Plant Circular RNA Database

Detail information of AT1G05230_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G05230_circ_g.4
					
						ID in PlantcircBase
						ath_circ_000787
					
						Alias
						1:1515821-1517057
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 1515821-1517057  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G05230						
					
						Parent gene annotation
						
							AT1G05230 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G05230_circ_g.5 						
					
						Support reads
						3
					
						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  
						
							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
						AT1G05230.2:3
AT1G05230.3:3
AT1G05230.11:3
AT1G05230.7:3
AT1G05230.8:3
AT1G05230.1:3
AT1G05230.6:3
AT1G05230.9:3
AT1G05230.12:3
AT1G05230.10:3
AT1G05230.5:3
AT1G05230.4:3

General Information
CircRNA Name	AT1G05230_circ_g.4
ID in PlantcircBase	ath_circ_000787
Alias	1:1515821-1517057
Organism	Arabidpsis thaliana
Position	chr1: 1515821-1517057 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G05230
Parent gene annotation	AT1G05230 protein
Parent gene strand	-
Alternative splicing	AT1G05230_circ_g.5
Support reads	3
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	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	AT1G05230.2:3 AT1G05230.3:3 AT1G05230.11:3 AT1G05230.7:3 AT1G05230.8:3 AT1G05230.1:3 AT1G05230.6:3 AT1G05230.9:3 AT1G05230.12:3 AT1G05230.10:3 AT1G05230.5:3 AT1G05230.4:3

			
						 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  
						
							GGTTGTAGTTGTGGTTATTGCTGTCTGCGTTGTTCATAGCCGCAAGCAGCATATTTGGCTCGAA
CATCTTTTCTTATACTCCGGAAACTGAAAGCAAACCctcttcccttaatcgagcattttcgaga
cggagttggtgttcgtcgaatgacatttctccgatagctgttggaccaccacaattaggacacg
aagcattt

									
								

					

						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: 582
Transcript exons: 1515821-1516009,1516587-1516704,1516783-1517057
CTCTTCCCTTAATCGAGCATTTTCGAGACGGAGTTGGTGTTCGTCGAATGACATTTCTCCGATA
GCTGTTGGACCACCACAATTAGGACACGAAGCATTTGCAAGAGCCTCTCGATATCTTAGGTTGT
CGTTTCGAAGCTTTTCGTTCTCCGCCCGAAGATGTGAGTTCTCATGCCGCTCGTGATGATTCTT
CATTTGGGTACGTTTGTTTTGGAACCAGAATTTGACCTGAAGAGGTTCCAAATTCAATTCACGG
CTTAGCTGTTTCCTTTGCTTGTCATCTGGGTGAGGACACTCTTTGAAGAACGCTTCCATCTCCT
GGATCTGAAGTTGGGTGTGTCGATGATATCGTTTCTTCTTGTTAGGATGAAGAGGATCTTGGTC
GTTTCCTGATCCTCCTTCTTGATTCTCACTTCCCGATTTAGTATTCGGACTGTCGAATTCATCG
TCCCGAAGAAATCCTTCATTATTGTTGTCTTCATGGTTGTAGTTGTGGTTATTGCTGTCTGCGT
TGTTCATAGCCGCAAGCAGCATATTTGGCTCGAACATCTTTTCTTATACTCCGGAAACTGAAAG
CAAACC
						
					

						Genomic sequence
						
							CTCTTCCCTTAATCGAGCATTTTCGAGACGGAGTTGGTGTTCGTCGAATGACATTTCTCCGATA
GCTGTTGGACCACCACAATTAGGACACGAAGCATTTGCAAGAGCCTCTCGATATCTTAGGTTGT
CGTTTCGAAGCTTTTCGTTCTCCGCCCGAAGATGTGAGTTCTCATGCCGCTCGTGATGATTCTG
CGCAAATAAAACTTATATTCCGGTTATCTCTAAAGTTTTATACAAGTGATTTATTTCTAATTTG
GGTAAAACGAAGGAACAAAGGATTTTACTTAAAAAGAGGAAAAGTGTATGTTTCAAATAAAACA
CTCGTGTACACGTTATGTGTTTCACCGTATTTGCATAACGTAAGCATATGTGTCCAAAACGTTT
CAATCTATAGATTATATATGGCTCTAACTAAGATAATAAATAGGCAATGTTGTTACAACCAAAC
AATTTTCTATAGCTTGATCCGCCAAATATATAGTTCTGCCAAAGGAACAACTTTTCAATTGAAA
AAAAAAATAAGTAAGAAATTTTAAGTCAAAGTGTCTCAACTAGATCTAAAATCTGCCAAAAGTC
AATGAATTCATTCTGAAAGAAAACACCAGCCACCCAAAATGTTCTTAAGTATAAAGATAAGCCC
TTCAATGTATATATACAAGACTTAATATGAATGAAATAACAATTTAATTAACAAGTATATATAT
TTTCTCTAATATATATAGATCCATTAACTAATGTATATATGTTCATAATATAAAAAGTATACCT
TCATTTGGGTACGTTTGTTTTGGAACCAGAATTTGACCTGAAGAGGTTCCAAATTCAATTCACG
GCTTAGCTGTTTCCTTTGCTTGTCATCTGGGTGAGGACACTCTTTGAAGAACCTATTTAACAAC
CAAAACAAAAGAATTGTCAAAAAACACACAAGAAAATTGAAGTAAGTGAGTAAGTTAAACACAT
ACGCTTCCATCTCCTGGATCTGAAGTTGGGTGTGTCGATGATATCGTTTCTTCTTGTTAGGATG
AAGAGGATCTTGGTCGTTTCCTGATCCTCCTTCTTGATTCTCACTTCCCGATTTAGTATTCGGA
CTGTCGAATTCATCGTCCCGAAGAAATCCTTCATTATTGTTGTCTTCATGGTTGTAGTTGTGGT
TATTGCTGTCTGCGTTGTTCATAGCCGCAAGCAGCATATTTGGCTCGAACATCTTTTCTTATAC
TCCGGAAACTGAAAGCAAACC
						
