Plant Circular RNA Database

Detail information of AT3G26490_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G26490_circ_g.1
					
						ID in PlantcircBase
						ath_circ_023922
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 9704456-9705694  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT3G26490						
					
						Parent gene annotation
						
							BTB/POZ domain-containing protein At3g26490
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						7
					
						Tissues
						whole_plant
					
						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
						AT3G26490.3:1
AT3G26490.1:1
AT3G26490.2:1
AT3G26490.4:1

General Information
CircRNA Name	AT3G26490_circ_g.1
ID in PlantcircBase	ath_circ_023922
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 9704456-9705694 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT3G26490
Parent gene annotation	BTB/POZ domain-containing protein At3g26490
Parent gene strand	+
Alternative splicing	NA
Support reads	7
Tissues	whole_plant
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	AT3G26490.3:1 AT3G26490.1:1 AT3G26490.2:1 AT3G26490.4:1

			
						 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  
						
							CTTAACAGTGTCGAAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCAC
GACGATTTATACAACGCGATTGATGTCTATCTTCAGtttccgatgttatccaaatgcttacgtt
taaagaacttagtctcttcacaagaaacagaaacctctcaagaacagcaagtcattcaacttgt
tgattttc

									
								

					

						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: 1239
Transcript exons: 9704456-9705694
TTTCCGATGTTATCCAAATGCTTACGTTTAAAGAACTTAGTCTCTTCACAAGAAACAGAAACCT
CTCAAGAACAGCAAGTCATTCAACTTGTTGATTTTCCCGGTGAAACAGAAGCTTTTGAGCTTTG
TGCTAAGTTCTGTTACGGCATCACAATCACTCTCTGTGCTCACAATGTAGTCGCGGTACGTTGC
GCAGCAGAGTATCTAGGGATGACGGAAGAAGTGGAGCTCGGAGAGACGGAGAATCTTGTTCAGA
GACTTGAACTTTTCTTGACTACTTGTGTGTTCAAGAGTTGGAGAGATTCTTATGTTACTCTTCA
GACTACAAAGGTTTTGCCTTTATGGTCTGAAGATCTTGGGATCACAAACCGATGCATCGAGGCG
ATTGCTAACGGTGTAACTGTATCCCCCGGAGAGGATTTTTCGACACAATTGGAGACGGGTTTGT
TGAGAAACCGATCAAGGATAAGAAGAGATGAAATCTTGTGTAATGGTGGAGGAGGAAGTAAGGC
AGAGAGTTTGAGGTGGTGGGGTGAAGATTTAGCTGAATTGGGTTTAGATCTTTACCGGAGAACA
ATGGTGGCGATAAAATCATCACACCGGAAGATATCTCCGCGGTTAATCGGAAATGCTCTTAGGA
TATATGCATCTAAATGGCTACCAAGCATCCAAGAAAGCTCTGCGGATTCAAATCTTGTTTTGGA
ATCGGTTATTTCACTTCTACCAGAGGAAAAATCCTCTGTTCCTTGCAGTTTCTTGCTTCAGCTA
CTGAAAATGGCTAATGTTATGAACGTTTCGCATTCTTCGAAGATGGAACTCGCGATAAAAGCCG
GGAATCAACTGGATAAGGCAACCGTTAGCGAGCTGTTGATACCCTTATCGGATAAGTCTGGTAT
GTTATACGATGTGGATGTTGTGAAGATGATGGTGAAGCAGTTTTTGTCACATATTAGTCCTGAG
ATAAGGCCAACAAGAACAAGAACAGAACATAGAAGGTCTCGTTCTGAAGAAAACATCAATTTGG
AAGAGATACAGGAGGTTAGAGGATCTTTGTCTACTTCTTCTTCTCCTCCTCCATTGTTGAGTAA
AGTAGCAAAGCTTGTTGATTCTTATCTTCAAGAAATTGCTAGAGATGTGAACTTAACAGTGTCG
AAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCACGACGATTTATACA
ACGCGATTGATGTCTATCTTCAG
						
					

