAGAA
TCTGCGGCATTGACATTCCCCCGGAAACAACAATCTcaattccttcccggaccgagaggtttgg
cctgataacgtcattactgttgacaagtagtagatctccaatgtaaaggtggttcgtgggaacg
tatacaca

									
								

					

						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
						
							CAATTCCTTCCCGGACCGAGAGGTTTGGCCTGATAACGTCATTACTGTTGACAAGTAGTAGATC
TCCAATGTAAAGGTGGTTCGTGGGAACGTATACACAGCAAAGTTCCTCCTCGGTTGGATAGTTC
TGCAAGGACGAAGGACATTATTACATTGGATAAACAAATGATGTAATTATAGTAAACCATGCCT
CGAGATTGTATCTGCCTTCGTATCCTTTACCAAAATCGTTGAGCAAAGCAATTTCACTCACCTG
GAGAACAACAGTTGATGTAATGAAGCCAAATGCGTATTCACCTACACGGGGATGCCTGATGATT
GCAACTTCCTTGAAAGCTTGTGTATTTTGATCTGTGATGAGAAATGGATAAGAACAAGATGAGA
TAGGAGATCAACTTAATGTTGAGAAGCAAAACAAGATTTTTATAAGCAAGCTAGACCAGGCGAT
ATGGCAGTGCTGATTTGCTTGGAGGCGTTGTAGATGTGACGAACAAACGGCATCCGCTTGATAA
ACCACTCTCCCAAGTTCAGAACCGATGCCCCCAACCACGAAGACATGAACACCCCAACCAAGAA
GATGAATGCAATGGAAGTCAAAAAACCGAAACCTACAAAAAACCATAATCAAACTTATTGTGGG
AAACGGAACGATATCAAATTGTTCATTCGATAAAGAAGGGCCACTCAAATTCTTACCAAATACG
TTGATTCCAAGTTGTGCATATATTGGAGAGAAGAATCCATCGACAAAGTGAATAAACCACCATG
TTATATAGAAAGTAATTGCAATAGGAAGTAGGATAACACTACAAAAAGCAATTGAGATTTGAAA
CTATCAGCACAAATCTTGAATATGTGACAAGTTTCATCAAGCCAAAATTTCAGTAAACTCTTCC
TTACCAGCCTGTCATGAACTTCTTTGACGCCCAGCCCCTAATGAACAAGCTTAAAGTCTGCAGA
AAAATAGATAAAGCATCAGATCACAATGCTCCTATGTGTTATATATGCTTGAAAACATGAATTA
GCATGACATAGAGACTCAAGAATCTGACAGATCCCAATAAAAACACTTAAGATCTAATGCAAAT
TAATACTCTACTCAGTGAGGAAAGGTCAAATTTCTATAAGCATCTTAAGAATTAAGATCAGTGT
TAACACACTACCAAACTTATCTAAGCAAGTGTTCTTGTAATATACTGAATCTAGGGCTAAACCA
TGTTCCAAGATTTTGCACTAAGGGGTTTCTCAGAATGGGCCAAATCTCTGAAGACTAAATCTTG
AAAAGACCTAAGAGCTTAAAACCAATCCAATTCAACTGTTAATTGCGCATGAATCTTGAAATGA
GAAAACGAAGAACAAGATTTTTAGATCAGGTGACAAAAACTAGACCTCGTGGCTGGATTGATGC
GAAGAAGAAGAAGCAGAGGAAGAAGAAGAAGGCTTCGAAGAAGAACCGTCGTCTTTGTCGCCGG
AATCAGCGACGGGAATCAGAAGCTCTCGATCTCTTTCTCGATTGGCCATAACAATCACCGGCTT
CTCGTCTCCCATCGCCAAGAAACCAAAGAGACAAGGAAATCTAGTCGGAGAAAAAGAAAGAAGA
GAGAAATGCCGGTGAACTGTGAACGGCGGAGAGGAAAAAGGCTGAGACTTTTGCCGGCGACTGT
TCTTTTGTAGCTAAGCTTAGCTAACTCCAACTTGAGCTCTCTGTCGTTTTTGGATTTTTCTTTT
TATATCTGTCTTCTTTTATTTATCCTTTTCTTAATTATAACATGATTAATTTTTGTTTCAAATT
ACTGTATACAAATTATTTTCAAAAGATGAAAAGATTAATTTTATTGTTGTGAATTAATATATCA
AAAATTTATTTGTTCTACTTGAAATCATATACATTCATCGTAAAAATAAACTTTACAATAAATA
TTTTATTATCTAGAGTAAAACATTTTTGATTCTTAAGCAATATCAAAACAATTCCATCATATTT
AAGCAAAAAATAACTAATTATAGTATATGTTTTAAATGATTTATACTGTAATATTTATTATTGT
CATTTTTGTTTGTTACATACGTCTTCGAATTATCACATTAAAAGAGAAAATTATTCTAACGATT
ATATATTTTCCCAAGACTGCACCCAATGTTAAATCTGATATGGAAAATAATTTTCTTACAACTT
TCAGATTTATTTTAAATATAAAAGTTAAGCAAAAACTATAATATATATATATTTGAGATTTCTA
TATGAGATAAAGTTCTAAAATAAATTAAAGTTTACAAAGGCAGAGAAATGAAGATTCATAATTA
GGTCAGGTGCTAAGCACAATCCTCCTCTAAGAAAATTTTGGTCGATACATTTTTAGCTGCAGTA
TTTTATTTCACCATAAGAATTAGTAACATGTTGGAAACAAAACGTACCTGAGATCAAAAGAAGA
GCTAGACAGAGAAATGTTAGACCATTTTTTTCTTCGATCAACAATGTCTCTCTATATATACCAC
ATTTTATACTATTCCCTAATATGTAAAACGATATTGCCATTTGTCATGTGATTATTATTAGGGT
GGGATTATCTTTGATTATCTTTTTGTTATAAAGTCAATGCGACAGTAATATGAAAGACACAAGG
ACGCGGATACAAATTATAATCTATAAGAAAAGAAAAAAAATTATTTTTAAAAGGGCTAAAAGAA
AACAAGGTTATTCAAATAATATTGACAAATTACACTTCTCGACAAATTTTTCTGTGTTTTTTGG
TTTCTCTATTCGCTCAGATTTTGTGAAACGTCTCTTCTGATTTTTTATTTTTTCCTATCGATCG
GCCAAAGGTTTTTGAATAGTCACTTTAAGATTCATTTCCAATCGAGGCCAAAGGTTTATCAAGA
GTCGATAGAATCTGCGGCATTGACATTCCCCCGGAAACAACAATCT
						
