Plant Circular RNA Database

Detail information of AT1G15750_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G15750_circ_g.4
					
						ID in PlantcircBase
						ath_circ_002794
					
						Alias
						Ath_circ_FC0387, Ath_circ_FC0388
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 5415677-5416532  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G15750						
					
						Parent gene annotation
						
							Protein TOPLESS
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G15750_circ_g.1 AT1G15750_circ_g.2 AT1G15750_circ_g.3 AT1G15750_circ_g.5 AT1G15750_circ_g.6 AT1G15750_circ_g.7 AT1G15750_circ_g.8 AT1G15750_circ_g.9 AT1G15750_circ_g.10 AT1G15750_circ_g.11 AT1G15750_circ_g.12 AT1G15750_circ_g.13 AT1G15750_circ_g.14 AT1G15750_circ_g.15 AT1G15750_circ_g.16 						
					
						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  
						
							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
						AT1G15750.1:4
AT1G15750.2:4
AT1G15750.3:4
AT1G15750.4:4

General Information
CircRNA Name	AT1G15750_circ_g.4
ID in PlantcircBase	ath_circ_002794
Alias	Ath_circ_FC0387, Ath_circ_FC0388
Organism	Arabidpsis thaliana
Position	chr1: 5415677-5416532 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G15750
Parent gene annotation	Protein TOPLESS
Parent gene strand	-
Alternative splicing	AT1G15750_circ_g.1 AT1G15750_circ_g.2 AT1G15750_circ_g.3 AT1G15750_circ_g.5 AT1G15750_circ_g.6 AT1G15750_circ_g.7 AT1G15750_circ_g.8 AT1G15750_circ_g.9 AT1G15750_circ_g.10 AT1G15750_circ_g.11 AT1G15750_circ_g.12 AT1G15750_circ_g.13 AT1G15750_circ_g.14 AT1G15750_circ_g.15 AT1G15750_circ_g.16
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	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	AT1G15750.1:4 AT1G15750.2:4 AT1G15750.3:4 AT1G15750.4:4

			
						 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  
						
							AACAAGGTACAGCTTCCTCGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGC
TGGTTGCCACTGCTGAGGCGGTAAAGAAGCTGTCGCctgtttcatgcattcgagcttggtagtt
tcgtatatagcaagttgcgtctcgtgcacaacgaggaagtgagcttgatcttgatggaactgaa
cacgcgta

									
								

					

						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: 594
Transcript exons: 5415677-5415865,5415950-5416045,5416143-5416271,5416353-
5416532
CTGTTTCATGCATTCGAGCTTGGTAGTTTCGTATATAGCAAGTTGCGTCTCGTGCACAACGAGG
AAGTGAGCTTGATCTTGATGGAACTGAACACGCGTATCTGAAGGTGCACTGTTTGGTCTTCCCT
GTGGAAGTGGCAAAACCTTGCTTCTCTGCTTTTCCCATCCATCTGTGTTCCAAACACAAAGCTG
TGCATCTGCTCCAGACGAAACCAACACGTTTAATACGTTGGAGAAGGCAAGACCAGTTATTCTC
TTTGAATGACCTTTAAGCTTACTCTTCACCTCATCAACACGGACATTATAAATCTGAATCGTGC
TATCATCCATCCCAATAGCGATGATATTGTTGTCTTGAGGATGAAAAGCAAGAAAAGTAGCAGC
CGGTGGTGGGGGCATGAAAGTCGCCATTGTCTTAAACGTCATCATGTTAAATAAGGATATCTTT
CCTCCGGAGGCTGACATTACATATGAATCATTCTTGGATAAAGCAAAACAAGGTACAGCTTCCT
CGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGCTGGTTGCCACTGCTGAGG
CGGTAAAGAAGCTGTCGC
						
					

						Genomic sequence
						
							CTGTTTCATGCATTCGAGCTTGGTAGTTTCGTATATAGCAAGTTGCGTCTCGTGCACAACGAGG
AAGTGAGCTTGATCTTGATGGAACTGAACACGCGTATCTGAAGGTGCACTGTTTGGTCTTCCCT
GTGGAAGTGGCAAAACCTTGCTTCTCTGCTTTTCCCATCCATCTGTGTTCCAAACACAAAGCTG
AAACAAAAACATTTCAAAGACTATTGATCTTTTCTTCATCGATTCTCAAAAAAAAAAAAAAAAA
TGGTCTAAGGCGGGAACCTGTGCATCTGCTCCAGACGAAACCAACACGTTTAATACGTTGGAGA
AGGCAAGACCAGTTATTCTCTTTGAATGACCTTTAAGCTTACTCTTCACCTGCAGGAGCAAACA
AGGAACATGATGGCCATCATATTAACAAACAAAACACTTCATCTTCTTTTCTACATTCTTCTCT
TGAGTTTTGATGCATTACCTCATCAACACGGACATTATAAATCTGAATCGTGCTATCATCCATC
CCAATAGCGATGATATTGTTGTCTTGAGGATGAAAAGCAAGAAAAGTAGCAGCCGGTGGTGGGG
GCATGAAAGTCGCCATTGTCTGCAAATTATTAGCCAAGAACAGTCAGTCAAATTGCATACACAG
AACATCAAAAGATCAGCATCTATGTGTCCCCATTACCTTAAACGTCATCATGTTAAATAAGGAT
ATCTTTCCTCCGGAGGCTGACATTACATATGAATCATTCTTGGATAAAGCAAAACAAGGTACAG
CTTCCTCGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGCTGGTTGCCACTG
CTGAGGCGGTAAAGAAGCTGTCGC
						
