Plant Circular RNA Database

Detail information of AT2G01980_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G01980_circ_g.2
					
						ID in PlantcircBase
						ath_circ_012527
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 459836-461393  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT2G01980						
					
						Parent gene annotation
						
							Sodium/hydrogen exchanger 7
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						root
					
						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
						AT2G01980.1:6

General Information
CircRNA Name	AT2G01980_circ_g.2
ID in PlantcircBase	ath_circ_012527
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 459836-461393 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT2G01980
Parent gene annotation	Sodium/hydrogen exchanger 7
Parent gene strand	+
Alternative splicing	NA
Support reads	1
Tissues	root
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	AT2G01980.1:6

			
						 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  
						
							ATATTCAGTGTTGAATCATTTACTCGGTTACATTGAAAACCTCGAGAAGGTTGGCTTGTTGGAG
GAAAAAGAAATCGCTCATCTTCATGATGCTGTCCAGcaatcaagcggaaattcacatatcagca
aggagactggaacattggtaagttagtctaaagatgttattgacaacttaaaatgattatgcaa
attattgt

									
								

					

						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
						
							CAATCAAGCGGAAATTCACATATCAGCAAGGAGACTGGAACATTGGTAAGTTAGTCTAAAGATG
TTATTGACAACTTAAAATGATTATGCAAATTATTGTTTTGTCTCTTCATATTCTCAGTTCTTTT
GCAGTTTCTTTTCTTCACGGGTGGAATTGTGTTCCTAACTCTGATAGTTAATGGATCCACTACC
CAATTTGTTCTACGCCTTCTTCGCATGGATATTTTACCAGCCCCCAAGGTCAAAAACTTCTCTC
ATACGAATAACTTTCCGAGTTTTAAGTAATCAAATATATGTGTAAACAGAGATTTTTTTGCTTA
TGCTTTGTATTCATGTGTAAGTGACCGTGTTAGCCTGAGTCTGAGCCTTTAAGCTGTATAGTTC
AATAGGGTCTGTATGTTCTAGTCAGTAATGTATTCGAAGAACCTTATTAGAAACCACTTTCCTT
TTGACAGAAACGAATATTGGAATATACAAAGTACGAAATGTTGAATAAGGCCTTACGAGCGTTT
CAAGATCTAGGAGACGATGAGGAGCTAGGACCTGCTGACTGGCCTACAGTTGAAAGTTATATTT
CAAGCCTAAAAGGTTCAGAAGGGGAACTAGTTCATCATCCTCACAATGGCTCTAAAATTGGAAG
TCTTGACCCTAAAAGTTTAAAGGACATACGTATGCGGTTCTTAAATGGTAGTTATGATCATGTA
CCCTCCAATATACTATTTTACCTGGTAGATTATTGACACTTTGAAAATTGGTTGTGTCAGGTGT
GCAAGCAACTTACTGGGAGATGCTTGATGAGGGCAGAATATCTGAAGTTACTGCTAATATTTTG
ATGCAGTCAGTGGATGAGGCGCTTGATCAGGTTTCTACAACTTTATGTGATTGGAGAGGTCTAA
AACCACATGTCAATTTCCCAAATTACTACAACTTTCTTCATTCTAAAGTTGTCCCACGCAAGTT
GGTCACATACTTTGCTGTCGAAAGACTAGAATCTGCTTGCTACATTTCTGCTGCGTTTCTTCGC
GCACATACAATTGCACGACAGCAATTGTATGATTTTCTAGGTATGTACAATCCATACTCTGCAG
TCTGCATCACACTTTGAAAACAATGACTAAGAATAAAACTTGTACCGTATCATCATTAATTGTC
AGAGTTTTTGTTTGCAAGTATCTCAACTTAGTAAGAACAATACATTAACCCAACCCTAGTTTTG
TCTCATACTTATCTATCTTCTCTACACAGGGGAGAGTAATATTGGTTCCATTGTAATCAATGAA
AGTGAAAAGGAAGGAGAGGAAGCAAAAAAGTTCTTGGAAAAAGTCCGATCTTCATTTCCTCAGG
TTGAGAGTCTTGTCATTTCTTTCGGGTGACTTATCTTTCTTGCGGTGAGGCACATATAATCTTT
GATTAACATTGGTTTCAGGTTCTCCGTGTTGTGAAAACAAAACAAGTAACATATTCAGTGTTGA
ATCATTTACTCGGTTACATTGAAAACCTCGAGAAGGTTGGCTTGTTGGAGGAAAAAGAAATCGC
TCATCTTCATGATGCTGTCCAG
						