						Genomic sequence
						
							TTTCCGATGTTATCCAAATGCTTACGTTTAAAGAACTTAGTCTCTTCACAAGAAACAGAAACCT
CTCAAGAACAGCAAGTCATTCAACTTGTTGATTTTCCCGGTGAAACAGAAGCTTTTGAGCTTTG
TGCTAAGTTCTGTTACGGCATCACAATCACTCTCTGTGCTCACAATGTAGTCGCGGTACGTTGC
GCAGCAGAGTATCTAGGGATGACGGAAGAAGTGGAGCTCGGAGAGACGGAGAATCTTGTTCAGA
GACTTGAACTTTTCTTGACTACTTGTGTGTTCAAGAGTTGGAGAGATTCTTATGTTACTCTTCA
GACTACAAAGGTTTTGCCTTTATGGTCTGAAGATCTTGGGATCACAAACCGATGCATCGAGGCG
ATTGCTAACGGTGTAACTGTATCCCCCGGAGAGGATTTTTCGACACAATTGGAGACGGGTTTGT
TGAGAAACCGATCAAGGATAAGAAGAGATGAAATCTTGTGTAATGGTGGAGGAGGAAGTAAGGC
AGAGAGTTTGAGGTGGTGGGGTGAAGATTTAGCTGAATTGGGTTTAGATCTTTACCGGAGAACA
ATGGTGGCGATAAAATCATCACACCGGAAGATATCTCCGCGGTTAATCGGAAATGCTCTTAGGA
TATATGCATCTAAATGGCTACCAAGCATCCAAGAAAGCTCTGCGGATTCAAATCTTGTTTTGGA
ATCGGTTATTTCACTTCTACCAGAGGAAAAATCCTCTGTTCCTTGCAGTTTCTTGCTTCAGCTA
CTGAAAATGGCTAATGTTATGAACGTTTCGCATTCTTCGAAGATGGAACTCGCGATAAAAGCCG
GGAATCAACTGGATAAGGCAACCGTTAGCGAGCTGTTGATACCCTTATCGGATAAGTCTGGTAT
GTTATACGATGTGGATGTTGTGAAGATGATGGTGAAGCAGTTTTTGTCACATATTAGTCCTGAG
ATAAGGCCAACAAGAACAAGAACAGAACATAGAAGGTCTCGTTCTGAAGAAAACATCAATTTGG
AAGAGATACAGGAGGTTAGAGGATCTTTGTCTACTTCTTCTTCTCCTCCTCCATTGTTGAGTAA
AGTAGCAAAGCTTGTTGATTCTTATCTTCAAGAAATTGCTAGAGATGTGAACTTAACAGTGTCG
AAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCACGACGATTTATACA
ACGCGATTGATGTCTATCTTCAG
						
					

			
		

