Plant Circular RNA Database

Detail information of AT4G16280_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT4G16280_circ_g.2
					
						ID in PlantcircBase
						ath_circ_031182
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 9207162-9211510  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT4G16280						
					
						Parent gene annotation
						
							Flowering time control protein FCA
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G16280_circ_g.1 AT4G16280_circ_g.3 AT4G16280_circ_g.4 AT4G16280_circ_g.5 AT4G16280_circ_g.6 AT4G16280_circ_g.7 AT4G16280_circ_g.8 AT4G16280_circ_g.9 						
					
						Support reads
						3
					
						Tissues
						inflorescences
					
						Exon boundary  
						
							No-No							"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  
						
							CC-AA							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
						AT4G16280.4:17
AT4G16280.1:17
AT4G16280.3:17
AT4G16280.2:17

General Information
CircRNA Name	AT4G16280_circ_g.2
ID in PlantcircBase	ath_circ_031182
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 9207162-9211510 JBrowse»
Reference genome	TAIR10.38
Type	ui-circRNA
Identification method	PcircRNA_finder
Parent gene	AT4G16280
Parent gene annotation	Flowering time control protein FCA
Parent gene strand	-
Alternative splicing	AT4G16280_circ_g.1 AT4G16280_circ_g.3 AT4G16280_circ_g.4 AT4G16280_circ_g.5 AT4G16280_circ_g.6 AT4G16280_circ_g.7 AT4G16280_circ_g.8 AT4G16280_circ_g.9
Support reads	3
Tissues	inflorescences
Exon boundary	No-No "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	CC-AA 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	AT4G16280.4:17 AT4G16280.1:17 AT4G16280.3:17 AT4G16280.2:17

			
						 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  
						
							AAGCCTCAGGGTAATTACCCCAGGAAGAGTGATCTGATTGTGCAGTGCTCTGATGGCTCTATCC
GCATCTTTCGAAGTTGCATATTTTACAAAACAACAGcctcaagctttattcttccacatgagtt
cttggggagattgacggctctgggaaaaagagatatgattgtaaagagaattaaggaaaaaaac
ggtttcaa

									
								

					

