Plant Circular RNA Database

Detail information of AT3G55020_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT3G55020_circ_g.8
					
						ID in PlantcircBase
						ath_circ_027594
					
						Alias
						At_ciR3197
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 20390983-20392795  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT3G55020						
					
						Parent gene annotation
						
							Ypt/Rab-GAP domain of gyp1p superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G55020_circ_g.5 AT3G55020_circ_g.6 AT3G55020_circ_g.7 AT3G55020_circ_g.9 AT3G55020_circ_g.10 AT3G55020_circ_g.11 AT3G55020_circ_g.12 AT3G55020_circ_g.13 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						AT3G55020.1:7
AT3G55020.3:7
AT3G55020.2:7

General Information
CircRNA Name	AT3G55020_circ_g.8
ID in PlantcircBase	ath_circ_027594
Alias	At_ciR3197
Organism	Arabidpsis thaliana
Position	chr3: 20390983-20392795 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT3G55020
Parent gene annotation	Ypt/Rab-GAP domain of gyp1p superfamily protein
Parent gene strand	-
Alternative splicing	AT3G55020_circ_g.5 AT3G55020_circ_g.6 AT3G55020_circ_g.7 AT3G55020_circ_g.9 AT3G55020_circ_g.10 AT3G55020_circ_g.11 AT3G55020_circ_g.12 AT3G55020_circ_g.13
Support reads	2
Tissues	leaf
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	AT3G55020.1:7 AT3G55020.3:7 AT3G55020.2:7

			
						 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  
						
							CAGAAGGATTATGCCTAGCATAAGCAGTAAGCAAACGCCGTAGAGCATTTCTACCATCATCATC
TAGAGCAGGATGACCAGGAAATGTCCGAGGTAAGTCctgcgcttgaagatcttgaacagaatct
acctccccatccccagttaggctaaccaacacttcatctgcattacttgatcctgactcagatc
gagacaaa

									
								

					

						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
						
							CTGCGCTTGAAGATCTTGAACAGAATCTACCTCCCCATCCCCAGTTAGGCTAACCAACACTTCA
TCTGCATTACTTGATCCTGACTCAGATCGAGACAAACTCCCATTTGACAATGAGGCTTTGCTAT
CCACCAAAACAGATTTTGGGTCTTGCTTAAAATTATATAATTTGGAGGCAAGTCCCTTAGAATC
TCTCCACGCTTGAAGCCCCTTTGACCTTTCCTCAAGTGCAGCGATCACAGCTGGCCTATGCTTG
CTTCGCAATTCTTGCAATCTAATTTCATGTACATTTTGGTAACCCATGCAAGCAGTTAAAACTA
GCTGGCTGCTATCAAATGTTGATCCAGTCAGTGATTGTAGCAAAGTAACAGCGTCTCCAGCATC
CTTCGTAGTAACTAATGCAGGACCTGAAGTGAATTAAACCATAAGTTAGAGCAGTCTCGATGAT
GACGCCACTGCGTTCAGAAGGTCCACAAACCATCTCACTTAAATTGAAAGACCAGCAGTTTCAA
TCAAGTACCATATAGTTCCATCAATGCGAGTGCTGTTCTGAAAAGCATAACACGAGTTCCTTCA
AAGAGAAGCACATCCCAGACTCTAAGAACTGTGATCAAGAAGACGAACATTTAGAAAGAAAATG
GGTTCTCAGTCCCAAATCTCAAAGAGAAAGATGATCAAATTTTAACAGATTGCCAGCATAATTT
ACTAGTTACTCAATTCTATTTCAAACAAGACAGCTTTAATTCCAATGTTTAAAACCTGACCACT
TTCCCATGGAAGCATATTCATGAAGATGGAAAGAAACCATGGCCCTGTAACCCAAGCCACTTGC
ACTCCAAGATAATCCAGATGATGAACTGTAGACATAGAAAAGTTGCAGAGCTTAGTACTAACTG
TGAACATTCTACAAGATGAAACAAAAAACTTTGAGGGAACTCACCCAATTTAGGAAATCTTTCT
CGAACTAACTCCTCCAGAACTAGTTGATCAACCTAAAATATGAAGGTACATGTTGTCATGATGC
TATCACCAGTCAGCCCAAAATTTTTGCAAATGTATAGAAAGGCAACTAATATTATCACCTGAGA
CTCTATCATTTCTTCTGAATAATAACCATTGAAGTAGTCATCAATGAGTCCTATCAGTGCCCTA
AAAATCACAAGTATTTAATTAGAAGGGGCATCAGTTTAGAAAGAAAAAAGGAGAAGATATAAGG
ATGCTTAATAACAGTTTGATCAACCATGAGAATATGAAAGTGATAGATATTAAAACTAAACACA
GAGCAAGGAGTTCATGTTTAGACAGAAAAATAAGATTAGGAATGAAAAAAGTAGATTAATCAAA
CAACATTGGTTAAATTAGAAATAAGGATACAGAGAATGACCCAAGAACAGTTAATGTTTGGAAG
AAGGAAGGCGATATAACACAAACTAAACAGTAAACACAGATCAAAAGAGTTCGATTTTCACAGG
AAATAATATTAGGACTTGGAGATGATAAATTCATCAAATTTGTGAACATACCAAAAGGCATTTT
CTTCTGGCATCAAAAGCAATAAAAGCGCAGCAAAGAAATTCATAGCCTGCAGAAAGTATATTGA
CAAAAGATATTAACTTGATATTAATGTTAATTTACTATGTCTCGGTACTAAAATAGAGGTACTA
CAATAAAGATCATGATATTGGTTAAGAACAAATACCTGACAGTATCCTACAGAAGGATTATGCC
TAGCATAAGCAGTAAGCAAACGCCGTAGAGCATTTCTACCATCATCATCTAGAGCAGGATGACC
AGGAAATGTCCGAGGTAAGTC
						
