Plant Circular RNA Database

Detail information of AT1G15290_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G15290_circ_g.1
					
						ID in PlantcircBase
						ath_circ_002675
					
						Alias
						1:5258511-5261463
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 5258511-5261463  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G15290						
					
						Parent gene annotation
						
							Tetratricopeptide repeat (TPR)-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G15290_circ_g.2 AT1G15290_circ_g.3 AT1G15290_circ_g.4 AT1G15290_circ_g.5 AT1G15290_circ_g.6 AT1G15290_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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  
						
							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
						AT1G15290.2:11
AT1G15290.1:11

General Information
CircRNA Name	AT1G15290_circ_g.1
ID in PlantcircBase	ath_circ_002675
Alias	1:5258511-5261463
Organism	Arabidpsis thaliana
Position	chr1: 5258511-5261463 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G15290
Parent gene annotation	Tetratricopeptide repeat (TPR)-like superfamily protein
Parent gene strand	-
Alternative splicing	AT1G15290_circ_g.2 AT1G15290_circ_g.3 AT1G15290_circ_g.4 AT1G15290_circ_g.5 AT1G15290_circ_g.6 AT1G15290_circ_g.7
Support reads	2
Tissues	seedling
Exon boundary	No-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	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	AT1G15290.2:11 AT1G15290.1:11

			
						 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  
						
							CTTTATTCTTTCAAAATCAAAATAACTTGAAAACAGGGAAAGGCGCTATTAACAAGGTAAAGCA
TTCTTACCACATGTCCTAGAGAACGCATTTGGAGTCcatttccggatctcccctttgagtatgc
ctcttgccagccctcgtctaaagttgactcttccacagtttgcctgtctacatttagcctgtgt
actacaat

									
								

					

						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
						
							CATTTCCGGATCTCCCCTTTGAGTATGCCTCTTGCCAGCCCTCGTCTAAAGTTGACTCTTCCAC
AGTTTGCCTGTCTACATTTAGCCTGTGTACTACAATATCACCTGTCTCAATATTGGTCTTATCA
ACAACTGTATCAGGATCATTTACTTCGCTCCTACTCTTAGTGACATCCGCTTCTGCCACATTGT
TCCATGTAACAATGTCAATCTGTGAAGCAACTCTATGGGCGTCATCATCAGCTGATGCAACCTT
ATCATTGACCTGTAATATCTGTCGAAACAGAAGTAATGTCACAAACCTTTGACAGGAAATCCTG
GAGTGATATATCTATCTCATTCTTTTCGTTTCAACATCTCACATGTTTTTTCTTTGGACTTCTA
GTGCATGGAATGCCTTTAAAATTTAGATCAATATTCCAATTTAGACATACATCTAGAATACCAA
TCAGCATAGTTCAAACTTTTCAAGAAGAGTTCTACACAATTGACAGGTTTTTTATTCAGGTTAT
TATTTGATCAACAAAATCCAAAATGAGTGACCTGAGGAAAACAAGGATATTAGAGTTTAGGAAT
