Plant Circular RNA Database

Detail information of AT3G21430_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G21430_circ_g.2
					
						ID in PlantcircBase
						ath_circ_023101
					
						Alias
						Ath_circ_FC2110
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 7545202-7546658  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE
					
						Parent gene
						
							AT3G21430						
					
						Parent gene annotation
						
							Protein ALWAYS EARLY 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G21430_circ_g.1 						
					
						Support reads
						1
					
						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  
						
							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
						AT3G21430.3:4
AT3G21430.2:4
AT3G21430.4:4

General Information
CircRNA Name	AT3G21430_circ_g.2
ID in PlantcircBase	ath_circ_023101
Alias	Ath_circ_FC2110
Organism	Arabidpsis thaliana
Position	chr3: 7545202-7546658 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	KNIFE
Parent gene	AT3G21430
Parent gene annotation	Protein ALWAYS EARLY 3
Parent gene strand	-
Alternative splicing	AT3G21430_circ_g.1
Support reads	1
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	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	AT3G21430.3:4 AT3G21430.2:4 AT3G21430.4:4

			
						 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  
						
							GGATTTGTCCAATACTTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAGCCTCATCAACTCC
GTCTTGAGCTTGTGGATTTGAACTTGAGATATCTACctgaatcataagcaatgtagcgatacat
cgggacacaagatcggacgggacttgcaggtcattttgatcgggttggtttaggtgggaatcat
tggcagga

									
								

					

						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: 789
Transcript exons: 7545202-7545471,7545626-7545838,7545932-7546078,7546500-
7546658
CTGAATCATAAGCAATGTAGCGATACATCGGGACACAAGATCGGACGGGACTTGCAGGTCATTT
TGATCGGGTTGGTTTAGGTGGGAATCATTGGCAGGAGTTGAGCTAGGTGGATTTGGTGTAGAGG
GAAGACGCTGATCCTGGCCACCTTGTGTTTGCTGGACTGATGATCCTTCTGTTTGATCTATTGA
GAGCTGATTATTTACAAAATCAATGGCTTCTTCCATATTTACATTATTATTTTCGTCTTTTCTC
AGTAACTCCAATGCCTGTACAGCTCTGTATACCATTTTCCGTGCTTTTATTCTAGAACTTTCGA
CGATCTCAGACACATGGAATCCATTAGTGTCTGATGCATTATTGTCTTCGTATGTCAACTGACC
ATCAGGTTCCCCTGATTTACTCATGCGTCTTATTGATGAATATGGTACATTCTCCTGGTAAGTA
TTTCGTTGCCTCAAGCCAAGAAGTGCCAATGAAACCTGCTCATTGATTTCGCTTAGCTGAAAGA
GAACTGCTGCATATTGTTTCTTAAAAGATTCAGAATCCTTTAGGGCATTATTATGTCCATCTTT
CTGACTTTCCACAACCTCGTCGTTCATGCATTTTAGCTCCCTCAAAACTAGCTCCTTCTTGTCA
AGCGCACGCGTTAGTTCAGAAAGAGCTTGGACATCAGCTTCTCTTGCCTGGATTTGTCCAATAC
TTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAGCCTCATCAACTCCGTCTTGAGCTTGTGG
ATTTGAACTTGAGATATCTAC
						
					

