Plant Circular RNA Database

Detail information of AT2G14835_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G14835_circ_g.4
					
						ID in PlantcircBase
						ath_circ_013363
					
						Alias
						2:6368140-6370009
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 6368140-6370009  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G14835						
					
						Parent gene annotation
						
							Expressed protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G14835_circ_g.1 AT2G14835_circ_g.2 AT2G14835_circ_g.3 AT2G14835_circ_g.5 AT2G14835_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						flower
					
						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
						AT2G14835.2:5
AT2G14835.1:5

General Information
CircRNA Name	AT2G14835_circ_g.4
ID in PlantcircBase	ath_circ_013363
Alias	2:6368140-6370009
Organism	Arabidpsis thaliana
Position	chr2: 6368140-6370009 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G14835
Parent gene annotation	Expressed protein
Parent gene strand	+
Alternative splicing	AT2G14835_circ_g.1 AT2G14835_circ_g.2 AT2G14835_circ_g.3 AT2G14835_circ_g.5 AT2G14835_circ_g.6
Support reads	2
Tissues	flower
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	AT2G14835.2:5 AT2G14835.1:5

			
						 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  
						
							GCTGCACGGAAAGGAGTACCCGCTGTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACG
ATGAAGACGGCAATCGTAAAAAGTACTCAAGAAGAGgtccggacgtattcagaatgggtgatag
atggagagtatgatcagccaaagtgttgtcaatgccaagcaacatttgatgagggggcaggtca
tcaagtca

									
								

					

						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: 652
Transcript exons: 6368140-6368257,6368356-6368450,6369235-6369306,6369536-
6369790,6369898-6370009
GTCCGGACGTATTCAGAATGGGTGATAGATGGAGAGTATGATCAGCCAAAGTGTTGTCAATGCC
AAGCAACATTTGATGAGGGGGCAGGTCATCAAGTCACTCGGTTAGGTTGCTTGCATGCTATACA
TACAAGCTGCCTGGTTTCGCTTATCAAGAGTTTTCCTCCTCATACTGCACCTGCTGGTTATGTG
TGCCCAGCATGTAGCACACCTATATGGCCTCCTATGATGGTAAAAGATGCAGGATCTCGGCTTC
ATGCTCTGTTAAGGGAAGTAATTACGCAGACTGGTCTTGAGAAGAATTTACTTGGGAACCATCC
AGTTTCTCGATCCACCGAATCTCGTAGCCCACCACCGGCATTTGCTTCGGATGCATTAATTAAT
ATATCATCATCTTCTCATACACAAGAAGGGAATAACCTTCCTGATGGTTATTCAGTAGCTGGAA
ATGGAGAATATTCCAAATCTGCGGTTTCAGAGATAGTTGAGATAGATGTTCCTGCTTCTGCTGG
GAGTTACATGAAAAGCTCAAGCCCTGGACTTGCTGCTGCTGCTGCACGGAAAGGAGTACCCGCT
GTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACGATGAAGACGGCAATCGTAAAAAGT
ACTCAAGAAGAG
						
					