TACCCTGGCACGCCGATGTTTCCTGTGAGCAACATTTCCCTTAGTGTCTGGATCAGAACTTATA
TAGTCCAGGAGATCTGATACACTGCAAGAGAAGGTCGGACTTTGGTGCCAATGAAATAATTACC
ATATCCTTTATGTGTTCTAGGAGTTTCCATTTTAGTACCTAAGGTGGCCTTTGCTCGCGATGGA
AGCATCAGGCTTTGGGATTCCATTTCGGCCTGCTTCCTGCTGCTCTATGGCTCTTGATTCAAAA
TATTCGAGCCATGCAGCAGCATCCTGTGAGAGACAAATGGAGAAAACAAACATGTATGTCTCAG
AGTTCAAAACGTTCACTTTGTTACTTTGCTAGTAAGAAATTAATATTCGTCTGAGATTTGTATG
CGAATGAACCAGAAGCAAATCAATCACCTGTGTACGAAGGTCATCTGCTCCAAGTTTTGCAGTA
AGTATCTGAAGTGTAGTTTGTTCATGTTGCACACTCAATGAATGTGCTTCCATGAAAGAGAGAG
CCACTGCTATTGCATGATAGCTTGCCGCAGTCTGGCAAAGTAAAACACAGAAAGCATGATTAGT
TTAAGAATGCGCGCAAATTGAGGCAAGATAGATAAGGGAGGAACCTGAATATGGTCAGCTCCTA
GCAATCTTTTATTGCTCTTTAGAGCTTCATGCAGGTACCTTAGAGCTAGATGATCATTCCCTAC
TTCTTTTTCCATCATAGCCACATTGATATATGTGGCAGCAGTATTTGGGTGAGATAGCCCACAA
GTGAAGTGAAGAAGAAACAACGCCCGGTTCACATATCTATAACAGATAACAAATAAAAATGGTT
AGAAAGAAGGCAGATATATTTAAAAGGAGCCAATCAGAGGAAAAGGTTGGACCATAAGCCATTC
CAAGGCAACAAGACAAAGGTAATGGAAAAGCAAAGTAGTAAGGTTCCATCTTTAATGACTATAT
AACTATAAGAGATCATCATGTATAACTTACTTTAGTGCCAATTCAAAATGTTGAAGACGATAGT
AAAATACAGAAAGATCCCCATAGCTTTTCATAGTGTCGGGATGGTCGAGACCAAGTTCTCTCTC
ATTTATATCTAGAGCCTTCTGCTGATATATTGTTGCCTGATCAAGAGAGGATAAAAAATCAGAG
ATGACGGTACCTCTCATCAATTTATTTATATACAGTGCCTAGAACGAGAACATCAAACTCTCTA
TTTGTTACTTGAAATCAAAGTTTCCATTTGGGAAGAAGATAAAAGATGATGATACCTGGTTAAA
ATCGCCAGTGTGGTATAGTACAACTGCGAGAAGACTGTACGCACATGCAGTATTTCTATGATAA
GGCCCACAGACAGCAATCATCTTGACTAATGCCTAGGAAATGCAAGAAGTCAGCATCTCTTAGA
TAACAATTCAGTTGGTTAGAATGATGATCATGTAGCTATCAAAAGAAATGACACCTTTGTTCCA
TAGCTCACAGCATCATCTAGTTTTCCTTTGTCAAGAGCAAGTTTTGATGACTCCAAGAGTGTCC
TTCCGTCAGATGAAATACACAGCACATGCTGTTCAAACGAACATATATCTTAAAGATTACTCTC
TAGAATTTGAACCATAAAATCGAAGCAGCCGTAGATAAATAACAGATTGTGACCGAATCTCTAT
TAGTCAAACTAAAATTGGATCATGGAGAGGCGAACCTTGCACACAGGTACCAATCCAATAATGT
CAGAGCTCATGAAAGGATTTGGAGAATCGAAGTCAAAATCTCTTGAAACTAGTTCTAAACCAAC
CTGTAAAAGCATGAAATCAATAGAGAACTCTAATTTTGATACAAGCAGCAGTAACACAGAGCTA
CTTTACCTTCTGGCAGAGTCCTCGGAGGATAGAAAACTTTTTTAAATGATGGAACTCATCTTTC
TGTATCCAACCAAATTTTCTGGAGAGAAATTTCTGTAGCCACTGTAATCTGAGACAGTACTCTT
CACCGGGGATTCTATCGCACCCTTCCAATTCACGGCGGCCAAGCATAAAATTTAATGAAGCAGC
TACCGCCACAGGTAGCTCTGCCATATTATTAACAGATGCAATAACCGCCCTAAGAAGATGCTTG
AAAGCTCTTGTAATCATCTCATGAATACAGAGGGACTGTATATGAGGAAGTTTCTCAGCAAGTT
TAGCCTGATTCATAGGTATAGTGGACCGAAATACTCATTAACATCTATTTACCATAAACTACGT
CCGACCTCAACAAAGTCCCTTGAGATCAACAAACTGGCTTTATTCTTTCAAAATCAAAATAACT
TGAAAACAGGGAAAGGCGCTATTAACAAGGTAAAGCATTCTTACCACATGTCCTAGAGAACGCA
TTTGGAGTC
						