					

			
		

Sequences
Splice junction sequence	TTTGAATAGTCACTTTAAGATTCATTTCCAATCGAGGCCAAAGGTTTATCAAGAGTCGATAGAA TCTGCGGCATTGACATTCCCCCGGAAACAACAATCTcaattccttcccggaccgagaggtttgg cctgataacgtcattactgttgacaagtagtagatctccaatgtaaaggtggttcgtgggaacg tatacaca
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	CAATTCCTTCCCGGACCGAGAGGTTTGGCCTGATAACGTCATTACTGTTGACAAGTAGTAGATC TCCAATGTAAAGGTGGTTCGTGGGAACGTATACACAGCAAAGTTCCTCCTCGGTTGGATAGTTC TGCAAGGACGAAGGACATTATTACATTGGATAAACAAATGATGTAATTATAGTAAACCATGCCT CGAGATTGTATCTGCCTTCGTATCCTTTACCAAAATCGTTGAGCAAAGCAATTTCACTCACCTG GAGAACAACAGTTGATGTAATGAAGCCAAATGCGTATTCACCTACACGGGGATGCCTGATGATT GCAACTTCCTTGAAAGCTTGTGTATTTTGATCTGTGATGAGAAATGGATAAGAACAAGATGAGA TAGGAGATCAACTTAATGTTGAGAAGCAAAACAAGATTTTTATAAGCAAGCTAGACCAGGCGAT ATGGCAGTGCTGATTTGCTTGGAGGCGTTGTAGATGTGACGAACAAACGGCATCCGCTTGATAA ACCACTCTCCCAAGTTCAGAACCGATGCCCCCAACCACGAAGACATGAACACCCCAACCAAGAA GATGAATGCAATGGAAGTCAAAAAACCGAAACCTACAAAAAACCATAATCAAACTTATTGTGGG AAACGGAACGATATCAAATTGTTCATTCGATAAAGAAGGGCCACTCAAATTCTTACCAAATACG TTGATTCCAAGTTGTGCATATATTGGAGAGAAGAATCCATCGACAAAGTGAATAAACCACCATG TTATATAGAAAGTAATTGCAATAGGAAGTAGGATAACACTACAAAAAGCAATTGAGATTTGAAA CTATCAGCACAAATCTTGAATATGTGACAAGTTTCATCAAGCCAAAATTTCAGTAAACTCTTCC TTACCAGCCTGTCATGAACTTCTTTGACGCCCAGCCCCTAATGAACAAGCTTAAAGTCTGCAGA AAAATAGATAAAGCATCAGATCACAATGCTCCTATGTGTTATATATGCTTGAAAACATGAATTA GCATGACATAGAGACTCAAGAATCTGACAGATCCCAATAAAAACACTTAAGATCTAATGCAAAT TAATACTCTACTCAGTGAGGAAAGGTCAAATTTCTATAAGCATCTTAAGAATTAAGATCAGTGT TAACACACTACCAAACTTATCTAAGCAAGTGTTCTTGTAATATACTGAATCTAGGGCTAAACCA TGTTCCAAGATTTTGCACTAAGGGGTTTCTCAGAATGGGCCAAATCTCTGAAGACTAAATCTTG AAAAGACCTAAGAGCTTAAAACCAATCCAATTCAACTGTTAATTGCGCATGAATCTTGAAATGA GAAAACGAAGAACAAGATTTTTAGATCAGGTGACAAAAACTAGACCTCGTGGCTGGATTGATGC GAAGAAGAAGAAGCAGAGGAAGAAGAAGAAGGCTTCGAAGAAGAACCGTCGTCTTTGTCGCCGG