Sequences
Splice junction sequence	CTTAACAGTGTCGAAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCAC GACGATTTATACAACGCGATTGATGTCTATCTTCAGtttccgatgttatccaaatgcttacgtt taaagaacttagtctcttcacaagaaacagaaacctctcaagaacagcaagtcattcaacttgt tgattttc
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: 1239 Transcript exons: 9704456-9705694 TTTCCGATGTTATCCAAATGCTTACGTTTAAAGAACTTAGTCTCTTCACAAGAAACAGAAACCT CTCAAGAACAGCAAGTCATTCAACTTGTTGATTTTCCCGGTGAAACAGAAGCTTTTGAGCTTTG TGCTAAGTTCTGTTACGGCATCACAATCACTCTCTGTGCTCACAATGTAGTCGCGGTACGTTGC GCAGCAGAGTATCTAGGGATGACGGAAGAAGTGGAGCTCGGAGAGACGGAGAATCTTGTTCAGA GACTTGAACTTTTCTTGACTACTTGTGTGTTCAAGAGTTGGAGAGATTCTTATGTTACTCTTCA GACTACAAAGGTTTTGCCTTTATGGTCTGAAGATCTTGGGATCACAAACCGATGCATCGAGGCG ATTGCTAACGGTGTAACTGTATCCCCCGGAGAGGATTTTTCGACACAATTGGAGACGGGTTTGT TGAGAAACCGATCAAGGATAAGAAGAGATGAAATCTTGTGTAATGGTGGAGGAGGAAGTAAGGC AGAGAGTTTGAGGTGGTGGGGTGAAGATTTAGCTGAATTGGGTTTAGATCTTTACCGGAGAACA ATGGTGGCGATAAAATCATCACACCGGAAGATATCTCCGCGGTTAATCGGAAATGCTCTTAGGA TATATGCATCTAAATGGCTACCAAGCATCCAAGAAAGCTCTGCGGATTCAAATCTTGTTTTGGA ATCGGTTATTTCACTTCTACCAGAGGAAAAATCCTCTGTTCCTTGCAGTTTCTTGCTTCAGCTA CTGAAAATGGCTAATGTTATGAACGTTTCGCATTCTTCGAAGATGGAACTCGCGATAAAAGCCG GGAATCAACTGGATAAGGCAACCGTTAGCGAGCTGTTGATACCCTTATCGGATAAGTCTGGTAT GTTATACGATGTGGATGTTGTGAAGATGATGGTGAAGCAGTTTTTGTCACATATTAGTCCTGAG ATAAGGCCAACAAGAACAAGAACAGAACATAGAAGGTCTCGTTCTGAAGAAAACATCAATTTGG AAGAGATACAGGAGGTTAGAGGATCTTTGTCTACTTCTTCTTCTCCTCCTCCATTGTTGAGTAA AGTAGCAAAGCTTGTTGATTCTTATCTTCAAGAAATTGCTAGAGATGTGAACTTAACAGTGTCG AAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCACGACGATTTATACA ACGCGATTGATGTCTATCTTCAG
Genomic sequence	TTTCCGATGTTATCCAAATGCTTACGTTTAAAGAACTTAGTCTCTTCACAAGAAACAGAAACCT CTCAAGAACAGCAAGTCATTCAACTTGTTGATTTTCCCGGTGAAACAGAAGCTTTTGAGCTTTG TGCTAAGTTCTGTTACGGCATCACAATCACTCTCTGTGCTCACAATGTAGTCGCGGTACGTTGC GCAGCAGAGTATCTAGGGATGACGGAAGAAGTGGAGCTCGGAGAGACGGAGAATCTTGTTCAGA GACTTGAACTTTTCTTGACTACTTGTGTGTTCAAGAGTTGGAGAGATTCTTATGTTACTCTTCA GACTACAAAGGTTTTGCCTTTATGGTCTGAAGATCTTGGGATCACAAACCGATGCATCGAGGCG ATTGCTAACGGTGTAACTGTATCCCCCGGAGAGGATTTTTCGACACAATTGGAGACGGGTTTGT TGAGAAACCGATCAAGGATAAGAAGAGATGAAATCTTGTGTAATGGTGGAGGAGGAAGTAAGGC AGAGAGTTTGAGGTGGTGGGGTGAAGATTTAGCTGAATTGGGTTTAGATCTTTACCGGAGAACA ATGGTGGCGATAAAATCATCACACCGGAAGATATCTCCGCGGTTAATCGGAAATGCTCTTAGGA TATATGCATCTAAATGGCTACCAAGCATCCAAGAAAGCTCTGCGGATTCAAATCTTGTTTTGGA ATCGGTTATTTCACTTCTACCAGAGGAAAAATCCTCTGTTCCTTGCAGTTTCTTGCTTCAGCTA CTGAAAATGGCTAATGTTATGAACGTTTCGCATTCTTCGAAGATGGAACTCGCGATAAAAGCCG GGAATCAACTGGATAAGGCAACCGTTAGCGAGCTGTTGATACCCTTATCGGATAAGTCTGGTAT GTTATACGATGTGGATGTTGTGAAGATGATGGTGAAGCAGTTTTTGTCACATATTAGTCCTGAG ATAAGGCCAACAAGAACAAGAACAGAACATAGAAGGTCTCGTTCTGAAGAAAACATCAATTTGG AAGAGATACAGGAGGTTAGAGGATCTTTGTCTACTTCTTCTTCTCCTCCTCCATTGTTGAGTAA AGTAGCAAAGCTTGTTGATTCTTATCTTCAAGAAATTGCTAGAGATGTGAACTTAACAGTGTCG AAGTTTGTTGAATTGGCTGAAACAATACCGGACACTTCAAGGATTTGTCACGACGATTTATACA ACGCGATTGATGTCTATCTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229297737

Conservation Information
Conserved circRNAs	NA
PMCS	0.229297737

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							9704462-9705691(+)
						
					

