Plant Circular RNA Database

Detail information of AT2G24120_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT2G24120_circ_g.7
					
						ID in PlantcircBase
						ath_circ_014622
					
						Alias
						At_ciR1016, Ath_circ_FC1314
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 10250325-10251196  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT2G24120						
					
						Parent gene annotation
						
							DNA-directed RNA polymerase 3, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G24120_circ_g.1 AT2G24120_circ_g.2 AT2G24120_circ_g.3 AT2G24120_circ_g.4 AT2G24120_circ_g.5 AT2G24120_circ_g.6 						
					
						Support reads
						6
					
						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
						AT2G24120.2:5
AT2G24120.1:5

General Information
CircRNA Name	AT2G24120_circ_g.7
ID in PlantcircBase	ath_circ_014622
Alias	At_ciR1016, Ath_circ_FC1314
Organism	Arabidpsis thaliana
Position	chr2: 10250325-10251196 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT2G24120
Parent gene annotation	DNA-directed RNA polymerase 3, chloroplastic
Parent gene strand	-
Alternative splicing	AT2G24120_circ_g.1 AT2G24120_circ_g.2 AT2G24120_circ_g.3 AT2G24120_circ_g.4 AT2G24120_circ_g.5 AT2G24120_circ_g.6
Support reads	6
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	AT2G24120.2:5 AT2G24120.1:5

			
						 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  
						
							AGCTACTCCATTCAAAATTGATATGATACCTCCGTGAAATTTCAGAGTAGACATCAGCTGGTTT
TTCTCCTGCAACTAGATTAACTGCCGCAGCTTCAAAcagatgtctttcacttctgcaatagggt
tgcacaacaggaagcccaagaggggtgatccatcgcactggatgattatcggaagcaattatct
gtaaaatt

						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: 474
Transcript exons: 10250325-10250414,10250509-10250583,10250671-10250823,10
250906-10250990,10251126-10251196
CAGATGTCTTTCACTTCTGCAATAGGGTTGCACAACAGGAAGCCCAAGAGGGGTGATCCATCGC
ACTGGATGATTATCGGAAGCAATTATCTTTGCACAATCACCAAGCCAACTCATAATGGCACGTG
CCGCTTCAAATATCTCTCCAAGGGCAGCTAGCGTCACTTTTGCAGAATAGCAAGCAGCAGCAAA
TAACATTCTCTCGTCAGTGATAACACCTTTCTCTTCTAATCTTCTTTTTATTTGTTCACGAGCC
CCTACATAGGTGACACCATATACTGACGTCATTACCGTCTGCTTTACCAGCTTCCTGTCGACTT
GAGTGATAAGGATCTTTGCCAGTGCGGCGGTTGGGTTTGACTCAGGATCCTTACTGCTGTCCTT
CTTCATTATTTCATGAACTCTCCGTGAAATTTCAGAGTAGACATCAGCTGGTTTTTCTCCTGCA
ACTAGATTAACTGCCGCAGCTTCAAA
						
						Genomic sequence
						
							CAGATGTCTTTCACTTCTGCAATAGGGTTGCACAACAGGAAGCCCAAGAGGGGTGATCCATCGC
ACTGGATGATTATCGGAAGCAATTATCTGTAAAATTGACAAGTCAAAAAGAAAACACTAGTAAG
TCTCTATTTACTAAACGTAGAAGAGCAGAGTTAATAAACATGCTACAAGACCACACCTTTGCAC
AATCACCAAGCCAACTCATAATGGCACGTGCCGCTTCAAATATCTCTCCAAGGGCAGCTAGCGT
CACCTGAGGAGAAATGTTTCAAGTATAACATTAGTACATAGCTAAAAACAAAATAACATTTATC
CGCGTGAATGCCACTATTCTTCTTACTTTTGCAGAATAGCAAGCAGCAGCAAATAACATTCTCT
CGTCAGTGATAACACCTTTCTCTTCTAATCTTCTTTTTATTTGTTCACGAGCCCCTACATAGGT
GACACCATATACTGACGTCATTACCGTCTGCTTTACCAGCTTCCTGTCGACCTGAAATTAGAAG
AAAACATTGCATCACTGGGAAGAACTTTTGCTGTGGCATAATGTTCAATCAAAAACCGTTGATA
CTCACTTGAGTGATAAGGATCTTTGCCAGTGCGGCGGTTGGGTTTGACTCAGGATCCTTACTGC
TGTCCTTCTTCATTATTTCATGAACTCTATCTCAGCACAAGCAAAGAAGAGAGGAGTGAGAAAG
AGAGACAGAGAGAAAAACCATAAGAAGCTACACCTGACATGATTCCAACTCGAATAAATGAAAT
TGACAGCTACTCCATTCAAAATTGATATGATACCTCCGTGAAATTTCAGAGTAGACATCAGCTG
GTTTTTCTCCTGCAACTAGATTAACTGCCGCAGCTTCAAA

