Plant Circular RNA Database

Detail information of AT3G02830_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT3G02830_circ_g.6
					
						ID in PlantcircBase
						ath_circ_019383
					
						Alias
						At_ciR1168
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 614257-615174  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							AT3G02830						
					
						Parent gene annotation
						
							Zinc finger CCCH domain-containing protein 33
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G02830_circ_g.3 AT3G02830_circ_g.4 AT3G02830_circ_g.5 AT3G02830_circ_g.7 						
					
						Support reads
						4/11/5
					
						Tissues
						leaf/root, aerial, whole_plant/seedlings
					
						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
						AT3G02830.2:4
AT3G02830.1:4

General Information
CircRNA Name	AT3G02830_circ_g.6
ID in PlantcircBase	ath_circ_019383
Alias	At_ciR1168
Organism	Arabidpsis thaliana
Position	chr3: 614257-615174 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, find_circ
Parent gene	AT3G02830
Parent gene annotation	Zinc finger CCCH domain-containing protein 33
Parent gene strand	+
Alternative splicing	AT3G02830_circ_g.3 AT3G02830_circ_g.4 AT3G02830_circ_g.5 AT3G02830_circ_g.7
Support reads	4/11/5
Tissues	leaf/root, aerial, whole_plant/seedlings
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	AT3G02830.2:4 AT3G02830.1:4

			
						 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  
						
							TTCTTTTATTGCCAGCCCTCGTTGGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAA
GGAGTTGTCCCGGTTCAAGGATGGAACCCTTACAGTatgcaatgtggcaaatgaatttgagttc
agatgaaacaatggaaactggttcttaccctgaacgaccaggagagcctgattgttcttattac
ataagaac

									
								

					

						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: 581
Transcript exons: 614257-614414,614548-614610,614730-614849,614935-615174
ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG
ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT
CGGTTCAACCATCCTCGTGATCGGGAACTGGTTATAGCTACTGCAAGGATGAGAGGAGAATACC
CTGAAAGGATTGGTCAGCCTGAATGCGAGTACTATTTGAAGACAGGAACCTGCAAGTTTGGAGT
AACATGTAAGTTTCATCATCCAAGGAACAAAGCTGGGATTGCTGGAAGAGTCTCTCTCAATATG
TTAGGCTATCCTCTACGCTCGAATGAGGTTGATTGTGCTTATTTCCTAAGAACCGGACACTGTA
AATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACCAACATGATGGTTCCTAC
CTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCAGCCCTCGTTGGCAAGAT
CCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGTTCAAGGATGGAACCCTT
ACAGT
Transcript length: 461
Transcript exons: 614257-615174
ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG
ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT
CGGTTCAACCATCCTCGTGATCGGGAACTGGTTATAGCTACTGCAAGGATGAGAGGAGAATACC
CTGAAAGGATTGGTCAGCCTGAATGCGAGAATGAGGTTGATTGTGCTTATTTCCTAAGAACCGG
ACACTGTAAATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACCAACATGATG
GTTCCTACCTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCAGCCCTCGTT
GGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGTTCAAGGATG
GAACCCTTACAGT
						
					

						Genomic sequence
						
							ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG
ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT
CGGTTCAACCATCCTCGTGATCGGGAACTGGTACGTTATGGTTTTTGTGTTCCTCTCTGTGATT
TTGGAGTTTAGAGATCTGTCTGGTCGGATTATAATGTCAAAGCTTTTGCCTTTTGGAATTTTGT
TTTTGAGCTCTTCTCTCTCATTGTCCAATTTCTAGGTTATAGCTACTGCAAGGATGAGAGGAGA
ATACCCTGAAAGGATTGGTCAGCCTGAATGCGAGGTAAGAATCTTTGGTTTGTCCAGTTGTAGA
TGAACATTTTGTCAAGGTTTGGTAATTGAGTCATCTTCTTACACAAACTAACTTAACATTTTGT
GGTGTTGTATGTTTTGGTTGCGCAGTACTATTTGAAGACAGGAACCTGCAAGTTTGGAGTAACA
TGTAAGTTTCATCATCCAAGGAACAAAGCTGGGATTGCTGGAAGAGTCTCTCTCAATATGTTAG
GCTATCCTCTACGCTCGGTATATTTGACTTTTTGACTTGCTGATTTCATTACTTCTCATTGTTT
CATCATCTTAGTGATTCTCTGTAATGTCATATATGCAGAATGAGGTTGATTGTGCTTATTTCCT
AAGAACCGGACACTGTAAATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACC
AACATGATGGTTCCTACCTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCA
GCCCTCGTTGGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGT
TCAAGGATGGAACCCTTACAGT
						