						Potential amino acid sequence
						
							MLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGETEAFELCAKFCYGITITLCAHNVVAVRCAA
EYLGMTEEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQTTKVLPLWSEDLGITNRCIEAIA
NGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKAESLRWWGEDLAELGLDLYRRTMV
AIKSSHRKISPRLIGNALRIYASKWLPSIQESSADSNLVLESVISLLPEEKSSVPCSFLLQLLK
MANVMNVSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGMLYDVDVVKMMVKQFLSHISPEIR
PTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSKVAKLVDSYLQEIARDVNLTVSKF
VELAETIPDTSRICHDDLYNAIDVYLQFPMLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGET
EAFELCAKFCYGITITLCAHNVVAVRCAAEYLGMTEEVELGETENLVQRLELFLTTCVFKSWRD
SYVTLQTTKVLPLWSEDLGITNRCIEAIANGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNG
GGGSKAESLRWWGEDLAELGLDLYRRTMVAIKSSHRKISPRLIGNALRIYASKWLPSIQESSAD
SNLVLESVISLLPEEKSSVPCSFLLQLLKMANVMNVSHSSKMELAIKAGNQLDKATVSELLIPL
SDKSGMLYDVDVVKMMVKQFLSHISPEIRPTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSP
PPLLSKVAKLVDSYLQEIARDVNLTVSKFVELAETIPDTSRICHDDLYNAIDVYLQFPMLSKCL
RLKNLVSSQETETSQEQQVIQLVDFPGETEAFELCAKFCYGITITLCAHNVVAVRCAAEYLGMT
EEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQTTKVLPLWSEDLGITNRCIEAIANGVTVS
PGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKAESLRWWGEDLAELGLDLYRRTMVAIKSSH
RKISPRLIGNALRIYASKWLPSIQESSADSNLVLESVISLLPEEKSSVPCSFLLQLLKMANVMN
VSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGMLYDVDVVKMMVKQFLSHISPEIRPTRTRT
EHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSKVAKLVDSYLQEIARDVNLTVSKFVELAET
IPDTSRICHDDLYNAIDVYLQFPMLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGETEAFELC
AKFCYGITITLCAHNVVAVRCAAEYLGMTEEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQ
TTKVLPLWSEDLGITNRCIEAIANGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKA
ESLRWWGEDLAELGLDLYRRTMVAIKSSHRKISPRLIGNALRIYASKWLPSIQESSADSNLVLE
SVISLLPEEKSSVPCSFLLQLLKMANVMNVSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGM
LYDVDVVKMMVKQFLSHISPEIRPTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSK
VAKLVDSYLQEIARDVNLTVSKFVELAETIPDTSRICHDDLYNAIDVYLQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	9704462-9705691(+)
Potential amino acid sequence	MLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGETEAFELCAKFCYGITITLCAHNVVAVRCAA EYLGMTEEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQTTKVLPLWSEDLGITNRCIEAIA NGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKAESLRWWGEDLAELGLDLYRRTMV AIKSSHRKISPRLIGNALRIYASKWLPSIQESSADSNLVLESVISLLPEEKSSVPCSFLLQLLK MANVMNVSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGMLYDVDVVKMMVKQFLSHISPEIR PTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSKVAKLVDSYLQEIARDVNLTVSKF VELAETIPDTSRICHDDLYNAIDVYLQFPMLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGET EAFELCAKFCYGITITLCAHNVVAVRCAAEYLGMTEEVELGETENLVQRLELFLTTCVFKSWRD SYVTLQTTKVLPLWSEDLGITNRCIEAIANGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNG GGGSKAESLRWWGEDLAELGLDLYRRTMVAIKSSHRKISPRLIGNALRIYASKWLPSIQESSAD SNLVLESVISLLPEEKSSVPCSFLLQLLKMANVMNVSHSSKMELAIKAGNQLDKATVSELLIPL SDKSGMLYDVDVVKMMVKQFLSHISPEIRPTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSP PPLLSKVAKLVDSYLQEIARDVNLTVSKFVELAETIPDTSRICHDDLYNAIDVYLQFPMLSKCL RLKNLVSSQETETSQEQQVIQLVDFPGETEAFELCAKFCYGITITLCAHNVVAVRCAAEYLGMT EEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQTTKVLPLWSEDLGITNRCIEAIANGVTVS PGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKAESLRWWGEDLAELGLDLYRRTMVAIKSSH RKISPRLIGNALRIYASKWLPSIQESSADSNLVLESVISLLPEEKSSVPCSFLLQLLKMANVMN VSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGMLYDVDVVKMMVKQFLSHISPEIRPTRTRT EHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSKVAKLVDSYLQEIARDVNLTVSKFVELAET IPDTSRICHDDLYNAIDVYLQFPMLSKCLRLKNLVSSQETETSQEQQVIQLVDFPGETEAFELC AKFCYGITITLCAHNVVAVRCAAEYLGMTEEVELGETENLVQRLELFLTTCVFKSWRDSYVTLQ TTKVLPLWSEDLGITNRCIEAIANGVTVSPGEDFSTQLETGLLRNRSRIRRDEILCNGGGGSKA ESLRWWGEDLAELGLDLYRRTMVAIKSSHRKISPRLIGNALRIYASKWLPSIQESSADSNLVLE SVISLLPEEKSSVPCSFLLQLLKMANVMNVSHSSKMELAIKAGNQLDKATVSELLIPLSDKSGM LYDVDVVKMMVKQFLSHISPEIRPTRTRTEHRRSRSEENINLEEIQEVRGSLSTSSSPPPLLSK VAKLVDSYLQEIARDVNLTVSKFVELAETIPDTSRICHDDLYNAIDVYLQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT3G26490_circ_g.1

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