Sequences
Splice junction sequence	AGCTACTCCATTCAAAATTGATATGATACCTCCGTGAAATTTCAGAGTAGACATCAGCTGGTTT TTCTCCTGCAACTAGATTAACTGCCGCAGCTTCAAAcagatgtctttcacttctgcaatagggt tgcacaacaggaagcccaagaggggtgatccatcgcactggatgattatcggaagcaattatct gtaaaatt
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: 474 Transcript exons: 10250325-10250414,10250509-10250583,10250671-10250823,10 250906-10250990,10251126-10251196 CAGATGTCTTTCACTTCTGCAATAGGGTTGCACAACAGGAAGCCCAAGAGGGGTGATCCATCGC ACTGGATGATTATCGGAAGCAATTATCTTTGCACAATCACCAAGCCAACTCATAATGGCACGTG CCGCTTCAAATATCTCTCCAAGGGCAGCTAGCGTCACTTTTGCAGAATAGCAAGCAGCAGCAAA TAACATTCTCTCGTCAGTGATAACACCTTTCTCTTCTAATCTTCTTTTTATTTGTTCACGAGCC CCTACATAGGTGACACCATATACTGACGTCATTACCGTCTGCTTTACCAGCTTCCTGTCGACTT GAGTGATAAGGATCTTTGCCAGTGCGGCGGTTGGGTTTGACTCAGGATCCTTACTGCTGTCCTT CTTCATTATTTCATGAACTCTCCGTGAAATTTCAGAGTAGACATCAGCTGGTTTTTCTCCTGCA ACTAGATTAACTGCCGCAGCTTCAAA
Genomic sequence	CAGATGTCTTTCACTTCTGCAATAGGGTTGCACAACAGGAAGCCCAAGAGGGGTGATCCATCGC ACTGGATGATTATCGGAAGCAATTATCTGTAAAATTGACAAGTCAAAAAGAAAACACTAGTAAG TCTCTATTTACTAAACGTAGAAGAGCAGAGTTAATAAACATGCTACAAGACCACACCTTTGCAC AATCACCAAGCCAACTCATAATGGCACGTGCCGCTTCAAATATCTCTCCAAGGGCAGCTAGCGT CACCTGAGGAGAAATGTTTCAAGTATAACATTAGTACATAGCTAAAAACAAAATAACATTTATC CGCGTGAATGCCACTATTCTTCTTACTTTTGCAGAATAGCAAGCAGCAGCAAATAACATTCTCT CGTCAGTGATAACACCTTTCTCTTCTAATCTTCTTTTTATTTGTTCACGAGCCCCTACATAGGT GACACCATATACTGACGTCATTACCGTCTGCTTTACCAGCTTCCTGTCGACCTGAAATTAGAAG AAAACATTGCATCACTGGGAAGAACTTTTGCTGTGGCATAATGTTCAATCAAAAACCGTTGATA CTCACTTGAGTGATAAGGATCTTTGCCAGTGCGGCGGTTGGGTTTGACTCAGGATCCTTACTGC TGTCCTTCTTCATTATTTCATGAACTCTATCTCAGCACAAGCAAAGAAGAGAGGAGTGAGAAAG AGAGACAGAGAGAAAAACCATAAGAAGCTACACCTGACATGATTCCAACTCGAATAAATGAAAT TGACAGCTACTCCATTCAAAATTGATATGATACCTCCGTGAAATTTCAGAGTAGACATCAGCTG GTTTTTCTCCTGCAACTAGATTAACTGCCGCAGCTTCAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.259015769

Conservation Information
Conserved circRNAs	NA
PMCS	0.259015769

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10250978-10250327(-)
						
						Potential amino acid sequence
						
							MKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAREQIKRRLEEKGVITDER
MLFAAACYSAKVTLAALGEIFEAARAIMSWLGDCAKIIASDNHPVRWITPLGLPVVQPYCRSER
HLFEAAAVNLVAGEKPADVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTV
MTSVYGVTYVGAREQIKRRLEEKGVITDERMLFAAACYSAKVTLAALGEIFEAARAIMSWLGDC
AKIIASDNHPVRWITPLGLPVVQPYCRSERHLFEAAAVNLVAGEKPADVYSEISRRVHEIMKKD
SSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAREQIKRRLEEKGVITDERMLFA
AACYSAKVTLAALGEIFEAARAIMSWLGDCAKIIASDNHPVRWITPLGLPVVQPYCRSERHLFE
AAAVNLVAGEKPADVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSV
YGVTYVGAREQIKRRLEEKGVITDERMLFAAACYSAKVTLAALGEIFEAARAIMSWLGDCAKII
ASDNHPVRWITPLGLPVVQPYCRSERHL(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10250978-10250327(-)
Potential amino acid sequence	MKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAREQIKRRLEEKGVITDER MLFAAACYSAKVTLAALGEIFEAARAIMSWLGDCAKIIASDNHPVRWITPLGLPVVQPYCRSER HLFEAAAVNLVAGEKPADVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTV MTSVYGVTYVGAREQIKRRLEEKGVITDERMLFAAACYSAKVTLAALGEIFEAARAIMSWLGDC AKIIASDNHPVRWITPLGLPVVQPYCRSERHLFEAAAVNLVAGEKPADVYSEISRRVHEIMKKD SSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAREQIKRRLEEKGVITDERMLFA AACYSAKVTLAALGEIFEAARAIMSWLGDCAKIIASDNHPVRWITPLGLPVVQPYCRSERHLFE AAAVNLVAGEKPADVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSV YGVTYVGAREQIKRRLEEKGVITDERMLFAAACYSAKVTLAALGEIFEAARAIMSWLGDCAKII ASDNHPVRWITPLGLPVVQPYCRSERHL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chen et al., 2017a

circRNA

Detail information of AT2G24120_circ_g.7

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