						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
						
							CCTCAAGCTTTATTCTTCCACATGAGTTCTTGGGGAGATTGACGGCTCTGGGAAAAAGAGATAT
GATTGTAAAGAGAATTAAGGAAAAAAACGGTTTCAACGAAAAAGAACATCTGAATACCAAAGGA
CGAATTATGAACAGAGAGAAGTTCTGAATCACTGATAAAAACCATAACTACCTGTTGAGTTCTT
GATATATCATTCATTGAAGCAGCTCCCACGGGTATATGTGTCCGAGCATAATCCTAGACAATCC
AAACAGAATAGAAAATAAGCTCTGCCTAAACCATTTTTAACCAAGGAAGGAAGTCATATCACTG
ATGTTTCTTTTTAAAATGACATTAAATCCAAGAACTCATTATGTTCTGTGATTAAATTCAAAGG
TACAGAAGGTATGGGAAATTGTTAATACAAAATGAGATATATACCTGAGCATTCTGACCAATTC
CTGACATAGGAAACTGCATTTTCCAGAAAAGAAAAAAAGATTTTCAACCAGAGAATATACGAAT
CAGATGAAGTTTTTGTTATTCTGATATGTTACAAAAACTACGCATCAGAGGAAGTCAATGTTGT
AACTGAGAATCAATCAGTTCAATGAAAAATAAGTCCACAGATTCAGATATGTACCTGGCTATTT
TGACCTACTGGCAATGATGGATACTGCATTTTAGAAAGGAAAATAGGCATTCACGTTAGAGATT
TGTTATCTGTATTTCAAAATGCTGGCAAAACCATGGCTACTGAATTTTACTTTAAGGTGGTCAA
TCTCCTTCTACCACAAGATTAGCATATCAAGAATCAAATCTTGAAATGAAAAATAAGTAAACAG
ATTAAACAGATATACACCTGAGTATTATGGCTGGCCCCTGGAGTTGGATACTGCAACTCCAAAT
GAACAAGAGTAAATATGCAAATTAGAAACCATGTGACAAAAATATTTGAATGTAACCAGCATGA
AAACGAAACCAACCAGTGAAGAATAAAACGGCTGCTGTAATTGCTGGCCCTGATATTGCTGCTG
AACTTGTTGTGGTTGTTGCTGCAACGGCTGTAATTGGGTCTGGGACTGCTGTATAGTTGGCTTC
TCTTGATGTTGTTGCTGTTTCTGTTGCTCTCGTTCGAACACTATCATTTCCTCAGGTTTTTCCC
ACTGCAAAAGTGAATTATATACATAATATGGCACGTACTGAAGGACTTCAAATATAAAATATAC
ATGTGTAAGGATTATCAATAGCACAATAAACCAGGAGGAATACTCCTGAAACTCACAAGGAAAT
ATATTAAAGAGGAACCACGTTTCTCACCTTGCTTTCACCCGTTAGACCATTGTAATAATATTTA
AATCCATCAGGCGAGGTATGCTCGGTCCAGGTACATTTGACAGAACCTACGCTCTGACTTACTG
CAGGTGCAGCTGTTTGCACATAGCTCACTGGTGTCGAACCAGTGGTGCTAGCCACTCTTGGAAT
TGCAGATCCAGCCCACTGATAAAGAAGCAGCCGAGAGGAACATTAGAAAAGGGGAGAATACTAA
AACACATGAAGGATAAAAAACGGGATGTCTATCAGGAAATAATTTTAAGTTAAAACAACACAAT
AGCAGCTGAAGAACCCGTCTGGGCAGATGCAACTGAGAGACTATATTCATACCTGTTGTTTACC
AGCTCGGCCATTCTGTGAGAGTGGTAAATTTTGGTTTGGTTGCTGCATAGACTGCACCTGCTGC
TGCAGCTGAGAAATTGCTTGCTGAGACGATTGGAATGTTGCTTGTAGACTCTGAGTTTGCTGCG
ACAAGAGCTGAGCTAGCTCAGAAGGAGGATGTTGCATCTTTTGTAGCGGTTGCTGCTGGGAACG
AGGGGGAAATTGAACAGTTGCAGAAGACACAGTTGTTGGCCGTAGATTAATGTTCAAAGGAGTT
TGAGGAGCAGTTGCACGACTGATGTTTTGCTGTGGTGGCAGCTGAGAGGTAGGCAACTGGCTGC
TATAAGCATAAGGATTCTGCAAGGGTGCCTGGGCCCCAGGGAAATTAGTTTGCGGACGGAGGGG
GAGAGGGAGACCCTGTGGACTGTGAAGAGGTTTTTTTAATGGTGTTATATGCTGGCCAGCTGCC
