Plant Circular RNA Database

Detail information of AT1G50140_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G50140_circ_g.5
					
						ID in PlantcircBase
						ath_circ_006585
					
						Alias
						1:18573616-18575813
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 18573616-18575813  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G50140						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G50140_circ_g.6 AT1G50140_circ_g.7 AT1G50140_circ_g.8 AT1G50140_circ_g.9 						
					
						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  
						
							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
						AT1G50140.4:5
AT1G50140.1:5
AT1G50140.5:4
AT1G50140.2:4
AT1G50140.3:5

General Information
CircRNA Name	AT1G50140_circ_g.5
ID in PlantcircBase	ath_circ_006585
Alias	1:18573616-18575813
Organism	Arabidpsis thaliana
Position	chr1: 18573616-18575813 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G50140
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	AT1G50140_circ_g.6 AT1G50140_circ_g.7 AT1G50140_circ_g.8 AT1G50140_circ_g.9
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	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	AT1G50140.4:5 AT1G50140.1:5 AT1G50140.5:4 AT1G50140.2:4 AT1G50140.3:5

			
						 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  
						
							TCGATTTTTCACACTAGATGACTTACCAACCCACCTGCCAGGAATAACGGTAAAAGCACTCTTT
TGACCATCAGATGTGGAAATCTTCCCCAATACGACCcagcttcacaactcggctaaggtttggg
agtaccatcgtctgttttcaggaaaaaataacttttttaacacactaatcaggaacaaaggcgg
aacaataa

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CAGCTTCACAACTCGGCTAAGGTTTGGGAGTACCATCGTCTGTTTTCAGGAAAAAATAACTTTT
TTAACACACTAATCAGGAACAAAGGCGGAACAATAACCAATGACAAGTGAGTTAGACATAATGA
CAGGCTTACGAATTTCTCTCTTTCTTTTGAGCCTGTTTCTATCTTGTTCTGCCCACAGATCATA
ACAATCGGACCTGATAGTTTATCAAACATTTCCTTAACTTTGTCTACAAATTCCTTTCGTCTTG
TCTTAGGCACAGCTCTAGACAACCACTGCGTCGAGTCTGGAAAATAGACTATAAGTGGTTGAAT
GGATTGCAAAACCTACAAAGACAGAAAAAATAAAGGACTAAGTGTAGATAACAATCCAGACATA
CGTTTCAGAAATAAAAATAGAGGCAGAATTGCAGGCATCCACAGTATAGGAATAAAAGAACATT
CAAGATCTTTAAAAAAATTTGGTAAAAATTTCAATGTTATGGTGCTAGAACTTGGTCACACATT
TCAGCATACCAAGTAAAACCCAATGAAAAGGACCCATAGATAGGAAAATGTTAAATAAGGCTAC
TGGCTAAACAGAGCACAACGTCTTGTTGTATATAGATATATTAACAGTTAAATTAACTAATAAA
TTCAAACTAAAATAAAAAGTTATGAGCATTTGCTATTGCTGGAGCATCATCTTCTCAAACATGG
AAATTTAAATATACATGTACATCTATAGCTGAAACAAACAAATGAGTAAAGCCAACAAGAAAAG
TCAGTGTAACTTCCAAATATACCTCATTTAAAGCTTCCATAGCAATGTAGCCATCAACTGCCTG
CATATCCAAATCGTACTTCAGGTCTTTCACTGCGTAATAAAATAGATATTACTTAGCTACATTT
AAATATGATGTCAAGCGTCTTCATACATAGCAAGTAATTCTCTAGATTCATAAGTATCACACAT
TAACGATCGGAATATTATGAAGCAATTATACCATCTAACCAGTGGATGGGTAACATCTGGGGCT
GCTCTGCTGGCTTTTTCTCACTTCCCTCTGATGTTTTATCATCACCGTATTCGAATATGACAGC
AACACGGTTCCCAATCACCTCATATACCTCTCCACGTTGTCCACTAGACAATGGCCTGAAAGTA
TGTATACACTCCGGTTAAAATCTCCGAACTCTTCGAGTTCGATATATGTTGCAAAAGGTGCACA
GAGAATGGTATTCCCCATTTTCAGGCAAGTCGAATTACAAAAACCACAGATGGCATACTGTCAT
TAGAAATACCAATATCATGAATAAAGAGTATGTGATGATGATATTCACAACCAAACAAAATCCC
ATTCATCAATTAGCAAAACGATAGCGGTGATTGGAAGAATCATTTCTAAAAAAACCATGATGCT
GAGAGGAACCAACGAACACATCGGAAGGCAATGATTTTAACAGAAATTTCCCTCACATCCAATG
CTAAATCTGAACTATTCAAATCCTAATCCCCAATGATTTGGAAAGGCAGATCGAACTCACTTGG
AAAAATCATAATTATGAGAAAATTACTATCAACACCACTAGGAAGAACAAGCAGCCATCGACTC
AAATAATATCAGACCAACGTATCATAGAAGATATTTAAGCGCCTGAAATTTACAAGATCATCTT
TCATAGTCCTCAAACGTTTTTCACAGTGCATAGTTCTAGTACCAGTTGTCAACTTCTTCACAAG
CTTACACCACTCACAGTTAAAATAACAAAGCACGTAGTCATATAGAAACAGACAAGATCAACAA
ACGAAAAGATAAAAAATTCTAAAGGAAAGCCAGACTATGAGATAAGGAGGATAAACTTTAAAAG
ACAGACTACTTCTGTAATAATATCAACTAGATATGTACTAATATCTCTGATCAGCTGTCAGAAA
TATAAGAAATTTGAGACTTGAAGTCTTGAACTCAAAAAGGAAAAAGAAGGCCAATCCTGCATCC
AGTTCACCCAATGGACAGCCAATGGTATTTCCAACCCCTCGAAGTTGAAGCAATTTTAAAAAGG
AAACAACTTTGGGGGACGAAAGATTAAACTTAAAAACAACAAGACATTTATCGATTTTTCACAC
TAGATGACTTACCAACCCACCTGCCAGGAATAACGGTAAAAGCACTCTTTTGACCATCAGATGT
GGAAATCTTCCCCAATACGACC
						
