Plant Circular RNA Database

Detail information of AT3G21070_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT3G21070_circ_g.4
					
						ID in PlantcircBase
						ath_circ_023052
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 7381738-7383503  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT3G21070						
					
						Parent gene annotation
						
							NAD kinase 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G21070_circ_g.2 AT3G21070_circ_g.3 AT3G21070_circ_g.5 AT3G21070_circ_g.6 AT3G21070_circ_g.7 AT3G21070_circ_g.8 						
					
						Support reads
						5
					
						Tissues
						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  
						
							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
						AT3G21070.4:6
AT3G21070.3:6
AT3G21070.1:6
AT3G21070.2:6

General Information
CircRNA Name	AT3G21070_circ_g.4
ID in PlantcircBase	ath_circ_023052
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 7381738-7383503 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	AT3G21070
Parent gene annotation	NAD kinase 1
Parent gene strand	-
Alternative splicing	AT3G21070_circ_g.2 AT3G21070_circ_g.3 AT3G21070_circ_g.5 AT3G21070_circ_g.6 AT3G21070_circ_g.7 AT3G21070_circ_g.8
Support reads	5
Tissues	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	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	AT3G21070.4:6 AT3G21070.3:6 AT3G21070.1:6 AT3G21070.2:6

			
						 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  
						
							CCTGAACAGCCTTCTCTGATTGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTCGG
CAACAAACTCTTTGCATCTCCATTTGCAAATGAATCcatcttcccaagtttgtacgaagttgaa
ggaacttgattctgataagagttcttcctttactcgaggttccacataaatatttagtcctttt
tgcgttct

									
								

					

						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: 784
Transcript exons: 7381738-7381844,7382112-7382206,7382352-7382465,7382825-
7383000,7383125-7383244,7383332-7383503
CATCTTCCCAAGTTTGTACGAAGTTGAAGGAACTTGATTCTGATAAGAGTTCTTCCTTTACTCG
AGGTTCCACATAAATATTTAGTCCTTTTTGCGTTCTCAACCATCTGACCATATCCACAGAGAGA
ACTCGCACGGAAGTTGAATTAGGCTTAGTGATAATAAGTACAGTTTGTGGATCAGACTCCCATG
TCAGTGAAATCTGTTTACTACTGCGCTCTGCTGTGCTGATATTCCCTCTCTCAAACGAAACAAT
TTCTTTTTTGTGTTGATCATTAGCCATCCCCTTACATCCCCATGAAAGTTTAAATGATGCCTTC
CTCTTCAATTTGTTATTAAAACTGTTAAATCCACCATCTTGGAGCACTTCATGAGAGCAAATAG
TCTCCATGCCATTAGAACTGATTTCCTGAGCATAAAGCCGCGGAGACTTTGCTAAGTGCTCCAT
CCTTTGACCATTAGATTCATCGGCACACACTCCATTTGACAGTTCTTTATGCTGCAACTCCACG
TTCTTAGACCTCTCTAACTCGTATCTACGCTTCCATTCAGCAGCCTCAGCTTGAGCCAACGCCT
TTCCTTCAGCAGCTCCCCTTAGTGCCTTTGCAACAGTTCTCAAAGCCTCAGAGAACTCAACGAG
ATGGTCGTCAGTAGCCTGCATAGGAGTCTGTTGAAGAAGAAGCTCCTGAACAGCCTTCTCTGAT
TGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTCGGCAACAAACTCTTTGCATCTC
CATTTGCAAATGAATC
						
					

