Plant Circular RNA Database

Detail information of AT5G51050_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G51050_circ_g.4
					
						ID in PlantcircBase
						ath_circ_043541
					
						Alias
						Ath_circ_FC3746, AT5G51050_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 20754365-20755645  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						MapSplice, circRNA_finder, CIRI2
					
						Parent gene
						
							AT5G51050						
					
						Parent gene annotation
						
							Mitochondrial substrate carrier family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G51050_circ_g.1 AT5G51050_circ_g.2 AT5G51050_circ_g.3 						
					
						Support reads
						3/NA
					
						Tissues
						whole_plant/leaf
					
						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
						AT5G51050.1:4

General Information
CircRNA Name	AT5G51050_circ_g.4
ID in PlantcircBase	ath_circ_043541
Alias	Ath_circ_FC3746, AT5G51050_C1
Organism	Arabidpsis thaliana
Position	chr5: 20754365-20755645 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	MapSplice, circRNA_finder, CIRI2
Parent gene	AT5G51050
Parent gene annotation	Mitochondrial substrate carrier family protein
Parent gene strand	+
Alternative splicing	AT5G51050_circ_g.1 AT5G51050_circ_g.2 AT5G51050_circ_g.3
Support reads	3/NA
Tissues	whole_plant/leaf
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	AT5G51050.1:4

			
						 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  
						
							GGAACGAGCAAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGA
GCACTCTACAAAGGGCTACTACCGAACCTTCTAAAGggattgagataaaagatgaggagcttgc
tcgttttgtggaacatgttgacaaggacaatgatggaatcattatgtttgaagaatggagagat
tttctttt

									
								

					

						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: 146
Transcript exons: 20754365-20754417,20755553-20755645
GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGCAAGAACCTC
GATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTA
CTACCGAACCTTCTAAAG
Transcript length: 155
Transcript exons: 20754365-20754420,20755547-20755645
GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACGAACGAGC
AAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTAC
AAAGGGCTACTACCGAACCTTCTAAAG
Transcript length: 191
Transcript exons: 20754365-20754452,20755543-20755645
GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG
AATCATTATGTTTGAAGAATGGAGAGCGGAACGAGCAAGAACCTCGATGTCAGGAGTATTCAGG
AGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTACCGAACCTTCTAAAG
Transcript length: 207
Transcript exons: 20754365-20754485,20755560-20755645
GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG
AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCCTCGAT
GTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTA
CCGAACCTTCTAAAG
Transcript length: 229
Transcript exons: 20754365-20754497,20755550-20755645
GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG
AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCATTGAA
AATATCGAGCAAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAG
AGCACTCTACAAAGGGCTACTACCGAACCTTCTAAAG
						
					

						Genomic sequence
						
							GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG
AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCATTGAA
AATATATACCATCACTGGGAAAGAGTATGTCTTGTAGATATTGGAGAACAAGCTGTAATTCCAG
AAGGCATCAGCAAACATATAAAGAGGAGTAACTATTTCATCGCAGGTGGACTTCCTTAATTATT
TGGAGCTTATTTTCTCCGAACAACGTAAAAAGATTTGGTTATAAGTTTTCTGACAACATAATAG
TGCTGTTACAGGTGGCATAGCTGGTGCAGCTTCTAGGACTGCTACTGCACCTCTAGATCGCTTA
AAAGTTCTTTTGCAAATTCAGAAAACCGATGCTAGAATCCGAGAAGCCATAAAGTTGATATGGA
AGCAGGGTGGAGTTAGAGGTTTTTTTCGAGGTAACGGGTTGAATATTGTGAAGGTAGCACCAGA
GAGTGCCATCAAGTTCTATGCATATGAGCTTTTCAAAAACGCTATCGGTGAAAACATGGGTGAA
GACAAAGCGGATATAGGCACAACAGTTAGACTTTTTGCTGGAGGAATGGCTGGTGCAGTAGCTC
AAGCCTCTATATACCCTTTAGATCTTGTGAAAACTCGGTTGCAGACTTACACGAGCCAAGCAGG
TGTTGCTGTTCCCAGGCTTGGAACGCTCACCAAAGATATATTGGTTCATGAGGGTCCACGTGCC
TTCTACAAAGGTCTTTTCCCTTCTCTTCTTGGGATTATTCCTTACGCGGGTATTGACCTTGCTG
CATATGAGACATTAAAGGACTTGTCCAGGACATATATTCTTCAAGACGCTGGTAAATCTCTTAA
CTGCTATAGTTTCCCATTCTGTCTGATACTGCTTGAATGTAGGACTCATAAAACTTGGCTTGGG
TTTGGTCTTCAGAACCAGGTCCGCTCGTGCAACTAGGATGTGGAACAATCTCAGGAGCTCTTGG
AGCAACCTGTGTCTATCCTTTGCAGGTTGTGAGAACAAGGTAATTCCATAGCCCATATGCTTCA
CCTGCTCCCTCTGTCTTCCTCAACACACAAACTCCATACACAATCATAAAATGCATAAATGAAA
TATATCTCACTGTCACACAGAATGCAAGCGGAACGAGCAAGAACCTCGATGTCAGGAGTATTCA
GGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTACCGAACCTTCTAAA
G
						