CGATTTTGCTATGGAATAGAAACAATTGAAAATCCAAGTTAATCATCACAACATTTTCAGATTT
GCTTAATTGGAAAAATATAGCTAAAGTACCTGTTGCAATGTGGCAGAAGATGAAACTCCAGGGA
CTGGGAGAGGGTTAAGGGGAGGAACACCATAACCACCTAACGGGCCACCCTAACAATATAGAAT
GTTACATTTAAAAAAGCTCACATCAGGGCTAGAAATTATTCAAAAAAAAAATTGCCTCAGTAAC
TGACAAACTGCAAATTAAGGCCATATCATTTGAGCAACACACATCGTGTTTGTTGCATTATATG
AAAAGTTGAAAGGTCAGAACTTCATGCTTCTTTTCACCTGTCATAAGCCCATGTGTGCAGTATA
TGAAGTACTTTCTTTTTATTTGTCTCGCACAATACATGCAAACTCTATGCGCTTACTTATATGA
ATGTGCAGATTTAAGATGATATACATGATCATCAACCTGTTCTCACCTGATTTGAAGGCAATGT
TGCTTGACCTGGTTTAGGGGAAAAGTCACTACCGGCACCACGGATCCCAGTGTTACTAGGTGGG
CCTACGTTTCGTGAAGTAGCTGGACGCCAAGGATTTGTGTGGCTTACATCCCCACTAGAGTCAC
CAAAGTTAGAGGTAGGCCTAACAAATAGAGATGAGGAGACCGGGGTAAGTCAACATATATAATT
ACCTAATGAGCATAATCATGATCTCCTTTCACACCAGTTACCTTGGTCCTGAAGCTTGAAAACG
AGGCCCTGAACCAAGTCCAACAGGAGGTGCCATTTCCCTGGAAACAGAAACTACTTAAGGATAT
CTAGAAAGCAATGCTTCACATTCCAGTAATAACTGGAGAAGGAACAGGGTTCCCAACTCTCCAC
CATGTCCAAAAGATTCTCCACAAATATAACTCAGACAGAACAAAGAATGAAGGTATATACAATT
TACTTGATAAGAGTATTAGGATTAATCAAAATATAGTACCCAAGGCATTACCTTGACTCGCCAG
GTTTAGGCCTCTTTGGCTCAGCAAACCGAACAATCAATGGCTGATTGCAACCCTGGGGAAAGGA
TAGAGGCCAGTAAACAAAACAGGTCCAAAGGGTGATAATGAGAGAAACTGAGATACTTATGTGA
TTCACAGCTTACTCTCATGGTATAAGTTCCGTTGAGACCATCGATAGCTGCCATTGCCGTCTCT
TTGCTTGAATATTTAACAAACCCACATCCTACAAAGTGAAAAACACAGTTTCACCATCTCAACA
TCATCACACAACAAATAATTTATAGAATCTAGTACAAATTACAAAACATACCACGACTCTGTCT
ATATTCATCCCGCATGAGATAGACATCTTCCACATGACCAAATTGTAAAAAGATCTGTTAAAGC
AATAACAATAAAACAGTTTGTTAAAAGATTACATGAGAAATTGAAACACATAAGTTGAACTGGG
AAGGTAGCCGTTCACATTTATTAATTTTATCTATTATGACAGTCAAACAGTTGGATCAATTGGA
AGAAGAGATTACACAGTAAGTAGAATGTCCAAGCGCTTGCATTATTGACACAGATTTTCTAGAC
ACTCACCCTTTGGTAAGACTAACAAAATTTATCAAAGAGTCATTTAAAATTATCAACTCAGGTA
ACAGGGGACACAATAATATCCAAGTTTAGAACTCTTCCCTGTTCCGTTAATCTGACATAAGTAA
CAACTTCAAAAAGTAAGATACGAAACATACCTCCTCAACTTCTTTTTCAGTGGCTTGCTTGTTT
AGTGAACCAACAAAAAGCTTAAACTCTAGGGTGCCTTCAGAAGAAGAGAACTATATCACTTGAT
AGTAAGGCAAAGAAAACAGGGAAAGAAAAGGATCAACATCCATAAAGTTCATATCATTTCCCAC
ATTTTCTTAATTTTTGTAATCTGAACTTATGCAGCGTATGGTCTTGGCTATGAACACTAGACAA
TGACAGCCACATTAGATACTCTGTGTGGAAGTTGATTACCTATGCGTTCTCTCTCCCCGTCAGC
ATATCGAACTTGAACAGGACCAGTTCCCTGGGAATCAACAAAATTATAAAAGGTGAAACAACCT
ATAGTTTCCTGTTCTTGATAAGAGAAAGCCTCAGGGTAATTACCCCAGGAAGAGTGATCTGATT
GTGCAGTGCTCTGATGGCTCTATCCGCATCTTTCGAAGTTGCATATTTTACAAAACAACAG
						