					

			
		

Sequences
Splice junction sequence	ATATTCAGTGTTGAATCATTTACTCGGTTACATTGAAAACCTCGAGAAGGTTGGCTTGTTGGAG GAAAAAGAAATCGCTCATCTTCATGATGCTGTCCAGcaatcaagcggaaattcacatatcagca aggagactggaacattggtaagttagtctaaagatgttattgacaacttaaaatgattatgcaa attattgt
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	CAATCAAGCGGAAATTCACATATCAGCAAGGAGACTGGAACATTGGTAAGTTAGTCTAAAGATG TTATTGACAACTTAAAATGATTATGCAAATTATTGTTTTGTCTCTTCATATTCTCAGTTCTTTT GCAGTTTCTTTTCTTCACGGGTGGAATTGTGTTCCTAACTCTGATAGTTAATGGATCCACTACC CAATTTGTTCTACGCCTTCTTCGCATGGATATTTTACCAGCCCCCAAGGTCAAAAACTTCTCTC ATACGAATAACTTTCCGAGTTTTAAGTAATCAAATATATGTGTAAACAGAGATTTTTTTGCTTA TGCTTTGTATTCATGTGTAAGTGACCGTGTTAGCCTGAGTCTGAGCCTTTAAGCTGTATAGTTC AATAGGGTCTGTATGTTCTAGTCAGTAATGTATTCGAAGAACCTTATTAGAAACCACTTTCCTT TTGACAGAAACGAATATTGGAATATACAAAGTACGAAATGTTGAATAAGGCCTTACGAGCGTTT CAAGATCTAGGAGACGATGAGGAGCTAGGACCTGCTGACTGGCCTACAGTTGAAAGTTATATTT CAAGCCTAAAAGGTTCAGAAGGGGAACTAGTTCATCATCCTCACAATGGCTCTAAAATTGGAAG TCTTGACCCTAAAAGTTTAAAGGACATACGTATGCGGTTCTTAAATGGTAGTTATGATCATGTA CCCTCCAATATACTATTTTACCTGGTAGATTATTGACACTTTGAAAATTGGTTGTGTCAGGTGT GCAAGCAACTTACTGGGAGATGCTTGATGAGGGCAGAATATCTGAAGTTACTGCTAATATTTTG ATGCAGTCAGTGGATGAGGCGCTTGATCAGGTTTCTACAACTTTATGTGATTGGAGAGGTCTAA AACCACATGTCAATTTCCCAAATTACTACAACTTTCTTCATTCTAAAGTTGTCCCACGCAAGTT GGTCACATACTTTGCTGTCGAAAGACTAGAATCTGCTTGCTACATTTCTGCTGCGTTTCTTCGC GCACATACAATTGCACGACAGCAATTGTATGATTTTCTAGGTATGTACAATCCATACTCTGCAG TCTGCATCACACTTTGAAAACAATGACTAAGAATAAAACTTGTACCGTATCATCATTAATTGTC AGAGTTTTTGTTTGCAAGTATCTCAACTTAGTAAGAACAATACATTAACCCAACCCTAGTTTTG TCTCATACTTATCTATCTTCTCTACACAGGGGAGAGTAATATTGGTTCCATTGTAATCAATGAA AGTGAAAAGGAAGGAGAGGAAGCAAAAAAGTTCTTGGAAAAAGTCCGATCTTCATTTCCTCAGG TTGAGAGTCTTGTCATTTCTTTCGGGTGACTTATCTTTCTTGCGGTGAGGCACATATAATCTTT GATTAACATTGGTTTCAGGTTCTCCGTGTTGTGAAAACAAAACAAGTAACATATTCAGTGTTGA ATCATTTACTCGGTTACATTGAAAACCTCGAGAAGGTTGGCTTGTTGGAGGAAAAAGAAATCGC TCATCTTCATGATGCTGTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.157963966

Conservation Information
Conserved circRNAs	NA
PMCS	0.157963966

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							460052-461390(+)
						