						Genomic sequence
						
							CTGAATCATAAGCAATGTAGCGATACATCGGGACACAAGATCGGACGGGACTTGCAGGTCATTT
TGATCGGGTTGGTTTAGGTGGGAATCATTGGCAGGAGTTGAGCTAGGTGGATTTGGTGTAGAGG
GAAGACGCTGATCCTGGCCACCTTGTGTTTGCTGGACTGATGATCCTTCTGTTTGATCTATTGA
GAGCTGATTATTTACAAAATCAATGGCTTCTTCCATATTTACATTATTATTTTCGTCTTTTCTC
AGTAACTCCAATGCCTGCACCAGAAACAGAGACAAAATCATTACGTAGCCGAAACTGTTGAACT
TAGACCTTGCGAAGCGCAACCAATGATGAGTAAATTATCCACTCAGAAGCTTTTTCATATGTGA
ATCCCAAACATAGAAACAGGTGAACTCGTTATACACACACCTGTACAGCTCTGTATACCATTTT
CCGTGCTTTTATTCTAGAACTTTCGACGATCTCAGACACATGGAATCCATTAGTGTCTGATGCA
TTATTGTCTTCGTATGTCAACTGACCATCAGGTTCCCCTGATTTACTCATGCGTCTTATTGATG
AATATGGTACATTCTCCTGGTAAGTATTTCGTTGCCTCAAGCCAAGAAGTGCCAATGAAACCTG
TGCATAGCAAGACACAAAATGCGATACATCAGAAGCTGTATGTAGTAAAGACAACAAGATGACT
CATATAGTTCCTTCATAAACTCATGCCTGCTCATTGATTTCGCTTAGCTGAAAGAGAACTGCTG
CATATTGTTTCTTAAAAGATTCAGAATCCTTTAGGGCATTATTATGTCCATCTTTCTGACTTTC
CACAACCTCGTCGTTCATGCATTTTAGCTCCCTCAAAACTAGCTCCTGTAGTGTTGTAGATCAA
CAATTAGTTGAAATGGAAACCATAATGTCGAAAGAGCATGAAAAACATGGAAGACATGCATGAA
CGAGAAGGAAACTATATACAAATGGAGTGAATAAACATACCGAACCTCAAAATTTTATGAGTCC
ATTAAAGCATTAGTAATATTTATGATTTCATATTTTCTTATTAGTCAATTAGAAACTTTTATTC
TATTCAACCACATCCTAATGAAATCTCTACTATAATGTGAAGGAAACAAAAAAATTAACGATAG
CACGCCTGTTATGAATATGGAAAGATATAAAATGCAACCCGGCCATAGAAAAAGAAAATATAAG
AGAGTTAAAATTGTATAGAAGACTGAGAATTAAGAACGGAAACATATCACATATGTATAGACTG
AGAATTAACTGGCCAAACCTTCTTGTCAAGCGCACGCGTTAGTTCAGAAAGAGCTTGGACATCA
GCTTCTCTTGCCTGGATTTGTCCAATACTTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAG
CCTCATCAACTCCGTCTTGAGCTTGTGGATTTGAACTTGAGATATCTAC
						
					

			
		

Sequences
Splice junction sequence	GGATTTGTCCAATACTTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAGCCTCATCAACTCC GTCTTGAGCTTGTGGATTTGAACTTGAGATATCTACctgaatcataagcaatgtagcgatacat cgggacacaagatcggacgggacttgcaggtcattttgatcgggttggtttaggtgggaatcat tggcagga
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: 789 Transcript exons: 7545202-7545471,7545626-7545838,7545932-7546078,7546500- 7546658 CTGAATCATAAGCAATGTAGCGATACATCGGGACACAAGATCGGACGGGACTTGCAGGTCATTT TGATCGGGTTGGTTTAGGTGGGAATCATTGGCAGGAGTTGAGCTAGGTGGATTTGGTGTAGAGG GAAGACGCTGATCCTGGCCACCTTGTGTTTGCTGGACTGATGATCCTTCTGTTTGATCTATTGA GAGCTGATTATTTACAAAATCAATGGCTTCTTCCATATTTACATTATTATTTTCGTCTTTTCTC AGTAACTCCAATGCCTGTACAGCTCTGTATACCATTTTCCGTGCTTTTATTCTAGAACTTTCGA CGATCTCAGACACATGGAATCCATTAGTGTCTGATGCATTATTGTCTTCGTATGTCAACTGACC ATCAGGTTCCCCTGATTTACTCATGCGTCTTATTGATGAATATGGTACATTCTCCTGGTAAGTA TTTCGTTGCCTCAAGCCAAGAAGTGCCAATGAAACCTGCTCATTGATTTCGCTTAGCTGAAAGA GAACTGCTGCATATTGTTTCTTAAAAGATTCAGAATCCTTTAGGGCATTATTATGTCCATCTTT CTGACTTTCCACAACCTCGTCGTTCATGCATTTTAGCTCCCTCAAAACTAGCTCCTTCTTGTCA AGCGCACGCGTTAGTTCAGAAAGAGCTTGGACATCAGCTTCTCTTGCCTGGATTTGTCCAATAC TTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAGCCTCATCAACTCCGTCTTGAGCTTGTGG ATTTGAACTTGAGATATCTAC
Genomic sequence	CTGAATCATAAGCAATGTAGCGATACATCGGGACACAAGATCGGACGGGACTTGCAGGTCATTT TGATCGGGTTGGTTTAGGTGGGAATCATTGGCAGGAGTTGAGCTAGGTGGATTTGGTGTAGAGG GAAGACGCTGATCCTGGCCACCTTGTGTTTGCTGGACTGATGATCCTTCTGTTTGATCTATTGA GAGCTGATTATTTACAAAATCAATGGCTTCTTCCATATTTACATTATTATTTTCGTCTTTTCTC AGTAACTCCAATGCCTGCACCAGAAACAGAGACAAAATCATTACGTAGCCGAAACTGTTGAACT TAGACCTTGCGAAGCGCAACCAATGATGAGTAAATTATCCACTCAGAAGCTTTTTCATATGTGA ATCCCAAACATAGAAACAGGTGAACTCGTTATACACACACCTGTACAGCTCTGTATACCATTTT CCGTGCTTTTATTCTAGAACTTTCGACGATCTCAGACACATGGAATCCATTAGTGTCTGATGCA TTATTGTCTTCGTATGTCAACTGACCATCAGGTTCCCCTGATTTACTCATGCGTCTTATTGATG AATATGGTACATTCTCCTGGTAAGTATTTCGTTGCCTCAAGCCAAGAAGTGCCAATGAAACCTG TGCATAGCAAGACACAAAATGCGATACATCAGAAGCTGTATGTAGTAAAGACAACAAGATGACT CATATAGTTCCTTCATAAACTCATGCCTGCTCATTGATTTCGCTTAGCTGAAAGAGAACTGCTG CATATTGTTTCTTAAAAGATTCAGAATCCTTTAGGGCATTATTATGTCCATCTTTCTGACTTTC CACAACCTCGTCGTTCATGCATTTTAGCTCCCTCAAAACTAGCTCCTGTAGTGTTGTAGATCAA CAATTAGTTGAAATGGAAACCATAATGTCGAAAGAGCATGAAAAACATGGAAGACATGCATGAA CGAGAAGGAAACTATATACAAATGGAGTGAATAAACATACCGAACCTCAAAATTTTATGAGTCC ATTAAAGCATTAGTAATATTTATGATTTCATATTTTCTTATTAGTCAATTAGAAACTTTTATTC TATTCAACCACATCCTAATGAAATCTCTACTATAATGTGAAGGAAACAAAAAAATTAACGATAG CACGCCTGTTATGAATATGGAAAGATATAAAATGCAACCCGGCCATAGAAAAAGAAAATATAAG AGAGTTAAAATTGTATAGAAGACTGAGAATTAAGAACGGAAACATATCACATATGTATAGACTG AGAATTAACTGGCCAAACCTTCTTGTCAAGCGCACGCGTTAGTTCAGAAAGAGCTTGGACATCA GCTTCTCTTGCCTGGATTTGTCCAATACTTGAGGGCTGAGAATTAAACAATTGTAAAGCAAGAG CCTCATCAACTCCGTCTTGAGCTTGTGGATTTGAACTTGAGATATCTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.206133143