					

			
		

Sequences
Splice junction sequence	CAGAAGGATTATGCCTAGCATAAGCAGTAAGCAAACGCCGTAGAGCATTTCTACCATCATCATC TAGAGCAGGATGACCAGGAAATGTCCGAGGTAAGTCctgcgcttgaagatcttgaacagaatct acctccccatccccagttaggctaaccaacacttcatctgcattacttgatcctgactcagatc gagacaaa
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	CTGCGCTTGAAGATCTTGAACAGAATCTACCTCCCCATCCCCAGTTAGGCTAACCAACACTTCA TCTGCATTACTTGATCCTGACTCAGATCGAGACAAACTCCCATTTGACAATGAGGCTTTGCTAT CCACCAAAACAGATTTTGGGTCTTGCTTAAAATTATATAATTTGGAGGCAAGTCCCTTAGAATC TCTCCACGCTTGAAGCCCCTTTGACCTTTCCTCAAGTGCAGCGATCACAGCTGGCCTATGCTTG CTTCGCAATTCTTGCAATCTAATTTCATGTACATTTTGGTAACCCATGCAAGCAGTTAAAACTA GCTGGCTGCTATCAAATGTTGATCCAGTCAGTGATTGTAGCAAAGTAACAGCGTCTCCAGCATC CTTCGTAGTAACTAATGCAGGACCTGAAGTGAATTAAACCATAAGTTAGAGCAGTCTCGATGAT GACGCCACTGCGTTCAGAAGGTCCACAAACCATCTCACTTAAATTGAAAGACCAGCAGTTTCAA TCAAGTACCATATAGTTCCATCAATGCGAGTGCTGTTCTGAAAAGCATAACACGAGTTCCTTCA AAGAGAAGCACATCCCAGACTCTAAGAACTGTGATCAAGAAGACGAACATTTAGAAAGAAAATG GGTTCTCAGTCCCAAATCTCAAAGAGAAAGATGATCAAATTTTAACAGATTGCCAGCATAATTT ACTAGTTACTCAATTCTATTTCAAACAAGACAGCTTTAATTCCAATGTTTAAAACCTGACCACT TTCCCATGGAAGCATATTCATGAAGATGGAAAGAAACCATGGCCCTGTAACCCAAGCCACTTGC ACTCCAAGATAATCCAGATGATGAACTGTAGACATAGAAAAGTTGCAGAGCTTAGTACTAACTG TGAACATTCTACAAGATGAAACAAAAAACTTTGAGGGAACTCACCCAATTTAGGAAATCTTTCT CGAACTAACTCCTCCAGAACTAGTTGATCAACCTAAAATATGAAGGTACATGTTGTCATGATGC TATCACCAGTCAGCCCAAAATTTTTGCAAATGTATAGAAAGGCAACTAATATTATCACCTGAGA CTCTATCATTTCTTCTGAATAATAACCATTGAAGTAGTCATCAATGAGTCCTATCAGTGCCCTA AAAATCACAAGTATTTAATTAGAAGGGGCATCAGTTTAGAAAGAAAAAAGGAGAAGATATAAGG ATGCTTAATAACAGTTTGATCAACCATGAGAATATGAAAGTGATAGATATTAAAACTAAACACA GAGCAAGGAGTTCATGTTTAGACAGAAAAATAAGATTAGGAATGAAAAAAGTAGATTAATCAAA CAACATTGGTTAAATTAGAAATAAGGATACAGAGAATGACCCAAGAACAGTTAATGTTTGGAAG AAGGAAGGCGATATAACACAAACTAAACAGTAAACACAGATCAAAAGAGTTCGATTTTCACAGG AAATAATATTAGGACTTGGAGATGATAAATTCATCAAATTTGTGAACATACCAAAAGGCATTTT CTTCTGGCATCAAAAGCAATAAAAGCGCAGCAAAGAAATTCATAGCCTGCAGAAAGTATATTGA CAAAAGATATTAACTTGATATTAATGTTAATTTACTATGTCTCGGTACTAAAATAGAGGTACTA CAATAAAGATCATGATATTGGTTAAGAACAAATACCTGACAGTATCCTACAGAAGGATTATGCC TAGCATAAGCAGTAAGCAAACGCCGTAGAGCATTTCTACCATCATCATCTAGAGCAGGATGACC AGGAAATGTCCGAGGTAAGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.238925759