						Genomic sequence
						
							CATCTTCCCAAGTTTGTACGAAGTTGAAGGAACTTGATTCTGATAAGAGTTCTTCCTTTACTCG
AGGTTCCACATAAATATTTAGTCCTTTTTGCGTTCTCAACCATCTGAAATGGAGACAAATCAAA
ATCTAATTACTTCATCTGAACCAAGAATCTACTTTCCAAATAAGAACATACATAAGCTACAGTA
GTTTGTGAGACACATAAATAAAAGAGATGAAGCAGCAAAGCAGAAATTCAGAGAGAGATTCAGA
AACTAATCATGTGGTTAGGCCGTTAGGGTAGCATATTCTTAACAATGGAGCCGATTTATCTTTC
TCGAAGAGTACTGAAACTCATTGTAGAAATGACCTGCAAAATATAAACACTGACCTGACCATAT
CCACAGAGAGAACTCGCACGGAAGTTGAATTAGGCTTAGTGATAATAAGTACAGTTTGTGGATC
AGACTCCCATGTCAGTGAAATCTGAAATTAGAAGTTGTTAGGTTTAGTCTACAAAACACCTTAC
CAAGCAACTAAAGTAATATGAATTGAGAACAAATATTTTCCATCAGTTGTAAATTCAGAGATGG
GAAACAGAAAGATAGAGAAGATGAAACAATAGTCCTACCTGTTTACTACTGCGCTCTGCTGTGC
TGATATTCCCTCTCTCAAACGAAACAATTTCTTTTTTGTGTTGATCATTAGCCATCCCCTTACA
TCCCCATGAAAGTTTAAATGATGCCTGCAGCCAATTTCATAGATATTTCAATATTAGAATAGAG
TTTTCATTCTTTCCTTATTGTTTTAGGCTTTTAGCCTAATCATTTCCTGCAACAGCGTTGCCAG
TTTTGAATGTCAAAGTAATTGGGACACAGCAAATGCAAAGATACATTAACAACTCTGACGGACC
AATATTCGTCAACATCTGATACTAGAATGTGTTAGTCCAACAAAGGCTAATGTAAGATTCATCA
CAGGTACATAAATTCCAGAGGACTTATTCAAAAAATGCACAGAGGTTGATATTTGTTTACTTAT
GCTTACTGACTTGCATAGCCAAAAATATAAAAGCAAGGATAGTAACAGTCAACTATATATTACC
TTCCTCTTCAATTTGTTATTAAAACTGTTAAATCCACCATCTTGGAGCACTTCATGAGAGCAAA
TAGTCTCCATGCCATTAGAACTGATTTCCTGAGCATAAAGCCGCGGAGACTTTGCTAAGTGCTC
CATCCTTTGACCATTAGATTCATCGGCACACACTCCATTTGACAGTTCTGTAAAACAAGCCAGG
AATTCTGTTATTCAAACATATCCATGGCCAAAAACACCATTCAAATCAAAATTACTAGAACTAA
ATGGTGAACATTTTATAACAACCCTTTGAAGTTAGTAGAGAACCTTTATGCTGCAACTCCACGT
TCTTAGACCTCTCTAACTCGTATCTACGCTTCCATTCAGCAGCCTCAGCTTGAGCCAACGCCTT
TCCTTCAGCAGCTCCCCTTAGTGCCTTTGCAACAGCTACAATATCCCAGAAACTGAAAAATTAA
ATCCCATATCCAAAGGATATAGTACAGCTCATGTTACACATATCGAAATCTTGCTTACTTCTCA
AAGCCTCAGAGAACTCAACGAGATGGTCGTCAGTAGCCTGCATAGGAGTCTGTTGAAGAAGAAG
CTCCTGAACAGCCTTCTCTGATTGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTC
GGCAACAAACTCTTTGCATCTCCATTTGCAAATGAATC
						
					

			
		

