Plant Circular RNA Database

Detail information of AT2G35110_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G35110_circ_g.1
					
						ID in PlantcircBase
						ath_circ_016540
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 14798013-14799462  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI
					
						Parent gene
						
							AT2G35110						
					
						Parent gene annotation
						
							Protein NAP1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G35110_circ_g.2 AT2G35110_circ_g.3 AT2G35110_circ_g.4 AT2G35110_circ_g.5 						
					
						Support reads
						3
					
						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
						AT2G35110.2:6
AT2G35110.1:6

General Information
CircRNA Name	AT2G35110_circ_g.1
ID in PlantcircBase	ath_circ_016540
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 14798013-14799462 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI
Parent gene	AT2G35110
Parent gene annotation	Protein NAP1
Parent gene strand	-
Alternative splicing	AT2G35110_circ_g.2 AT2G35110_circ_g.3 AT2G35110_circ_g.4 AT2G35110_circ_g.5
Support reads	3
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	AT2G35110.2:6 AT2G35110.1:6

			
						 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  
						
							TCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATGTTTATCGATGATCGAGAAGAAGTGAC
AATCATCAAAATGGACAACCAATCTTTCCGGAAATCctctcttagaacaaatacgtggtttata
acacaaataggctccatgtcgttcagaattgaacacaaattagtcaacctttgaattgcagctt
ccaacctg

									
								

					

						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: 702
Transcript exons: 14798013-14798109,14798207-14798346,14798436-14798561,14
798952-14799062,14799144-14799225,14799317-14799462
CTCTCTTAGAACAAATACGTGGTTTATAACACAAATAGGCTCCATGTCGTTCAGAATTGAACAC
AAATTAGTCAACCTTTGAATTGCAGCTTCCAACATCTTTATAGACTTATTATTCTCAGGATAGC
TCTCATGGCCAGGCAAAGTAAACCCGCCTACAACCCTGGGGGATTTCACTGAAGGAGCAGAAAT
TCTTGATGCATTATTCAGATACGCTGCAGCTTGTTCTGGAAGAAGCTGAGATTCTAGAGCGCCA
AACCCGCCTTCTGAATCAAGAATATTAATTAGGCCCTCCAGTCCCCCCATTATTGATTCAATAA
GAGACTCGACGTAAAGCACAGCATCTCGCCCAAATTTGGTAACCTCCTCAGGAATTATTAGTGA
AGCACATTCCGGGAAACTACTAGCCACACTGAGCCATGCACAACAATGCTGAGGACGTCCTTCT
GGTCCAAACATTGTATTTCTGAAAACAGTTGTGAGGTGTTGATGGTAGAAATATAATTTCTTCA
GACTTCCATGCTTTGACAATTGAGACTCTAACTCATCAACACATCTGGACCAGTTATATGCAGC
ATTTCCTTCCGATAGCAAGCCCTCCTTCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATG
TTTATCGATGATCGAGAAGAAGTGACAATCATCAAAATGGACAACCAATCTTTCCGGAAATC
						
					