Conservation Information
Conserved circRNAs	NA
PMCS	0.238925759

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20392562-20390985(-)
						
						Potential amino acid sequence
						
							MNFFAALLLLLMPEENAFWALIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDY
LGVQVAWVTGPWFLSIFMNMLPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAG
DAVTLLQSLTGSTFDSSQLVLTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSK
GLASKLYNFKQDPKSVLVDSKASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQDLP
RTFPGHPALDDDGRNALRRLLTAYARHNPSVGYCQAMNFFAALLLLLMPEENAFWALIGLIDDY
FNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLR
VWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAGDAVTLLQSLTGSTFDSSQLVLTACMGYQ
NVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSKGLASKLYNFKQDPKSVLVDSKASLSNGS
LSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQDLPRTFPGHPALDDDGRNALRRLLTAYARHN
PSVGYCQAMNFFAALLLLLMPEENAFWALIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFP
KLVHHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPA
LVTTKDAGDAVTLLQSLTGSTFDSSQLVLTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKG
LQAWRDSKGLASKLYNFKQDPKSVLVDSKASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQ
DLQAQDLPRTFPGHPALDDDGRNALRRLLTAYARHNPSVGYCQAMNFFAALLLLLMPEENAFWA
LIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDYLGVQVAWVTGPWFLSIFMNM
LPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAGDAVTLLQSLTGSTFDSSQLV
LTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSKGLASKLYNFKQDPKSVLVDS
KASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20392562-20390985(-)
Potential amino acid sequence	MNFFAALLLLLMPEENAFWALIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDY LGVQVAWVTGPWFLSIFMNMLPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAG DAVTLLQSLTGSTFDSSQLVLTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSK GLASKLYNFKQDPKSVLVDSKASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQDLP RTFPGHPALDDDGRNALRRLLTAYARHNPSVGYCQAMNFFAALLLLLMPEENAFWALIGLIDDY FNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLR VWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAGDAVTLLQSLTGSTFDSSQLVLTACMGYQ NVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSKGLASKLYNFKQDPKSVLVDSKASLSNGS LSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQDLPRTFPGHPALDDDGRNALRRLLTAYARHN PSVGYCQAMNFFAALLLLLMPEENAFWALIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFP KLVHHLDYLGVQVAWVTGPWFLSIFMNMLPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPA LVTTKDAGDAVTLLQSLTGSTFDSSQLVLTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKG LQAWRDSKGLASKLYNFKQDPKSVLVDSKASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQ DLQAQDLPRTFPGHPALDDDGRNALRRLLTAYARHNPSVGYCQAMNFFAALLLLLMPEENAFWA LIGLIDDYFNGYYSEEMIESQVDQLVLEELVRERFPKLVHHLDYLGVQVAWVTGPWFLSIFMNM LPWESVLRVWDVLLFEGTRVMLFRTALALMELYGPALVTTKDAGDAVTLLQSLTGSTFDSSQLV LTACMGYQNVHEIRLQELRSKHRPAVIAALEERSKGLQAWRDSKGLASKLYNFKQDPKSVLVDS KASLSNGSLSRSESGSSNADEVLVSLTGDGEVDSVQDLQAQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT3G55020_circ_g.8

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