					

			
		

Sequences
Splice junction sequence	AAGCCTCAGGGTAATTACCCCAGGAAGAGTGATCTGATTGTGCAGTGCTCTGATGGCTCTATCC GCATCTTTCGAAGTTGCATATTTTACAAAACAACAGcctcaagctttattcttccacatgagtt cttggggagattgacggctctgggaaaaagagatatgattgtaaagagaattaaggaaaaaaac ggtttcaa
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	CCTCAAGCTTTATTCTTCCACATGAGTTCTTGGGGAGATTGACGGCTCTGGGAAAAAGAGATAT GATTGTAAAGAGAATTAAGGAAAAAAACGGTTTCAACGAAAAAGAACATCTGAATACCAAAGGA CGAATTATGAACAGAGAGAAGTTCTGAATCACTGATAAAAACCATAACTACCTGTTGAGTTCTT GATATATCATTCATTGAAGCAGCTCCCACGGGTATATGTGTCCGAGCATAATCCTAGACAATCC AAACAGAATAGAAAATAAGCTCTGCCTAAACCATTTTTAACCAAGGAAGGAAGTCATATCACTG ATGTTTCTTTTTAAAATGACATTAAATCCAAGAACTCATTATGTTCTGTGATTAAATTCAAAGG TACAGAAGGTATGGGAAATTGTTAATACAAAATGAGATATATACCTGAGCATTCTGACCAATTC CTGACATAGGAAACTGCATTTTCCAGAAAAGAAAAAAAGATTTTCAACCAGAGAATATACGAAT CAGATGAAGTTTTTGTTATTCTGATATGTTACAAAAACTACGCATCAGAGGAAGTCAATGTTGT AACTGAGAATCAATCAGTTCAATGAAAAATAAGTCCACAGATTCAGATATGTACCTGGCTATTT TGACCTACTGGCAATGATGGATACTGCATTTTAGAAAGGAAAATAGGCATTCACGTTAGAGATT TGTTATCTGTATTTCAAAATGCTGGCAAAACCATGGCTACTGAATTTTACTTTAAGGTGGTCAA TCTCCTTCTACCACAAGATTAGCATATCAAGAATCAAATCTTGAAATGAAAAATAAGTAAACAG ATTAAACAGATATACACCTGAGTATTATGGCTGGCCCCTGGAGTTGGATACTGCAACTCCAAAT GAACAAGAGTAAATATGCAAATTAGAAACCATGTGACAAAAATATTTGAATGTAACCAGCATGA AAACGAAACCAACCAGTGAAGAATAAAACGGCTGCTGTAATTGCTGGCCCTGATATTGCTGCTG AACTTGTTGTGGTTGTTGCTGCAACGGCTGTAATTGGGTCTGGGACTGCTGTATAGTTGGCTTC TCTTGATGTTGTTGCTGTTTCTGTTGCTCTCGTTCGAACACTATCATTTCCTCAGGTTTTTCCC ACTGCAAAAGTGAATTATATACATAATATGGCACGTACTGAAGGACTTCAAATATAAAATATAC ATGTGTAAGGATTATCAATAGCACAATAAACCAGGAGGAATACTCCTGAAACTCACAAGGAAAT ATATTAAAGAGGAACCACGTTTCTCACCTTGCTTTCACCCGTTAGACCATTGTAATAATATTTA AATCCATCAGGCGAGGTATGCTCGGTCCAGGTACATTTGACAGAACCTACGCTCTGACTTACTG CAGGTGCAGCTGTTTGCACATAGCTCACTGGTGTCGAACCAGTGGTGCTAGCCACTCTTGGAAT TGCAGATCCAGCCCACTGATAAAGAAGCAGCCGAGAGGAACATTAGAAAAGGGGAGAATACTAA AACACATGAAGGATAAAAAACGGGATGTCTATCAGGAAATAATTTTAAGTTAAAACAACACAAT AGCAGCTGAAGAACCCGTCTGGGCAGATGCAACTGAGAGACTATATTCATACCTGTTGTTTACC AGCTCGGCCATTCTGTGAGAGTGGTAAATTTTGGTTTGGTTGCTGCATAGACTGCACCTGCTGC TGCAGCTGAGAAATTGCTTGCTGAGACGATTGGAATGTTGCTTGTAGACTCTGAGTTTGCTGCG ACAAGAGCTGAGCTAGCTCAGAAGGAGGATGTTGCATCTTTTGTAGCGGTTGCTGCTGGGAACG AGGGGGAAATTGAACAGTTGCAGAAGACACAGTTGTTGGCCGTAGATTAATGTTCAAAGGAGTT TGAGGAGCAGTTGCACGACTGATGTTTTGCTGTGGTGGCAGCTGAGAGGTAGGCAACTGGCTGC TATAAGCATAAGGATTCTGCAAGGGTGCCTGGGCCCCAGGGAAATTAGTTTGCGGACGGAGGGG GAGAGGGAGACCCTGTGGACTGTGAAGAGGTTTTTTTAATGGTGTTATATGCTGGCCAGCTGCC CGATTTTGCTATGGAATAGAAACAATTGAAAATCCAAGTTAATCATCACAACATTTTCAGATTT