					

			
		

Sequences
Splice junction sequence	GGTTGTAGTTGTGGTTATTGCTGTCTGCGTTGTTCATAGCCGCAAGCAGCATATTTGGCTCGAA CATCTTTTCTTATACTCCGGAAACTGAAAGCAAACCctcttcccttaatcgagcattttcgaga cggagttggtgttcgtcgaatgacatttctccgatagctgttggaccaccacaattaggacacg aagcattt
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: 582 Transcript exons: 1515821-1516009,1516587-1516704,1516783-1517057 CTCTTCCCTTAATCGAGCATTTTCGAGACGGAGTTGGTGTTCGTCGAATGACATTTCTCCGATA GCTGTTGGACCACCACAATTAGGACACGAAGCATTTGCAAGAGCCTCTCGATATCTTAGGTTGT CGTTTCGAAGCTTTTCGTTCTCCGCCCGAAGATGTGAGTTCTCATGCCGCTCGTGATGATTCTT CATTTGGGTACGTTTGTTTTGGAACCAGAATTTGACCTGAAGAGGTTCCAAATTCAATTCACGG CTTAGCTGTTTCCTTTGCTTGTCATCTGGGTGAGGACACTCTTTGAAGAACGCTTCCATCTCCT GGATCTGAAGTTGGGTGTGTCGATGATATCGTTTCTTCTTGTTAGGATGAAGAGGATCTTGGTC GTTTCCTGATCCTCCTTCTTGATTCTCACTTCCCGATTTAGTATTCGGACTGTCGAATTCATCG TCCCGAAGAAATCCTTCATTATTGTTGTCTTCATGGTTGTAGTTGTGGTTATTGCTGTCTGCGT TGTTCATAGCCGCAAGCAGCATATTTGGCTCGAACATCTTTTCTTATACTCCGGAAACTGAAAG CAAACC
Genomic sequence	CTCTTCCCTTAATCGAGCATTTTCGAGACGGAGTTGGTGTTCGTCGAATGACATTTCTCCGATA GCTGTTGGACCACCACAATTAGGACACGAAGCATTTGCAAGAGCCTCTCGATATCTTAGGTTGT CGTTTCGAAGCTTTTCGTTCTCCGCCCGAAGATGTGAGTTCTCATGCCGCTCGTGATGATTCTG CGCAAATAAAACTTATATTCCGGTTATCTCTAAAGTTTTATACAAGTGATTTATTTCTAATTTG GGTAAAACGAAGGAACAAAGGATTTTACTTAAAAAGAGGAAAAGTGTATGTTTCAAATAAAACA CTCGTGTACACGTTATGTGTTTCACCGTATTTGCATAACGTAAGCATATGTGTCCAAAACGTTT CAATCTATAGATTATATATGGCTCTAACTAAGATAATAAATAGGCAATGTTGTTACAACCAAAC AATTTTCTATAGCTTGATCCGCCAAATATATAGTTCTGCCAAAGGAACAACTTTTCAATTGAAA AAAAAAATAAGTAAGAAATTTTAAGTCAAAGTGTCTCAACTAGATCTAAAATCTGCCAAAAGTC AATGAATTCATTCTGAAAGAAAACACCAGCCACCCAAAATGTTCTTAAGTATAAAGATAAGCCC TTCAATGTATATATACAAGACTTAATATGAATGAAATAACAATTTAATTAACAAGTATATATAT TTTCTCTAATATATATAGATCCATTAACTAATGTATATATGTTCATAATATAAAAAGTATACCT TCATTTGGGTACGTTTGTTTTGGAACCAGAATTTGACCTGAAGAGGTTCCAAATTCAATTCACG GCTTAGCTGTTTCCTTTGCTTGTCATCTGGGTGAGGACACTCTTTGAAGAACCTATTTAACAAC CAAAACAAAAGAATTGTCAAAAAACACACAAGAAAATTGAAGTAAGTGAGTAAGTTAAACACAT ACGCTTCCATCTCCTGGATCTGAAGTTGGGTGTGTCGATGATATCGTTTCTTCTTGTTAGGATG AAGAGGATCTTGGTCGTTTCCTGATCCTCCTTCTTGATTCTCACTTCCCGATTTAGTATTCGGA CTGTCGAATTCATCGTCCCGAAGAAATCCTTCATTATTGTTGTCTTCATGGTTGTAGTTGTGGT TATTGCTGTCTGCGTTGTTCATAGCCGCAAGCAGCATATTTGGCTCGAACATCTTTTCTTATAC TCCGGAAACTGAAAGCAAACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.284293497

Conservation Information
Conserved circRNAs	NA
PMCS	0.284293497

			
						 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 AT1G05230_circ_g.4

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