					

			
		

Sequences
Splice junction sequence	TTCTTTTATTGCCAGCCCTCGTTGGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAA GGAGTTGTCCCGGTTCAAGGATGGAACCCTTACAGTatgcaatgtggcaaatgaatttgagttc agatgaaacaatggaaactggttcttaccctgaacgaccaggagagcctgattgttcttattac ataagaac
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: 581 Transcript exons: 614257-614414,614548-614610,614730-614849,614935-615174 ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT CGGTTCAACCATCCTCGTGATCGGGAACTGGTTATAGCTACTGCAAGGATGAGAGGAGAATACC CTGAAAGGATTGGTCAGCCTGAATGCGAGTACTATTTGAAGACAGGAACCTGCAAGTTTGGAGT AACATGTAAGTTTCATCATCCAAGGAACAAAGCTGGGATTGCTGGAAGAGTCTCTCTCAATATG TTAGGCTATCCTCTACGCTCGAATGAGGTTGATTGTGCTTATTTCCTAAGAACCGGACACTGTA AATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACCAACATGATGGTTCCTAC CTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCAGCCCTCGTTGGCAAGAT CCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGTTCAAGGATGGAACCCTT ACAGT Transcript length: 461 Transcript exons: 614257-615174 ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT CGGTTCAACCATCCTCGTGATCGGGAACTGGTTATAGCTACTGCAAGGATGAGAGGAGAATACC CTGAAAGGATTGGTCAGCCTGAATGCGAGAATGAGGTTGATTGTGCTTATTTCCTAAGAACCGG ACACTGTAAATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACCAACATGATG GTTCCTACCTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCAGCCCTCGTT GGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGTTCAAGGATG GAACCCTTACAGT
Genomic sequence	ATGCAATGTGGCAAATGAATTTGAGTTCAGATGAAACAATGGAAACTGGTTCTTACCCTGAACG ACCAGGAGAGCCTGATTGTTCTTATTACATAAGAACTGGTCTTTGTAGATTTGGCTCTACTTGT CGGTTCAACCATCCTCGTGATCGGGAACTGGTACGTTATGGTTTTTGTGTTCCTCTCTGTGATT TTGGAGTTTAGAGATCTGTCTGGTCGGATTATAATGTCAAAGCTTTTGCCTTTTGGAATTTTGT TTTTGAGCTCTTCTCTCTCATTGTCCAATTTCTAGGTTATAGCTACTGCAAGGATGAGAGGAGA ATACCCTGAAAGGATTGGTCAGCCTGAATGCGAGGTAAGAATCTTTGGTTTGTCCAGTTGTAGA TGAACATTTTGTCAAGGTTTGGTAATTGAGTCATCTTCTTACACAAACTAACTTAACATTTTGT GGTGTTGTATGTTTTGGTTGCGCAGTACTATTTGAAGACAGGAACCTGCAAGTTTGGAGTAACA TGTAAGTTTCATCATCCAAGGAACAAAGCTGGGATTGCTGGAAGAGTCTCTCTCAATATGTTAG GCTATCCTCTACGCTCGGTATATTTGACTTTTTGACTTGCTGATTTCATTACTTCTCATTGTTT CATCATCTTAGTGATTCTCTGTAATGTCATATATGCAGAATGAGGTTGATTGTGCTTATTTCCT AAGAACCGGACACTGTAAATTTGGTGGTACTTGTAAATTCAACCACCCTCAGCCTCAACCAACC AACATGATGGTTCCTACCTCAGGGCAACAGTCTTATCCTTGGTCAAGAGCTTCTTTTATTGCCA GCCCTCGTTGGCAAGATCCGTCTAGCTACGCTTCCTTAATCATGCCTCAAGGAGTTGTCCCGGT TCAAGGATGGAACCCTTACAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.504167035

Conservation Information
Conserved circRNAs	NA
PMCS	0.504167035

			
						 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
						responsive to heat stress

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	responsive to heat stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017

circRNA

Detail information of AT3G02830_circ_g.6

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