GCTTAATTGGAAAAATATAGCTAAAGTACCTGTTGCAATGTGGCAGAAGATGAAACTCCAGGGA CTGGGAGAGGGTTAAGGGGAGGAACACCATAACCACCTAACGGGCCACCCTAACAATATAGAAT GTTACATTTAAAAAAGCTCACATCAGGGCTAGAAATTATTCAAAAAAAAAATTGCCTCAGTAAC TGACAAACTGCAAATTAAGGCCATATCATTTGAGCAACACACATCGTGTTTGTTGCATTATATG AAAAGTTGAAAGGTCAGAACTTCATGCTTCTTTTCACCTGTCATAAGCCCATGTGTGCAGTATA TGAAGTACTTTCTTTTTATTTGTCTCGCACAATACATGCAAACTCTATGCGCTTACTTATATGA ATGTGCAGATTTAAGATGATATACATGATCATCAACCTGTTCTCACCTGATTTGAAGGCAATGT TGCTTGACCTGGTTTAGGGGAAAAGTCACTACCGGCACCACGGATCCCAGTGTTACTAGGTGGG CCTACGTTTCGTGAAGTAGCTGGACGCCAAGGATTTGTGTGGCTTACATCCCCACTAGAGTCAC CAAAGTTAGAGGTAGGCCTAACAAATAGAGATGAGGAGACCGGGGTAAGTCAACATATATAATT ACCTAATGAGCATAATCATGATCTCCTTTCACACCAGTTACCTTGGTCCTGAAGCTTGAAAACG AGGCCCTGAACCAAGTCCAACAGGAGGTGCCATTTCCCTGGAAACAGAAACTACTTAAGGATAT CTAGAAAGCAATGCTTCACATTCCAGTAATAACTGGAGAAGGAACAGGGTTCCCAACTCTCCAC CATGTCCAAAAGATTCTCCACAAATATAACTCAGACAGAACAAAGAATGAAGGTATATACAATT TACTTGATAAGAGTATTAGGATTAATCAAAATATAGTACCCAAGGCATTACCTTGACTCGCCAG GTTTAGGCCTCTTTGGCTCAGCAAACCGAACAATCAATGGCTGATTGCAACCCTGGGGAAAGGA TAGAGGCCAGTAAACAAAACAGGTCCAAAGGGTGATAATGAGAGAAACTGAGATACTTATGTGA TTCACAGCTTACTCTCATGGTATAAGTTCCGTTGAGACCATCGATAGCTGCCATTGCCGTCTCT TTGCTTGAATATTTAACAAACCCACATCCTACAAAGTGAAAAACACAGTTTCACCATCTCAACA TCATCACACAACAAATAATTTATAGAATCTAGTACAAATTACAAAACATACCACGACTCTGTCT ATATTCATCCCGCATGAGATAGACATCTTCCACATGACCAAATTGTAAAAAGATCTGTTAAAGC AATAACAATAAAACAGTTTGTTAAAAGATTACATGAGAAATTGAAACACATAAGTTGAACTGGG AAGGTAGCCGTTCACATTTATTAATTTTATCTATTATGACAGTCAAACAGTTGGATCAATTGGA AGAAGAGATTACACAGTAAGTAGAATGTCCAAGCGCTTGCATTATTGACACAGATTTTCTAGAC ACTCACCCTTTGGTAAGACTAACAAAATTTATCAAAGAGTCATTTAAAATTATCAACTCAGGTA ACAGGGGACACAATAATATCCAAGTTTAGAACTCTTCCCTGTTCCGTTAATCTGACATAAGTAA CAACTTCAAAAAGTAAGATACGAAACATACCTCCTCAACTTCTTTTTCAGTGGCTTGCTTGTTT AGTGAACCAACAAAAAGCTTAAACTCTAGGGTGCCTTCAGAAGAAGAGAACTATATCACTTGAT AGTAAGGCAAAGAAAACAGGGAAAGAAAAGGATCAACATCCATAAAGTTCATATCATTTCCCAC ATTTTCTTAATTTTTGTAATCTGAACTTATGCAGCGTATGGTCTTGGCTATGAACACTAGACAA TGACAGCCACATTAGATACTCTGTGTGGAAGTTGATTACCTATGCGTTCTCTCTCCCCGTCAGC ATATCGAACTTGAACAGGACCAGTTCCCTGGGAATCAACAAAATTATAAAAGGTGAAACAACCT ATAGTTTCCTGTTCTTGATAAGAGAAAGCCTCAGGGTAATTACCCCAGGAAGAGTGATCTGATT GTGCAGTGCTCTGATGGCTCTATCCGCATCTTTCGAAGTTGCATATTTTACAAAACAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135270618

Conservation Information
Conserved circRNAs	NA
PMCS	0.135270618

			
						 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
						Chu et al., 2017

circRNA

Detail information of AT4G16280_circ_g.2

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