						Potential amino acid sequence
						
							MDILPAPKKRILEYTKYEMLNKALRAFQDLGDDEELGPADWPTVESYISSLKGSEGELVHHPHN
GSKIGSLDPKSLKDIRMRFLNGVQATYWEMLDEGRISEVTANILMQSVDEALDQVSTTLCDWRG
LKPHVNFPNYYNFLHSKVVPRKLVTYFAVERLESACYISAAFLRAHTIARQQLYDFLGESNIGS
IVINESEKEGEEAKKFLEKVRSSFPQVLRVVKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAH
LHDAVQQSSGNSHISKETGTLFLFFTGGIVFLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYT
KYEMLNKALRAFQDLGDDEELGPADWPTVESYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDI
RMRFLNGVQATYWEMLDEGRISEVTANILMQSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLH
SKVVPRKLVTYFAVERLESACYISAAFLRAHTIARQQLYDFLGESNIGSIVINESEKEGEEAKK
FLEKVRSSFPQVLRVVKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAHLHDAVQQSSGNSHIS
KETGTLFLFFTGGIVFLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYTKYEMLNKALRAFQDL
GDDEELGPADWPTVESYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDIRMRFLNGVQATYWEM
LDEGRISEVTANILMQSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLHSKVVPRKLVTYFAVE
RLESACYISAAFLRAHTIARQQLYDFLGESNIGSIVINESEKEGEEAKKFLEKVRSSFPQVLRV
VKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAHLHDAVQQSSGNSHISKETGTLFLFFTGGIV
FLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYTKYEMLNKALRAFQDLGDDEELGPADWPTVE
SYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDIRMRFLNGVQATYWEMLDEGRISEVTANILM
QSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLHSKVVPRKLVTYFAVERLESACYISAAFLRA
HTIARQQLYDFLGESNIGSIVINESEKEGEEAKKFLEKVRSSFPQVLRVVKTKQVTYSVLNHLL
GYIENLEKVGLLEEKEIAHLHDAVQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	460052-461390(+)
Potential amino acid sequence	MDILPAPKKRILEYTKYEMLNKALRAFQDLGDDEELGPADWPTVESYISSLKGSEGELVHHPHN GSKIGSLDPKSLKDIRMRFLNGVQATYWEMLDEGRISEVTANILMQSVDEALDQVSTTLCDWRG LKPHVNFPNYYNFLHSKVVPRKLVTYFAVERLESACYISAAFLRAHTIARQQLYDFLGESNIGS IVINESEKEGEEAKKFLEKVRSSFPQVLRVVKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAH LHDAVQQSSGNSHISKETGTLFLFFTGGIVFLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYT KYEMLNKALRAFQDLGDDEELGPADWPTVESYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDI RMRFLNGVQATYWEMLDEGRISEVTANILMQSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLH SKVVPRKLVTYFAVERLESACYISAAFLRAHTIARQQLYDFLGESNIGSIVINESEKEGEEAKK FLEKVRSSFPQVLRVVKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAHLHDAVQQSSGNSHIS KETGTLFLFFTGGIVFLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYTKYEMLNKALRAFQDL GDDEELGPADWPTVESYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDIRMRFLNGVQATYWEM LDEGRISEVTANILMQSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLHSKVVPRKLVTYFAVE RLESACYISAAFLRAHTIARQQLYDFLGESNIGSIVINESEKEGEEAKKFLEKVRSSFPQVLRV VKTKQVTYSVLNHLLGYIENLEKVGLLEEKEIAHLHDAVQQSSGNSHISKETGTLFLFFTGGIV FLTLIVNGSTTQFVLRLLRMDILPAPKKRILEYTKYEMLNKALRAFQDLGDDEELGPADWPTVE SYISSLKGSEGELVHHPHNGSKIGSLDPKSLKDIRMRFLNGVQATYWEMLDEGRISEVTANILM QSVDEALDQVSTTLCDWRGLKPHVNFPNYYNFLHSKVVPRKLVTYFAVERLESACYISAAFLRA HTIARQQLYDFLGESNIGSIVINESEKEGEEAKKFLEKVRSSFPQVLRVVKTKQVTYSVLNHLL GYIENLEKVGLLEEKEIAHLHDAVQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT2G01980_circ_g.2

Address

Any questions?

Supported by