					

			
		

Sequences
Splice junction sequence	GGAACGAGCAAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGA GCACTCTACAAAGGGCTACTACCGAACCTTCTAAAGggattgagataaaagatgaggagcttgc tcgttttgtggaacatgttgacaaggacaatgatggaatcattatgtttgaagaatggagagat tttctttt
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: 146 Transcript exons: 20754365-20754417,20755553-20755645 GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGCAAGAACCTC GATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTA CTACCGAACCTTCTAAAG Transcript length: 155 Transcript exons: 20754365-20754420,20755547-20755645 GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACGAACGAGC AAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTAC AAAGGGCTACTACCGAACCTTCTAAAG Transcript length: 191 Transcript exons: 20754365-20754452,20755543-20755645 GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG AATCATTATGTTTGAAGAATGGAGAGCGGAACGAGCAAGAACCTCGATGTCAGGAGTATTCAGG AGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTACCGAACCTTCTAAAG Transcript length: 207 Transcript exons: 20754365-20754485,20755560-20755645 GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCCTCGAT GTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTA CCGAACCTTCTAAAG Transcript length: 229 Transcript exons: 20754365-20754497,20755550-20755645 GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCATTGAA AATATCGAGCAAGAACCTCGATGTCAGGAGTATTCAGGAGAACAATAAGTGAAGAAGGTTACAG AGCACTCTACAAAGGGCTACTACCGAACCTTCTAAAG
Genomic sequence	GGATTGAGATAAAAGATGAGGAGCTTGCTCGTTTTGTGGAACATGTTGACAAGGACAATGATGG AATCATTATGTTTGAAGAATGGAGAGATTTTCTTTTGCTGTACCCTCACGAAGCTACCATTGAA AATATATACCATCACTGGGAAAGAGTATGTCTTGTAGATATTGGAGAACAAGCTGTAATTCCAG AAGGCATCAGCAAACATATAAAGAGGAGTAACTATTTCATCGCAGGTGGACTTCCTTAATTATT TGGAGCTTATTTTCTCCGAACAACGTAAAAAGATTTGGTTATAAGTTTTCTGACAACATAATAG TGCTGTTACAGGTGGCATAGCTGGTGCAGCTTCTAGGACTGCTACTGCACCTCTAGATCGCTTA AAAGTTCTTTTGCAAATTCAGAAAACCGATGCTAGAATCCGAGAAGCCATAAAGTTGATATGGA AGCAGGGTGGAGTTAGAGGTTTTTTTCGAGGTAACGGGTTGAATATTGTGAAGGTAGCACCAGA GAGTGCCATCAAGTTCTATGCATATGAGCTTTTCAAAAACGCTATCGGTGAAAACATGGGTGAA GACAAAGCGGATATAGGCACAACAGTTAGACTTTTTGCTGGAGGAATGGCTGGTGCAGTAGCTC AAGCCTCTATATACCCTTTAGATCTTGTGAAAACTCGGTTGCAGACTTACACGAGCCAAGCAGG TGTTGCTGTTCCCAGGCTTGGAACGCTCACCAAAGATATATTGGTTCATGAGGGTCCACGTGCC TTCTACAAAGGTCTTTTCCCTTCTCTTCTTGGGATTATTCCTTACGCGGGTATTGACCTTGCTG CATATGAGACATTAAAGGACTTGTCCAGGACATATATTCTTCAAGACGCTGGTAAATCTCTTAA CTGCTATAGTTTCCCATTCTGTCTGATACTGCTTGAATGTAGGACTCATAAAACTTGGCTTGGG TTTGGTCTTCAGAACCAGGTCCGCTCGTGCAACTAGGATGTGGAACAATCTCAGGAGCTCTTGG AGCAACCTGTGTCTATCCTTTGCAGGTTGTGAGAACAAGGTAATTCCATAGCCCATATGCTTCA CCTGCTCCCTCTGTCTTCCTCAACACACAAACTCCATACACAATCATAAAATGCATAAATGAAA TATATCTCACTGTCACACAGAATGCAAGCGGAACGAGCAAGAACCTCGATGTCAGGAGTATTCA GGAGAACAATAAGTGAAGAAGGTTACAGAGCACTCTACAAAGGGCTACTACCGAACCTTCTAAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.628688946

Conservation Information
Conserved circRNAs	NA
PMCS	0.628688946

			
						 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
						Chu et al., 2017;Chen et al., 2017a;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT5G51050_circ_g.4

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