Sequences
Splice junction sequence	CCTGAACAGCCTTCTCTGATTGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTCGG CAACAAACTCTTTGCATCTCCATTTGCAAATGAATCcatcttcccaagtttgtacgaagttgaa ggaacttgattctgataagagttcttcctttactcgaggttccacataaatatttagtcctttt tgcgttct
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: 784 Transcript exons: 7381738-7381844,7382112-7382206,7382352-7382465,7382825- 7383000,7383125-7383244,7383332-7383503 CATCTTCCCAAGTTTGTACGAAGTTGAAGGAACTTGATTCTGATAAGAGTTCTTCCTTTACTCG AGGTTCCACATAAATATTTAGTCCTTTTTGCGTTCTCAACCATCTGACCATATCCACAGAGAGA ACTCGCACGGAAGTTGAATTAGGCTTAGTGATAATAAGTACAGTTTGTGGATCAGACTCCCATG TCAGTGAAATCTGTTTACTACTGCGCTCTGCTGTGCTGATATTCCCTCTCTCAAACGAAACAAT TTCTTTTTTGTGTTGATCATTAGCCATCCCCTTACATCCCCATGAAAGTTTAAATGATGCCTTC CTCTTCAATTTGTTATTAAAACTGTTAAATCCACCATCTTGGAGCACTTCATGAGAGCAAATAG TCTCCATGCCATTAGAACTGATTTCCTGAGCATAAAGCCGCGGAGACTTTGCTAAGTGCTCCAT CCTTTGACCATTAGATTCATCGGCACACACTCCATTTGACAGTTCTTTATGCTGCAACTCCACG TTCTTAGACCTCTCTAACTCGTATCTACGCTTCCATTCAGCAGCCTCAGCTTGAGCCAACGCCT TTCCTTCAGCAGCTCCCCTTAGTGCCTTTGCAACAGTTCTCAAAGCCTCAGAGAACTCAACGAG ATGGTCGTCAGTAGCCTGCATAGGAGTCTGTTGAAGAAGAAGCTCCTGAACAGCCTTCTCTGAT TGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTCGGCAACAAACTCTTTGCATCTC CATTTGCAAATGAATC
Genomic sequence	CATCTTCCCAAGTTTGTACGAAGTTGAAGGAACTTGATTCTGATAAGAGTTCTTCCTTTACTCG AGGTTCCACATAAATATTTAGTCCTTTTTGCGTTCTCAACCATCTGAAATGGAGACAAATCAAA ATCTAATTACTTCATCTGAACCAAGAATCTACTTTCCAAATAAGAACATACATAAGCTACAGTA GTTTGTGAGACACATAAATAAAAGAGATGAAGCAGCAAAGCAGAAATTCAGAGAGAGATTCAGA AACTAATCATGTGGTTAGGCCGTTAGGGTAGCATATTCTTAACAATGGAGCCGATTTATCTTTC TCGAAGAGTACTGAAACTCATTGTAGAAATGACCTGCAAAATATAAACACTGACCTGACCATAT CCACAGAGAGAACTCGCACGGAAGTTGAATTAGGCTTAGTGATAATAAGTACAGTTTGTGGATC AGACTCCCATGTCAGTGAAATCTGAAATTAGAAGTTGTTAGGTTTAGTCTACAAAACACCTTAC CAAGCAACTAAAGTAATATGAATTGAGAACAAATATTTTCCATCAGTTGTAAATTCAGAGATGG GAAACAGAAAGATAGAGAAGATGAAACAATAGTCCTACCTGTTTACTACTGCGCTCTGCTGTGC TGATATTCCCTCTCTCAAACGAAACAATTTCTTTTTTGTGTTGATCATTAGCCATCCCCTTACA TCCCCATGAAAGTTTAAATGATGCCTGCAGCCAATTTCATAGATATTTCAATATTAGAATAGAG TTTTCATTCTTTCCTTATTGTTTTAGGCTTTTAGCCTAATCATTTCCTGCAACAGCGTTGCCAG TTTTGAATGTCAAAGTAATTGGGACACAGCAAATGCAAAGATACATTAACAACTCTGACGGACC AATATTCGTCAACATCTGATACTAGAATGTGTTAGTCCAACAAAGGCTAATGTAAGATTCATCA CAGGTACATAAATTCCAGAGGACTTATTCAAAAAATGCACAGAGGTTGATATTTGTTTACTTAT GCTTACTGACTTGCATAGCCAAAAATATAAAAGCAAGGATAGTAACAGTCAACTATATATTACC TTCCTCTTCAATTTGTTATTAAAACTGTTAAATCCACCATCTTGGAGCACTTCATGAGAGCAAA TAGTCTCCATGCCATTAGAACTGATTTCCTGAGCATAAAGCCGCGGAGACTTTGCTAAGTGCTC CATCCTTTGACCATTAGATTCATCGGCACACACTCCATTTGACAGTTCTGTAAAACAAGCCAGG AATTCTGTTATTCAAACATATCCATGGCCAAAAACACCATTCAAATCAAAATTACTAGAACTAA ATGGTGAACATTTTATAACAACCCTTTGAAGTTAGTAGAGAACCTTTATGCTGCAACTCCACGT TCTTAGACCTCTCTAACTCGTATCTACGCTTCCATTCAGCAGCCTCAGCTTGAGCCAACGCCTT TCCTTCAGCAGCTCCCCTTAGTGCCTTTGCAACAGCTACAATATCCCAGAAACTGAAAAATTAA ATCCCATATCCAAAGGATATAGTACAGCTCATGTTACACATATCGAAATCTTGCTTACTTCTCA AAGCCTCAGAGAACTCAACGAGATGGTCGTCAGTAGCCTGCATAGGAGTCTGTTGAAGAAGAAG CTCCTGAACAGCCTTCTCTGATTGAGCAAGTGAAGTCAAATGAGTGAAACCATTCTCTGGGTTC GGCAACAAACTCTTTGCATCTCCATTTGCAAATGAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.182174916

Conservation Information
Conserved circRNAs	NA
PMCS	0.182174916

			
						 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
						Pan et al., 2017

circRNA

Detail information of AT3G21070_circ_g.4

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