					

			
		

Sequences
Splice junction sequence	TCGATTTTTCACACTAGATGACTTACCAACCCACCTGCCAGGAATAACGGTAAAAGCACTCTTT TGACCATCAGATGTGGAAATCTTCCCCAATACGACCcagcttcacaactcggctaaggtttggg agtaccatcgtctgttttcaggaaaaaataacttttttaacacactaatcaggaacaaaggcgg aacaataa
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CAGCTTCACAACTCGGCTAAGGTTTGGGAGTACCATCGTCTGTTTTCAGGAAAAAATAACTTTT TTAACACACTAATCAGGAACAAAGGCGGAACAATAACCAATGACAAGTGAGTTAGACATAATGA CAGGCTTACGAATTTCTCTCTTTCTTTTGAGCCTGTTTCTATCTTGTTCTGCCCACAGATCATA ACAATCGGACCTGATAGTTTATCAAACATTTCCTTAACTTTGTCTACAAATTCCTTTCGTCTTG TCTTAGGCACAGCTCTAGACAACCACTGCGTCGAGTCTGGAAAATAGACTATAAGTGGTTGAAT GGATTGCAAAACCTACAAAGACAGAAAAAATAAAGGACTAAGTGTAGATAACAATCCAGACATA CGTTTCAGAAATAAAAATAGAGGCAGAATTGCAGGCATCCACAGTATAGGAATAAAAGAACATT CAAGATCTTTAAAAAAATTTGGTAAAAATTTCAATGTTATGGTGCTAGAACTTGGTCACACATT TCAGCATACCAAGTAAAACCCAATGAAAAGGACCCATAGATAGGAAAATGTTAAATAAGGCTAC TGGCTAAACAGAGCACAACGTCTTGTTGTATATAGATATATTAACAGTTAAATTAACTAATAAA TTCAAACTAAAATAAAAAGTTATGAGCATTTGCTATTGCTGGAGCATCATCTTCTCAAACATGG AAATTTAAATATACATGTACATCTATAGCTGAAACAAACAAATGAGTAAAGCCAACAAGAAAAG TCAGTGTAACTTCCAAATATACCTCATTTAAAGCTTCCATAGCAATGTAGCCATCAACTGCCTG CATATCCAAATCGTACTTCAGGTCTTTCACTGCGTAATAAAATAGATATTACTTAGCTACATTT AAATATGATGTCAAGCGTCTTCATACATAGCAAGTAATTCTCTAGATTCATAAGTATCACACAT TAACGATCGGAATATTATGAAGCAATTATACCATCTAACCAGTGGATGGGTAACATCTGGGGCT GCTCTGCTGGCTTTTTCTCACTTCCCTCTGATGTTTTATCATCACCGTATTCGAATATGACAGC AACACGGTTCCCAATCACCTCATATACCTCTCCACGTTGTCCACTAGACAATGGCCTGAAAGTA TGTATACACTCCGGTTAAAATCTCCGAACTCTTCGAGTTCGATATATGTTGCAAAAGGTGCACA GAGAATGGTATTCCCCATTTTCAGGCAAGTCGAATTACAAAAACCACAGATGGCATACTGTCAT TAGAAATACCAATATCATGAATAAAGAGTATGTGATGATGATATTCACAACCAAACAAAATCCC ATTCATCAATTAGCAAAACGATAGCGGTGATTGGAAGAATCATTTCTAAAAAAACCATGATGCT GAGAGGAACCAACGAACACATCGGAAGGCAATGATTTTAACAGAAATTTCCCTCACATCCAATG CTAAATCTGAACTATTCAAATCCTAATCCCCAATGATTTGGAAAGGCAGATCGAACTCACTTGG AAAAATCATAATTATGAGAAAATTACTATCAACACCACTAGGAAGAACAAGCAGCCATCGACTC AAATAATATCAGACCAACGTATCATAGAAGATATTTAAGCGCCTGAAATTTACAAGATCATCTT TCATAGTCCTCAAACGTTTTTCACAGTGCATAGTTCTAGTACCAGTTGTCAACTTCTTCACAAG CTTACACCACTCACAGTTAAAATAACAAAGCACGTAGTCATATAGAAACAGACAAGATCAACAA ACGAAAAGATAAAAAATTCTAAAGGAAAGCCAGACTATGAGATAAGGAGGATAAACTTTAAAAG ACAGACTACTTCTGTAATAATATCAACTAGATATGTACTAATATCTCTGATCAGCTGTCAGAAA TATAAGAAATTTGAGACTTGAAGTCTTGAACTCAAAAAGGAAAAAGAAGGCCAATCCTGCATCC AGTTCACCCAATGGACAGCCAATGGTATTTCCAACCCCTCGAAGTTGAAGCAATTTTAAAAAGG AAACAACTTTGGGGGACGAAAGATTAAACTTAAAAACAACAAGACATTTATCGATTTTTCACAC TAGATGACTTACCAACCCACCTGCCAGGAATAACGGTAAAAGCACTCTTTTGACCATCAGATGT GGAAATCTTCCCCAATACGACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.113725591

Conservation Information
Conserved circRNAs	NA
PMCS	0.113725591

			
						 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 AT1G50140_circ_g.5

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