						Genomic sequence
						
							CTCTCTTAGAACAAATACGTGGTTTATAACACAAATAGGCTCCATGTCGTTCAGAATTGAACAC
AAATTAGTCAACCTTTGAATTGCAGCTTCCAACCTGCCATCACGAGGAGATATTTTAGATAAAC
AGTATCTAAGGAGCACTGATTACATGAATACAAGAACAAAACTTAAAGCCAGACTTGGGCGCTC
ACATCTTTATAGACTTATTATTCTCAGGATAGCTCTCATGGCCAGGCAAAGTAAACCCGCCTAC
AACCCTGGGGGATTTCACTGAAGGAGCAGAAATTCTTGATGCATTATTCAGATACGCTGCAGCT
TGTTCTGGAAGAAGCTGAGAAAGGTCAACACATCAGTTTGAGGACAGTCTCAAGTAGAAGATTG
CTTTTGTTATAATATTGATTTTGGGTAAAGATATCCGACCTGAGATTCTAGAGCGCCAAACCCG
CCTTCTGAATCAAGAATATTAATTAGGCCCTCCAGTCCCCCCATTATTGATTCAATAAGAGACT
CGACGTAAAGCACAGCATCTCGCCCAAATTTGGTAACCTGTGGAGGAAGACAAGAACATGACAT
TTCCGTTTAATAGAAGGTGTCACTGATATAGAGAGGTGAGACATGACGGGATAGACAATGAGAA
TTCGTGGTTCACCAAAAAAAAAAACATTATGTTGCTTTGTTTAAATAAAAAAGATGCATACTAA
AGATTTGTAATCCAAAAGTAGCTTATGGAATCAATAACTTTGTCTGCTATAGCACATATGCAAA
ACTGATAAAAAGGAGTCAGATTCAATTTTACAACCACTTTTATTGTTTATTGTCATATTGAGAG
TACTATGGTGCTCGTTGGGTGGTCTTAACACTACAAGAATCTCATGATCCACAGATGTTAATAC
AGAAAGAGTGCAAAAAGCACTGAGATTTGGATTATAGATTTACCTCCTCAGGAATTATTAGTGA
AGCACATTCCGGGAAACTACTAGCCACACTGAGCCATGCACAACAATGCTGAGGACGTCCTTCT
GGTCCAAACATTGTATTTCTGAAAACCTTTTACAAAACTCAAATGTTAGATTATGCATAAGATG
ACATGGGAAAATAGTAGACAGTGAACAACAACAGGAAGTATACAGTTGTGAGGTGTTGATGGTA
GAAATATAATTTCTTCAGACTTCCATGCTTTGACAATTGAGACTCTAACTCATCAACACATCTG
CATTAATGAAATTCTGCAGGATATTAGTTTCGTTGTTTCTCTAGCTAGAAGTTAACCAAGTAAT
GGTATATAAGGCCGGGAACAGTACCTGGACCAGTTATATGCAGCATTTCCTTCCGATAGCAAGC
CCTCCTTCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATGTTTATCGATGATCGAGAAGA
AGTGACAATCATCAAAATGGACAACCAATCTTTCCGGAAATC
						
					

			
		

Sequences
Splice junction sequence	TCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATGTTTATCGATGATCGAGAAGAAGTGAC AATCATCAAAATGGACAACCAATCTTTCCGGAAATCctctcttagaacaaatacgtggtttata acacaaataggctccatgtcgttcagaattgaacacaaattagtcaacctttgaattgcagctt ccaacctg
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: 702 Transcript exons: 14798013-14798109,14798207-14798346,14798436-14798561,14 798952-14799062,14799144-14799225,14799317-14799462 CTCTCTTAGAACAAATACGTGGTTTATAACACAAATAGGCTCCATGTCGTTCAGAATTGAACAC AAATTAGTCAACCTTTGAATTGCAGCTTCCAACATCTTTATAGACTTATTATTCTCAGGATAGC TCTCATGGCCAGGCAAAGTAAACCCGCCTACAACCCTGGGGGATTTCACTGAAGGAGCAGAAAT TCTTGATGCATTATTCAGATACGCTGCAGCTTGTTCTGGAAGAAGCTGAGATTCTAGAGCGCCA AACCCGCCTTCTGAATCAAGAATATTAATTAGGCCCTCCAGTCCCCCCATTATTGATTCAATAA GAGACTCGACGTAAAGCACAGCATCTCGCCCAAATTTGGTAACCTCCTCAGGAATTATTAGTGA AGCACATTCCGGGAAACTACTAGCCACACTGAGCCATGCACAACAATGCTGAGGACGTCCTTCT GGTCCAAACATTGTATTTCTGAAAACAGTTGTGAGGTGTTGATGGTAGAAATATAATTTCTTCA GACTTCCATGCTTTGACAATTGAGACTCTAACTCATCAACACATCTGGACCAGTTATATGCAGC ATTTCCTTCCGATAGCAAGCCCTCCTTCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATG TTTATCGATGATCGAGAAGAAGTGACAATCATCAAAATGGACAACCAATCTTTCCGGAAATC
Genomic sequence	CTCTCTTAGAACAAATACGTGGTTTATAACACAAATAGGCTCCATGTCGTTCAGAATTGAACAC AAATTAGTCAACCTTTGAATTGCAGCTTCCAACCTGCCATCACGAGGAGATATTTTAGATAAAC AGTATCTAAGGAGCACTGATTACATGAATACAAGAACAAAACTTAAAGCCAGACTTGGGCGCTC ACATCTTTATAGACTTATTATTCTCAGGATAGCTCTCATGGCCAGGCAAAGTAAACCCGCCTAC AACCCTGGGGGATTTCACTGAAGGAGCAGAAATTCTTGATGCATTATTCAGATACGCTGCAGCT TGTTCTGGAAGAAGCTGAGAAAGGTCAACACATCAGTTTGAGGACAGTCTCAAGTAGAAGATTG CTTTTGTTATAATATTGATTTTGGGTAAAGATATCCGACCTGAGATTCTAGAGCGCCAAACCCG CCTTCTGAATCAAGAATATTAATTAGGCCCTCCAGTCCCCCCATTATTGATTCAATAAGAGACT CGACGTAAAGCACAGCATCTCGCCCAAATTTGGTAACCTGTGGAGGAAGACAAGAACATGACAT TTCCGTTTAATAGAAGGTGTCACTGATATAGAGAGGTGAGACATGACGGGATAGACAATGAGAA TTCGTGGTTCACCAAAAAAAAAAACATTATGTTGCTTTGTTTAAATAAAAAAGATGCATACTAA AGATTTGTAATCCAAAAGTAGCTTATGGAATCAATAACTTTGTCTGCTATAGCACATATGCAAA ACTGATAAAAAGGAGTCAGATTCAATTTTACAACCACTTTTATTGTTTATTGTCATATTGAGAG TACTATGGTGCTCGTTGGGTGGTCTTAACACTACAAGAATCTCATGATCCACAGATGTTAATAC AGAAAGAGTGCAAAAAGCACTGAGATTTGGATTATAGATTTACCTCCTCAGGAATTATTAGTGA AGCACATTCCGGGAAACTACTAGCCACACTGAGCCATGCACAACAATGCTGAGGACGTCCTTCT GGTCCAAACATTGTATTTCTGAAAACCTTTTACAAAACTCAAATGTTAGATTATGCATAAGATG ACATGGGAAAATAGTAGACAGTGAACAACAACAGGAAGTATACAGTTGTGAGGTGTTGATGGTA GAAATATAATTTCTTCAGACTTCCATGCTTTGACAATTGAGACTCTAACTCATCAACACATCTG CATTAATGAAATTCTGCAGGATATTAGTTTCGTTGTTTCTCTAGCTAGAAGTTAACCAAGTAAT GGTATATAAGGCCGGGAACAGTACCTGGACCAGTTATATGCAGCATTTCCTTCCGATAGCAAGC CCTCCTTCCCAGTAGAGACAGTGGCTTTTTCCAAATGCCTGATGTTTATCGATGATCGAGAAGA AGTGACAATCATCAAAATGGACAACCAATCTTTCCGGAAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217537961