						Genomic sequence
						
							GTCCGGACGTATTCAGAATGGGTGATAGATGGAGAGTATGATCAGCCAAAGTGTTGTCAATGCC
AAGCAACATTTGATGAGGGGGCAGGTCATCAAGTCACTCGGTTAGGTTGCTTGCGTATGTTGTC
TGACTCTTACCATTGTTGGATTGGATTTTTATTTCTGAATTTTGATAATTAAATTAATGGAACA
TTTTTTACCCTCTATTTGTATCAGATGCTATACATACAAGCTGCCTGGTTTCGCTTATCAAGAG
TTTTCCTCCTCATACTGCACCTGCTGGTTATGTGTGCCCAGCATGTAGCACACCTGTAAGCGTT
ATTGATTCATATATATTTATTAGTAAACTTCCTTTTGTGTTCTTCATGTTTCTATCGCATTGTT
TTCCGTGTGTACTTGTATTGGCTGGAGCTCTTTTTTGGTGTCTAATATTGATACATAGATTTAG
AAAAATATTTGAGTTGGTGTGATTTCCTGTGTTTCTCTATGATAATATTGAGCACTTCATCAGT
GTTGTTCTTACTTTCTGGCCATAGAAACATGATAAAGACTATTTGCATGTGGAGACCGGGTGCT
TTTTTATGAAGATTTGGGTGTTTTGTTTTGGACCTAACGTTTTAGGCAATTTTGTATGGTTTGA
TTGTTCGGCTGTAGTTGTACATGATTTTCTGGTTCAGTTAGCTTCTTCAAGTCAGTAGCAACCC
GTGTTTGTAATGTAGCAGATGAAAGCCTAGCAATCAAAATTACACCTAGACAGATAAATCTTGG
GGAAGTAACTAAAATTAGAGTATTTAATGATTGATGATTCATGTTCTATTGACTCTTTTCTATC
AAATTTCGGATGATTTTTAGCTGTTTTGGTGTGTAATACTTCCCTCTGTGATGTAATATACTGG
AGGTAGCTATCTAGATTATTTTGGTTCACCAGGGTTTGAGCTAATAGCCATCCCGATTGTATTC
CATTCCTCTTTGTCCTTATGTTTTACTTGAAAAACATTTTGTATAGCCTGGTTTTACTTTACTT
TGAAGTGTTGTTTCGTGCTTGGAAGAGTGCCGCAATATAGTTCTCACTTCTCATATGATCATTA
AATGCAGATATGGCCTCCTATGATGGTAAAAGATGCAGGATCTCGGCTTCATGCTCTGTTAAGG
GAAGTAATTACGCAGGTTAGTTTCATCTGTTAGTTCAATTGTTTGTAGATTATCCAAATTTCTT
TTTGAAGTTACAATCTTAAAAGTATTACATTTTCAATTGTTACCCCCACCTTAGACATCTCTCA
GTGAGAGCATAGAAAATTTGCAGAGATTTGGCAGTATCCGATTGTTTGTATTGTCACACAGCCT
GAAAGGATCACTGGTTTAGTTGGATTTTAATTCTCTGTTCTCTATATGGCAGACTGGTCTTGAG
AAGAATTTACTTGGGAACCATCCAGTTTCTCGATCCACCGAATCTCGTAGCCCACCACCGGCAT
TTGCTTCGGATGCATTAATTAATATATCATCATCTTCTCATACACAAGAAGGGAATAACCTTCC
TGATGGTTATTCAGTAGCTGGAAATGGAGAATATTCCAAATCTGCGGTTTCAGAGATAGTTGAG
ATAGATGTTCCTGCTTCTGCTGGGAGTTACATGAAAAGCTCAAGCCCTGGAGTAAGATATTCTC
TTAAAAACTTGGTGTTTTCACAAAAACTACGTACAGTTTCTGTTTTCCTTTATGAGTTGTCACA
GTTTTATCTATTTGTTGCTGTCGTATATAGCTTGCTGCTGCTGCTGCACGGAAAGGAGTACCCG
CTGTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACGATGAAGACGGCAATCGTAAAAA
GTACTCAAGAAGAG
						
					

			
		

