Plant Circular RNA Database

Detail information of AT1G48430_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT1G48430_circ_g.7
					
						ID in PlantcircBase
						ath_circ_006320
					
						Alias
						AT1G48430_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 17903957-17904292  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							AT1G48430						
					
						Parent gene annotation
						
							Dihydroxyacetone kinase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G48430_circ_g.1 AT1G48430_circ_g.2 AT1G48430_circ_g.3 AT1G48430_circ_g.4 AT1G48430_circ_g.5 AT1G48430_circ_g.6 AT1G48430_circ_g.8 AT1G48430_circ_g.9 						
					
						Support reads
						4/3
					
						Tissues
						root, leaf, 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  
						
							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
						AT1G48430.1:2
AT1G48430.2:2

General Information
CircRNA Name	AT1G48430_circ_g.7
ID in PlantcircBase	ath_circ_006320
Alias	AT1G48430_C1
Organism	Arabidpsis thaliana
Position	chr1: 17903957-17904292 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full, CIRI2
Parent gene	AT1G48430
Parent gene annotation	Dihydroxyacetone kinase
Parent gene strand	-
Alternative splicing	AT1G48430_circ_g.1 AT1G48430_circ_g.2 AT1G48430_circ_g.3 AT1G48430_circ_g.4 AT1G48430_circ_g.5 AT1G48430_circ_g.6 AT1G48430_circ_g.8 AT1G48430_circ_g.9
Support reads	4/3
Tissues	root, leaf, 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	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	AT1G48430.1:2 AT1G48430.2:2

			
						 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  
						
							GCTGGCTAAATTATATTTTTATCAAACCAACCGCTCACCTCTTCGTTTTTGGTTGATCGGAAGG
GAAGTGGAACGGGGATCTTTGCTGGTGGGCGGCTTCtgttgatccacaatccccatcacctact
tttccatcccattcgttcaaactatccttcagattgatgactacagttgctgctgcttcaatag
ctgcctca

						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: 188
Transcript exons: 17903957-17904102,17904251-17904292
TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG
ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT
GAGGTCGGTATCGAGACTGGAAGGGAAGTGGAACGGGGATCTTTGCTGGTGGGCGGCTTC
Transcript length: 205
Transcript exons: 17903957-17904101,17904233-17904292
TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG
ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT
GAGGTCGGTATCGAGACCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTTGCT
GGTGGGCGGCTTC
Transcript length: 206
Transcript exons: 17903957-17904100,17904231-17904292
TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG
ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT
GAGGTCGGTATCGAGACTCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTTGC
TGGTGGGCGGCTTC
						
						Genomic sequence
						
							TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG
ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT
GAGGTCGGTATCGAGACTAAATAAACACAAAAAAAAGTTAGTATGATGATCACCTAACAAGTTC
TCATGAAACTTACAGATTATCAAATCTCATTGAAACTCTTCTAAGCTGGCTAAATTATATTTTT
ATCAAACCAACCGCTCACCTCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTT
GCTGGTGGGCGGCTTC

Sequences
Splice junction sequence	GCTGGCTAAATTATATTTTTATCAAACCAACCGCTCACCTCTTCGTTTTTGGTTGATCGGAAGG GAAGTGGAACGGGGATCTTTGCTGGTGGGCGGCTTCtgttgatccacaatccccatcacctact tttccatcccattcgttcaaactatccttcagattgatgactacagttgctgctgcttcaatag ctgcctca
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: 188 Transcript exons: 17903957-17904102,17904251-17904292 TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT GAGGTCGGTATCGAGACTGGAAGGGAAGTGGAACGGGGATCTTTGCTGGTGGGCGGCTTC Transcript length: 205 Transcript exons: 17903957-17904101,17904233-17904292 TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT GAGGTCGGTATCGAGACCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTTGCT GGTGGGCGGCTTC Transcript length: 206 Transcript exons: 17903957-17904100,17904231-17904292 TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT GAGGTCGGTATCGAGACTCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTTGC TGGTGGGCGGCTTC
Genomic sequence	TGTTGATCCACAATCCCCATCACCTACTTTTCCATCCCATTCGTTCAAACTATCCTTCAGATTG ATGACTACAGTTGCTGCTGCTTCAATAGCTGCCTCAAGAATTCGCCCCTGTTGACTAAGCTCCT GAGGTCGGTATCGAGACTAAATAAACACAAAAAAAAGTTAGTATGATGATCACCTAACAAGTTC TCATGAAACTTACAGATTATCAAATCTCATTGAAACTCTTCTAAGCTGGCTAAATTATATTTTT ATCAAACCAACCGCTCACCTCTTCGTTTTTGGTTGATCGGAAGGGAAGTGGAACGGGGATCTTT GCTGGTGGGCGGCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.492615215

Conservation Information
Conserved circRNAs	NA
PMCS	0.492615215

			
						 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
						regulation of development and senescence of leaves

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	regulation of development and senescence of leaves

			
						 Other Information
					
						References
						Chu et al., 2017;Pan et al., 2017;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT1G48430_circ_g.7

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