Plant Circular RNA Database

Detail information of AT4G30975_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT4G30975_circ_g.4
					
						ID in PlantcircBase
						ath_circ_033757
					
						Alias
						At_ciR936, Ath_circ_FC0062, AT4G30975_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 15077028-15077410  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI, circRNA_finder, circseq_cup, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT4G30975_circ_g.1 AT4G30975_circ_g.2 AT4G30975_circ_g.3 						
					
						Support reads
						7/8
					
						Tissues
						leaf/root, aerial, seed, whole_plant
					
						Exon boundary  
						
							Yes-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  
						
							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
						NA

General Information
CircRNA Name	AT4G30975_circ_g.4
ID in PlantcircBase	ath_circ_033757
Alias	At_ciR936, Ath_circ_FC0062, AT4G30975_C1
Organism	Arabidpsis thaliana
Position	chr4: 15077028-15077410 JBrowse»
Reference genome	TAIR10.38
Type	ig-circRNA
Identification method	CIRI, circRNA_finder, circseq_cup, find_circ, CIRI-full, CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT4G30975_circ_g.1 AT4G30975_circ_g.2 AT4G30975_circ_g.3
Support reads	7/8
Tissues	leaf/root, aerial, seed, whole_plant
Exon boundary	Yes-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	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	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  
						
							GAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTC
TCTTTGCATATCATATAAACCGAGAACATTTCTCAGaaagatgatatcaaatatcatgtgggaa
gacatttcaaggatatatctaattcaaggtttatcggaagtgtacaggtaaaccaattaagtca
ctttacat

									
								

					

						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: 170
Transcript exons: 15077028-15077094,15077308-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCT
CTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 171
Transcript exons: 15077028-15077056,15077269-15077410
AAAGATGATATCAAATATCATGTGGGAAGCTTACACATTTGTAAGCATGGTGGATTAAGTGGCT
AGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCC
TCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 187
Transcript exons: 15077028-15077066,15077263-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGTAGATACTTACACATTTGTAAGCAT
GGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAG
ATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 190
Transcript exons: 15077028-15077095,15077289-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCA
CAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 192
Transcript exons: 15077028-15077066,15077258-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGATGTATAGATACTTACACATTTGTA
AGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATC
CACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 205
Transcript exons: 15077028-15077094,15077273-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCAC
TATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGA
GAACATTTCTCAG
Transcript length: 206
Transcript exons: 15077028-15077091,15077269-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
CTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCA
CTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCG
AGAACATTTCTCAG
Transcript length: 223
Transcript exons: 15077028-15077102,15077263-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAGTGTACAGTAGATACTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCC
AAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTT
GCATATCATATAAACCGAGAACATTTCTCAG
Transcript length: 383
Transcript exons: 15077028-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAGTGTACAGATACATACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAA
GATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCA
TATCATATAAACCGAGAACATTTCTCAG
Transcript length: 383
Transcript exons: 15077028-15077410
AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAGTGTACAGATACTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAA
GATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCA
TATCATATAAACCGAGAACATTTCTCAG
						
					

						Genomic sequence
						
							AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG
GAAGTGTACAGGTAAACCAATTAAGTCACTTTACATGAGCCTTCTAGCTTGTTGATCGTGGAGA
AACATCTATTTTAATTAGTACTCTGTTTGTTTACATAATTTGCGTTATACGTTTGTCATTGTTC
ATTAAATTTCACATTTTAAGAGTTTATGGTGGTTTATAATGTATAGATACTTACACATTTGTAA
GCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCC
ACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG
						
					

			
		

Sequences
Splice junction sequence	GAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTC TCTTTGCATATCATATAAACCGAGAACATTTCTCAGaaagatgatatcaaatatcatgtgggaa gacatttcaaggatatatctaattcaaggtttatcggaagtgtacaggtaaaccaattaagtca ctttacat
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: 170 Transcript exons: 15077028-15077094,15077308-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCT CTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 171 Transcript exons: 15077028-15077056,15077269-15077410 AAAGATGATATCAAATATCATGTGGGAAGCTTACACATTTGTAAGCATGGTGGATTAAGTGGCT AGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCC TCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 187 Transcript exons: 15077028-15077066,15077263-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGTAGATACTTACACATTTGTAAGCAT GGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCACAG ATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 190 Transcript exons: 15077028-15077095,15077289-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCCA CAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 192 Transcript exons: 15077028-15077066,15077258-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGATGTATAGATACTTACACATTTGTA AGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATC CACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 205 Transcript exons: 15077028-15077094,15077273-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCAC TATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGA GAACATTTCTCAG Transcript length: 206 Transcript exons: 15077028-15077091,15077269-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG CTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCA CTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCG AGAACATTTCTCAG Transcript length: 223 Transcript exons: 15077028-15077102,15077263-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAGTGTACAGTAGATACTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCC AAAGATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTT GCATATCATATAAACCGAGAACATTTCTCAG Transcript length: 383 Transcript exons: 15077028-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAGTGTACAGATACATACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAA GATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCA TATCATATAAACCGAGAACATTTCTCAG Transcript length: 383 Transcript exons: 15077028-15077410 AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAGTGTACAGATACTTACACATTTGTAAGCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAA GATTGGCAAAATCACTATGATCAGAATCCACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCA TATCATATAAACCGAGAACATTTCTCAG
Genomic sequence	AAAGATGATATCAAATATCATGTGGGAAGACATTTCAAGGATATATCTAATTCAAGGTTTATCG GAAGTGTACAGGTAAACCAATTAAGTCACTTTACATGAGCCTTCTAGCTTGTTGATCGTGGAGA AACATCTATTTTAATTAGTACTCTGTTTGTTTACATAATTTGCGTTATACGTTTGTCATTGTTC ATTAAATTTCACATTTTAAGAGTTTATGGTGGTTTATAATGTATAGATACTTACACATTTGTAA GCATGGTGGATTAAGTGGCTAGACAAGGAGCCAAAGATTGGCAAAATCACTATGATCAGAATCC ACAGATGCACCAGCACTTCCTCTCGTCTCTTTGCATATCATATAAACCGAGAACATTTCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.58002976

Conservation Information
Conserved circRNAs	NA
PMCS	0.58002976

			
						 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
						response to drought 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	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT4G30975_circ_g.4

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