					

			
		

Sequences
Splice junction sequence	AACAAGGTACAGCTTCCTCGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGC TGGTTGCCACTGCTGAGGCGGTAAAGAAGCTGTCGCctgtttcatgcattcgagcttggtagtt tcgtatatagcaagttgcgtctcgtgcacaacgaggaagtgagcttgatcttgatggaactgaa cacgcgta
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: 594 Transcript exons: 5415677-5415865,5415950-5416045,5416143-5416271,5416353- 5416532 CTGTTTCATGCATTCGAGCTTGGTAGTTTCGTATATAGCAAGTTGCGTCTCGTGCACAACGAGG AAGTGAGCTTGATCTTGATGGAACTGAACACGCGTATCTGAAGGTGCACTGTTTGGTCTTCCCT GTGGAAGTGGCAAAACCTTGCTTCTCTGCTTTTCCCATCCATCTGTGTTCCAAACACAAAGCTG TGCATCTGCTCCAGACGAAACCAACACGTTTAATACGTTGGAGAAGGCAAGACCAGTTATTCTC TTTGAATGACCTTTAAGCTTACTCTTCACCTCATCAACACGGACATTATAAATCTGAATCGTGC TATCATCCATCCCAATAGCGATGATATTGTTGTCTTGAGGATGAAAAGCAAGAAAAGTAGCAGC CGGTGGTGGGGGCATGAAAGTCGCCATTGTCTTAAACGTCATCATGTTAAATAAGGATATCTTT CCTCCGGAGGCTGACATTACATATGAATCATTCTTGGATAAAGCAAAACAAGGTACAGCTTCCT CGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGCTGGTTGCCACTGCTGAGG CGGTAAAGAAGCTGTCGC
Genomic sequence	CTGTTTCATGCATTCGAGCTTGGTAGTTTCGTATATAGCAAGTTGCGTCTCGTGCACAACGAGG AAGTGAGCTTGATCTTGATGGAACTGAACACGCGTATCTGAAGGTGCACTGTTTGGTCTTCCCT GTGGAAGTGGCAAAACCTTGCTTCTCTGCTTTTCCCATCCATCTGTGTTCCAAACACAAAGCTG AAACAAAAACATTTCAAAGACTATTGATCTTTTCTTCATCGATTCTCAAAAAAAAAAAAAAAAA TGGTCTAAGGCGGGAACCTGTGCATCTGCTCCAGACGAAACCAACACGTTTAATACGTTGGAGA AGGCAAGACCAGTTATTCTCTTTGAATGACCTTTAAGCTTACTCTTCACCTGCAGGAGCAAACA AGGAACATGATGGCCATCATATTAACAAACAAAACACTTCATCTTCTTTTCTACATTCTTCTCT TGAGTTTTGATGCATTACCTCATCAACACGGACATTATAAATCTGAATCGTGCTATCATCCATC CCAATAGCGATGATATTGTTGTCTTGAGGATGAAAAGCAAGAAAAGTAGCAGCCGGTGGTGGGG GCATGAAAGTCGCCATTGTCTGCAAATTATTAGCCAAGAACAGTCAGTCAAATTGCATACACAG AACATCAAAAGATCAGCATCTATGTGTCCCCATTACCTTAAACGTCATCATGTTAAATAAGGAT ATCTTTCCTCCGGAGGCTGACATTACATATGAATCATTCTTGGATAAAGCAAAACAAGGTACAG CTTCCTCGGGATTGGTTTCAGCAACATCGTTAGTCATGAGGATCCCACTAGCTGGTTGCCACTG CTGAGGCGGTAAAGAAGCTGTCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.43273258

Conservation Information
Conserved circRNAs	NA
PMCS	0.43273258

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5416482-5415679(-)
						
						Potential amino acid sequence
						
							MTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPPPAATFLAFHPQD
NNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGADAQLCVWNTDGWE
KQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMKQATASLPPQQWQ
PASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPPPAATFL
AFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGADAQLCVW
NTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMKQATASL
PPQQWQPASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPP
PAATFLAFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGAD
AQLCVWNTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMK
QATASLPPQQWQPASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMA
TFMPPPPAATFLAFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVL
VSSGADAQLCVWNTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETT
KLECMKQ(-)
						
						Sponge-miRNAs
						
							ath-miR5021 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5416482-5415679(-)
Potential amino acid sequence	MTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPPPAATFLAFHPQD NNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGADAQLCVWNTDGWE KQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMKQATASLPPQQWQ PASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPPPAATFL AFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGADAQLCVW NTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMKQATASL PPQQWQPASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMATFMPPP PAATFLAFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVLVSSGAD AQLCVWNTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETTKLECMK QATASLPPQQWQPASGILMTNDVAETNPEEAVPCFALSKNDSYVMSASGGKISLFNMMTFKTMA TFMPPPPAATFLAFHPQDNNIIAIGMDDSTIQIYNVRVDEVKSKLKGHSKRITGLAFSNVLNVL VSSGADAQLCVWNTDGWEKQRSKVLPLPQGRPNSAPSDTRVQFHQDQAHFLVVHETQLAIYETT KLECMKQ(-)
Sponge-miRNAs	ath-miR5021
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G15750_circ_g.4

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