					

			
		

Sequences
Splice junction sequence	CTTTATTCTTTCAAAATCAAAATAACTTGAAAACAGGGAAAGGCGCTATTAACAAGGTAAAGCA TTCTTACCACATGTCCTAGAGAACGCATTTGGAGTCcatttccggatctcccctttgagtatgc ctcttgccagccctcgtctaaagttgactcttccacagtttgcctgtctacatttagcctgtgt actacaat
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	CATTTCCGGATCTCCCCTTTGAGTATGCCTCTTGCCAGCCCTCGTCTAAAGTTGACTCTTCCAC AGTTTGCCTGTCTACATTTAGCCTGTGTACTACAATATCACCTGTCTCAATATTGGTCTTATCA ACAACTGTATCAGGATCATTTACTTCGCTCCTACTCTTAGTGACATCCGCTTCTGCCACATTGT TCCATGTAACAATGTCAATCTGTGAAGCAACTCTATGGGCGTCATCATCAGCTGATGCAACCTT ATCATTGACCTGTAATATCTGTCGAAACAGAAGTAATGTCACAAACCTTTGACAGGAAATCCTG GAGTGATATATCTATCTCATTCTTTTCGTTTCAACATCTCACATGTTTTTTCTTTGGACTTCTA GTGCATGGAATGCCTTTAAAATTTAGATCAATATTCCAATTTAGACATACATCTAGAATACCAA TCAGCATAGTTCAAACTTTTCAAGAAGAGTTCTACACAATTGACAGGTTTTTTATTCAGGTTAT TATTTGATCAACAAAATCCAAAATGAGTGACCTGAGGAAAACAAGGATATTAGAGTTTAGGAAT TACCCTGGCACGCCGATGTTTCCTGTGAGCAACATTTCCCTTAGTGTCTGGATCAGAACTTATA TAGTCCAGGAGATCTGATACACTGCAAGAGAAGGTCGGACTTTGGTGCCAATGAAATAATTACC ATATCCTTTATGTGTTCTAGGAGTTTCCATTTTAGTACCTAAGGTGGCCTTTGCTCGCGATGGA AGCATCAGGCTTTGGGATTCCATTTCGGCCTGCTTCCTGCTGCTCTATGGCTCTTGATTCAAAA TATTCGAGCCATGCAGCAGCATCCTGTGAGAGACAAATGGAGAAAACAAACATGTATGTCTCAG AGTTCAAAACGTTCACTTTGTTACTTTGCTAGTAAGAAATTAATATTCGTCTGAGATTTGTATG CGAATGAACCAGAAGCAAATCAATCACCTGTGTACGAAGGTCATCTGCTCCAAGTTTTGCAGTA AGTATCTGAAGTGTAGTTTGTTCATGTTGCACACTCAATGAATGTGCTTCCATGAAAGAGAGAG CCACTGCTATTGCATGATAGCTTGCCGCAGTCTGGCAAAGTAAAACACAGAAAGCATGATTAGT TTAAGAATGCGCGCAAATTGAGGCAAGATAGATAAGGGAGGAACCTGAATATGGTCAGCTCCTA GCAATCTTTTATTGCTCTTTAGAGCTTCATGCAGGTACCTTAGAGCTAGATGATCATTCCCTAC TTCTTTTTCCATCATAGCCACATTGATATATGTGGCAGCAGTATTTGGGTGAGATAGCCCACAA GTGAAGTGAAGAAGAAACAACGCCCGGTTCACATATCTATAACAGATAACAAATAAAAATGGTT AGAAAGAAGGCAGATATATTTAAAAGGAGCCAATCAGAGGAAAAGGTTGGACCATAAGCCATTC CAAGGCAACAAGACAAAGGTAATGGAAAAGCAAAGTAGTAAGGTTCCATCTTTAATGACTATAT AACTATAAGAGATCATCATGTATAACTTACTTTAGTGCCAATTCAAAATGTTGAAGACGATAGT AAAATACAGAAAGATCCCCATAGCTTTTCATAGTGTCGGGATGGTCGAGACCAAGTTCTCTCTC ATTTATATCTAGAGCCTTCTGCTGATATATTGTTGCCTGATCAAGAGAGGATAAAAAATCAGAG ATGACGGTACCTCTCATCAATTTATTTATATACAGTGCCTAGAACGAGAACATCAAACTCTCTA TTTGTTACTTGAAATCAAAGTTTCCATTTGGGAAGAAGATAAAAGATGATGATACCTGGTTAAA ATCGCCAGTGTGGTATAGTACAACTGCGAGAAGACTGTACGCACATGCAGTATTTCTATGATAA GGCCCACAGACAGCAATCATCTTGACTAATGCCTAGGAAATGCAAGAAGTCAGCATCTCTTAGA TAACAATTCAGTTGGTTAGAATGATGATCATGTAGCTATCAAAAGAAATGACACCTTTGTTCCA TAGCTCACAGCATCATCTAGTTTTCCTTTGTCAAGAGCAAGTTTTGATGACTCCAAGAGTGTCC TTCCGTCAGATGAAATACACAGCACATGCTGTTCAAACGAACATATATCTTAAAGATTACTCTC TAGAATTTGAACCATAAAATCGAAGCAGCCGTAGATAAATAACAGATTGTGACCGAATCTCTAT TAGTCAAACTAAAATTGGATCATGGAGAGGCGAACCTTGCACACAGGTACCAATCCAATAATGT CAGAGCTCATGAAAGGATTTGGAGAATCGAAGTCAAAATCTCTTGAAACTAGTTCTAAACCAAC CTGTAAAAGCATGAAATCAATAGAGAACTCTAATTTTGATACAAGCAGCAGTAACACAGAGCTA CTTTACCTTCTGGCAGAGTCCTCGGAGGATAGAAAACTTTTTTAAATGATGGAACTCATCTTTC TGTATCCAACCAAATTTTCTGGAGAGAAATTTCTGTAGCCACTGTAATCTGAGACAGTACTCTT CACCGGGGATTCTATCGCACCCTTCCAATTCACGGCGGCCAAGCATAAAATTTAATGAAGCAGC TACCGCCACAGGTAGCTCTGCCATATTATTAACAGATGCAATAACCGCCCTAAGAAGATGCTTG AAAGCTCTTGTAATCATCTCATGAATACAGAGGGACTGTATATGAGGAAGTTTCTCAGCAAGTT TAGCCTGATTCATAGGTATAGTGGACCGAAATACTCATTAACATCTATTTACCATAAACTACGT CCGACCTCAACAAAGTCCCTTGAGATCAACAAACTGGCTTTATTCTTTCAAAATCAAAATAACT TGAAAACAGGGAAAGGCGCTATTAACAAGGTAAAGCATTCTTACCACATGTCCTAGAGAACGCA TTTGGAGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.208469074

Conservation Information
Conserved circRNAs	NA
PMCS	0.208469074

			
						 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 AT1G15290_circ_g.1

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