AATCAGCGACGGGAATCAGAAGCTCTCGATCTCTTTCTCGATTGGCCATAACAATCACCGGCTT CTCGTCTCCCATCGCCAAGAAACCAAAGAGACAAGGAAATCTAGTCGGAGAAAAAGAAAGAAGA GAGAAATGCCGGTGAACTGTGAACGGCGGAGAGGAAAAAGGCTGAGACTTTTGCCGGCGACTGT TCTTTTGTAGCTAAGCTTAGCTAACTCCAACTTGAGCTCTCTGTCGTTTTTGGATTTTTCTTTT TATATCTGTCTTCTTTTATTTATCCTTTTCTTAATTATAACATGATTAATTTTTGTTTCAAATT ACTGTATACAAATTATTTTCAAAAGATGAAAAGATTAATTTTATTGTTGTGAATTAATATATCA AAAATTTATTTGTTCTACTTGAAATCATATACATTCATCGTAAAAATAAACTTTACAATAAATA TTTTATTATCTAGAGTAAAACATTTTTGATTCTTAAGCAATATCAAAACAATTCCATCATATTT AAGCAAAAAATAACTAATTATAGTATATGTTTTAAATGATTTATACTGTAATATTTATTATTGT CATTTTTGTTTGTTACATACGTCTTCGAATTATCACATTAAAAGAGAAAATTATTCTAACGATT ATATATTTTCCCAAGACTGCACCCAATGTTAAATCTGATATGGAAAATAATTTTCTTACAACTT TCAGATTTATTTTAAATATAAAAGTTAAGCAAAAACTATAATATATATATATTTGAGATTTCTA TATGAGATAAAGTTCTAAAATAAATTAAAGTTTACAAAGGCAGAGAAATGAAGATTCATAATTA GGTCAGGTGCTAAGCACAATCCTCCTCTAAGAAAATTTTGGTCGATACATTTTTAGCTGCAGTA TTTTATTTCACCATAAGAATTAGTAACATGTTGGAAACAAAACGTACCTGAGATCAAAAGAAGA GCTAGACAGAGAAATGTTAGACCATTTTTTTCTTCGATCAACAATGTCTCTCTATATATACCAC ATTTTATACTATTCCCTAATATGTAAAACGATATTGCCATTTGTCATGTGATTATTATTAGGGT GGGATTATCTTTGATTATCTTTTTGTTATAAAGTCAATGCGACAGTAATATGAAAGACACAAGG ACGCGGATACAAATTATAATCTATAAGAAAAGAAAAAAAATTATTTTTAAAAGGGCTAAAAGAA AACAAGGTTATTCAAATAATATTGACAAATTACACTTCTCGACAAATTTTTCTGTGTTTTTTGG TTTCTCTATTCGCTCAGATTTTGTGAAACGTCTCTTCTGATTTTTTATTTTTTCCTATCGATCG GCCAAAGGTTTTTGAATAGTCACTTTAAGATTCATTTCCAATCGAGGCCAAAGGTTTATCAAGA GTCGATAGAATCTGCGGCATTGACATTCCCCCGGAAACAACAATCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.710051095

Conservation Information
Conserved circRNAs	NA
PMCS	0.710051095

			
						 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
						Lu et al., 2015

circRNA

Detail information of 2_circ_ag.4

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