Conservation Information
Conserved circRNAs	NA
PMCS	0.206133143

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7546052-7545204(-)
						
						Potential amino acid sequence
						
							MNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQRNTYQENVPYSSIR
RMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALELLRKDENNNVNMEE
AIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQPDQNDLQVPSDLVSR
CIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQALSELTRALDKKEL
VLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQRNTYQEN
VPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALELLRKDEN
NNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQPDQNDLQV
PSDLVSRCIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQALSELTR
ALDKKELVLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQ
RNTYQENVPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALE
LLRKDENNNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQP
DQNDLQVPSDLVSRCIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQ
ALSELTRALDKKELVLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSL
ALLGLRQRNTYQENVPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVY
RAVQALELLRKDENNNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPAN
DSHLNQPDQNDLQVPSDLVSRCIATLLMIQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7546052-7545204(-)
Potential amino acid sequence	MNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQRNTYQENVPYSSIR RMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALELLRKDENNNVNMEE AIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQPDQNDLQVPSDLVSR CIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQALSELTRALDKKEL VLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQRNTYQEN VPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALELLRKDEN NNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQPDQNDLQV PSDLVSRCIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQALSELTR ALDKKELVLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSLALLGLRQ RNTYQENVPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVYRAVQALE LLRKDENNNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPANDSHLNQP DQNDLQVPSDLVSRCIATLLMIQVDISSSNPQAQDGVDEALALQLFNSQPSSIGQIQAREADVQ ALSELTRALDKKELVLRELKCMNDEVVESQKDGHNNALKDSESFKKQYAAVLFQLSEINEQVSL ALLGLRQRNTYQENVPYSSIRRMSKSGEPDGQLTYEDNNASDTNGFHVSEIVESSRIKARKMVY RAVQALELLRKDENNNVNMEEAIDFVNNQLSIDQTEGSSVQQTQGGQDQRLPSTPNPPSSTPAN DSHLNQPDQNDLQVPSDLVSRCIATLLMIQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT3G21430_circ_g.2

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