Sequences
Splice junction sequence	GCTGCACGGAAAGGAGTACCCGCTGTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACG ATGAAGACGGCAATCGTAAAAAGTACTCAAGAAGAGgtccggacgtattcagaatgggtgatag atggagagtatgatcagccaaagtgttgtcaatgccaagcaacatttgatgagggggcaggtca tcaagtca
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: 652 Transcript exons: 6368140-6368257,6368356-6368450,6369235-6369306,6369536- 6369790,6369898-6370009 GTCCGGACGTATTCAGAATGGGTGATAGATGGAGAGTATGATCAGCCAAAGTGTTGTCAATGCC AAGCAACATTTGATGAGGGGGCAGGTCATCAAGTCACTCGGTTAGGTTGCTTGCATGCTATACA TACAAGCTGCCTGGTTTCGCTTATCAAGAGTTTTCCTCCTCATACTGCACCTGCTGGTTATGTG TGCCCAGCATGTAGCACACCTATATGGCCTCCTATGATGGTAAAAGATGCAGGATCTCGGCTTC ATGCTCTGTTAAGGGAAGTAATTACGCAGACTGGTCTTGAGAAGAATTTACTTGGGAACCATCC AGTTTCTCGATCCACCGAATCTCGTAGCCCACCACCGGCATTTGCTTCGGATGCATTAATTAAT ATATCATCATCTTCTCATACACAAGAAGGGAATAACCTTCCTGATGGTTATTCAGTAGCTGGAA ATGGAGAATATTCCAAATCTGCGGTTTCAGAGATAGTTGAGATAGATGTTCCTGCTTCTGCTGG GAGTTACATGAAAAGCTCAAGCCCTGGACTTGCTGCTGCTGCTGCACGGAAAGGAGTACCCGCT GTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACGATGAAGACGGCAATCGTAAAAAGT ACTCAAGAAGAG
Genomic sequence	GTCCGGACGTATTCAGAATGGGTGATAGATGGAGAGTATGATCAGCCAAAGTGTTGTCAATGCC AAGCAACATTTGATGAGGGGGCAGGTCATCAAGTCACTCGGTTAGGTTGCTTGCGTATGTTGTC TGACTCTTACCATTGTTGGATTGGATTTTTATTTCTGAATTTTGATAATTAAATTAATGGAACA TTTTTTACCCTCTATTTGTATCAGATGCTATACATACAAGCTGCCTGGTTTCGCTTATCAAGAG TTTTCCTCCTCATACTGCACCTGCTGGTTATGTGTGCCCAGCATGTAGCACACCTGTAAGCGTT ATTGATTCATATATATTTATTAGTAAACTTCCTTTTGTGTTCTTCATGTTTCTATCGCATTGTT TTCCGTGTGTACTTGTATTGGCTGGAGCTCTTTTTTGGTGTCTAATATTGATACATAGATTTAG AAAAATATTTGAGTTGGTGTGATTTCCTGTGTTTCTCTATGATAATATTGAGCACTTCATCAGT GTTGTTCTTACTTTCTGGCCATAGAAACATGATAAAGACTATTTGCATGTGGAGACCGGGTGCT TTTTTATGAAGATTTGGGTGTTTTGTTTTGGACCTAACGTTTTAGGCAATTTTGTATGGTTTGA TTGTTCGGCTGTAGTTGTACATGATTTTCTGGTTCAGTTAGCTTCTTCAAGTCAGTAGCAACCC GTGTTTGTAATGTAGCAGATGAAAGCCTAGCAATCAAAATTACACCTAGACAGATAAATCTTGG GGAAGTAACTAAAATTAGAGTATTTAATGATTGATGATTCATGTTCTATTGACTCTTTTCTATC AAATTTCGGATGATTTTTAGCTGTTTTGGTGTGTAATACTTCCCTCTGTGATGTAATATACTGG AGGTAGCTATCTAGATTATTTTGGTTCACCAGGGTTTGAGCTAATAGCCATCCCGATTGTATTC CATTCCTCTTTGTCCTTATGTTTTACTTGAAAAACATTTTGTATAGCCTGGTTTTACTTTACTT TGAAGTGTTGTTTCGTGCTTGGAAGAGTGCCGCAATATAGTTCTCACTTCTCATATGATCATTA AATGCAGATATGGCCTCCTATGATGGTAAAAGATGCAGGATCTCGGCTTCATGCTCTGTTAAGG GAAGTAATTACGCAGGTTAGTTTCATCTGTTAGTTCAATTGTTTGTAGATTATCCAAATTTCTT TTTGAAGTTACAATCTTAAAAGTATTACATTTTCAATTGTTACCCCCACCTTAGACATCTCTCA GTGAGAGCATAGAAAATTTGCAGAGATTTGGCAGTATCCGATTGTTTGTATTGTCACACAGCCT GAAAGGATCACTGGTTTAGTTGGATTTTAATTCTCTGTTCTCTATATGGCAGACTGGTCTTGAG AAGAATTTACTTGGGAACCATCCAGTTTCTCGATCCACCGAATCTCGTAGCCCACCACCGGCAT TTGCTTCGGATGCATTAATTAATATATCATCATCTTCTCATACACAAGAAGGGAATAACCTTCC TGATGGTTATTCAGTAGCTGGAAATGGAGAATATTCCAAATCTGCGGTTTCAGAGATAGTTGAG ATAGATGTTCCTGCTTCTGCTGGGAGTTACATGAAAAGCTCAAGCCCTGGAGTAAGATATTCTC TTAAAAACTTGGTGTTTTCACAAAAACTACGTACAGTTTCTGTTTTCCTTTATGAGTTGTCACA GTTTTATCTATTTGTTGCTGTCGTATATAGCTTGCTGCTGCTGCTGCACGGAAAGGAGTACCCG CTGTAGACAGGCAGAACTCCGAGACTCTATATTATGCAGACGATGAAGACGGCAATCGTAAAAA GTACTCAAGAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229888153

Conservation Information
Conserved circRNAs	NA
PMCS	0.229888153

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G14835_circ_g.4

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