Conservation Information
Conserved circRNAs	NA
PMCS	0.217537961

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14799433-14798015(-)
						
						Potential amino acid sequence
						
							MIVTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHL
TTVFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEG
LINILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKM
LEAAIQRLTNLCSILNDMEPICVINHVFVLREDFRKDWLSILMIVTSSRSSINIRHLEKATVST
GKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHLTTVFRNTMFGPEGRPQHCCAWL
SVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEGLINILDSEGGFGALESQLLPEQ
AAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKMLEAAIQRLTNLCSILNDMEPIC
VINHVFVLREDFRKDWLSILMIVTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDEL
ESQLSKHGSLKKLYFYHQHLTTVFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFG
RDAVLYVESLIESIMGGLEGLINILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVV
GGFTLPGHESYPENNKSIKMLEAAIQRLTNLCSILNDMEPICVINHVFVLREDFRKDWLSILMI
VTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHLTT
VFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEGLI
NILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKMLE
AAIQRLTNLCSILNDMEPICVINHVFVLRE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14799433-14798015(-)
Potential amino acid sequence	MIVTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHL TTVFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEG LINILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKM LEAAIQRLTNLCSILNDMEPICVINHVFVLREDFRKDWLSILMIVTSSRSSINIRHLEKATVST GKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHLTTVFRNTMFGPEGRPQHCCAWL SVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEGLINILDSEGGFGALESQLLPEQ AAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKMLEAAIQRLTNLCSILNDMEPIC VINHVFVLREDFRKDWLSILMIVTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDEL ESQLSKHGSLKKLYFYHQHLTTVFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFG RDAVLYVESLIESIMGGLEGLINILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVV GGFTLPGHESYPENNKSIKMLEAAIQRLTNLCSILNDMEPICVINHVFVLREDFRKDWLSILMI VTSSRSSINIRHLEKATVSTGKEGLLSEGNAAYNWSRCVDELESQLSKHGSLKKLYFYHQHLTT VFRNTMFGPEGRPQHCCAWLSVASSFPECASLIIPEEVTKFGRDAVLYVESLIESIMGGLEGLI NILDSEGGFGALESQLLPEQAAAYLNNASRISAPSVKSPRVVGGFTLPGHESYPENNKSIKMLE AAIQRLTNLCSILNDMEPICVINHVFVLRE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT2G35110_circ_g.1

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