Plant Circular RNA Database

Detail information of AT1G47550_circ_g.11

			
						 General Information
					
						CircRNA Name
						AT1G47550_circ_g.11
					
						ID in PlantcircBase
						ath_circ_006169
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 17459871-17461543  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT1G47550						
					
						Parent gene annotation
						
							Exocyst complex component sec3A
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G47550_circ_g.1 AT1G47550_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G47550_circ_g.9 1_circ_ag.10 1_circ_ag.12 AT1G47550_circ_g.13 1_circ_ag.14 1_circ_ag.15 1_circ_ag.16 1_circ_ag.17 1_circ_ag.18 1_circ_ag.19 1_circ_ag.20 1_circ_ag.21 1_circ_ag.22 AT1G47550_circ_g.23 1_circ_ag.24 1_circ_ag.25 1_circ_ag.26 AT1G47550_circ_g.27 1_circ_ag.28 1_circ_ag.29 1_circ_ag.30 1_circ_ag.31 1_circ_ag.32 AT1G47560_circ_g.1 						
					
						Support reads
						3
					
						Tissues
						seed
					
						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
						AT1G47550.1:7
AT1G47550.2:7

General Information
CircRNA Name	AT1G47550_circ_g.11
ID in PlantcircBase	ath_circ_006169
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 17459871-17461543 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT1G47550
Parent gene annotation	Exocyst complex component sec3A
Parent gene strand	+
Alternative splicing	AT1G47550_circ_g.1 AT1G47550_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G47550_circ_g.9 1_circ_ag.10 1_circ_ag.12 AT1G47550_circ_g.13 1_circ_ag.14 1_circ_ag.15 1_circ_ag.16 1_circ_ag.17 1_circ_ag.18 1_circ_ag.19 1_circ_ag.20 1_circ_ag.21 1_circ_ag.22 AT1G47550_circ_g.23 1_circ_ag.24 1_circ_ag.25 1_circ_ag.26 AT1G47550_circ_g.27 1_circ_ag.28 1_circ_ag.29 1_circ_ag.30 1_circ_ag.31 1_circ_ag.32 AT1G47560_circ_g.1
Support reads	3
Tissues	seed
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	AT1G47550.1:7 AT1G47550.2:7

			
						 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  
						
							ATCTACGGGTTCTAGTCAGAATGCAAACACTGACACCTCTGCAGTGTCAGATGCTTATGCCAAG
ATGCTAACAATATTCATCCCGCTTCTTGTAGATGAGgttttgaatggactagaggcagcaacaa
atatcgttgatgacatggatgaatggttaggaatattcaacattaaacttagacacatgaggga
agacattg

									
								

					

						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
						
							GTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATAT
TCAACATTAAACTTAGACACATGAGGGAAGACATTGAATCGGTAGGACTCTTGACCTATAAATG
ATCTTTTTTGCTGTGTTCTATTATGAGGACAATGTCACTGCAGTGAGAAATTAGTTGTTGTATG
TTGTCAATAAACTCTTCTCATGGATATACATTGCTTTACTATTTCTTTTTGGTTCGTAATTTCT
TTCACAGTACTTCTGAAATCTGCAAGAGTAGGAGTGAAAGAGAAATTTATTTCAAGTATATTTG
TTGTTGGACTGATCAAACCATTATATGTCAACACATGTTCTCACTTTTTTTTTTGTGGTTACCA
GATAGAAACTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAA
CTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTGAGGTTTGTTTCACTTTTTTTGTGCTTG
CCTCTCTTCTGTCTAATTGGTTCGCTTATAGAAGTGTTGTTGATTGCAGTATGCAGCATCCCTA
ACAGGAGGCTCATTTGATGAAGCAGACATGCTCCAGAATATTGAGGCTTGCGAGTGGTTAGCCA
AAGCTTTAAGGGGTCTTGAAGTGCCCAACTTAGACCCGATCTATGCTAATATGCGAGCTGTATG
CCTAATCACTTAGATCTTTCTAATTCGCTATCTCTAGTTATTATTCTAGTTTTATAGTACATCG
GCCTGGCTTATTACATTACGTTTTGTGAATAGAAAAAAACATTTATAATTGTCTGATACATTCA
TTTAAAATGTCTTTTTTTGTAATACTCTTGCTGTATTTTCTTCAGGTAAAAGAGAAACGAGCAG
AACTAGAAAAATTAAAAGCTACTTTTGTAAGGAGAGCTTCGGAGTTCTTGAGAAACTACTTTGC
TAGTTTGGTAGATTTCATGGTCAGCGACAAAAGCTACTTTTCTCAGGTACTAATTTTATAAAAT
TCTATTCCAATATGAAGTCTAGTGATTATAATTCTGAATATTTATCACCGCATCTTTTAAACAG
AGAGGGCAGCTGAAGAGGCCTGACCATGCTGATTTGCGGTACAAATGCAGAACATATGCTCGTC
TTTTGCAACATTTAAAGGTAAAACCGAGAAATGACTAGGTGACATGCTAAATGCTCAATGCAGT
ACATTGATTCCTTGTCTTCTTTCTTGTTGCAGGGTCTTGATAAGAATTGTTTGGGACCATTGAG
AAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGGTGAGGAAAGATATATGTTTC
TTTATCAATTTGACCGCTGACTAACTGGGACTCTTAATTGACTAAAAGGCTGCTATAACCTACT
GAATGTTAATGTGTGGATAATCAGCAAACATTTTATTGTCTTCCTTAGCTTTAAATTTTCAGTT
ACCAAAGCTTTGTTTCTTCAAAATATACAGGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCA
CAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAA
CACTGACACCTCTGCAGTGTCAGATGCTTATGCCAAGATGCTAACAATATTCATCCCGCTTCTT
GTAGATGAG
						
					

			
		

Sequences
Splice junction sequence	ATCTACGGGTTCTAGTCAGAATGCAAACACTGACACCTCTGCAGTGTCAGATGCTTATGCCAAG ATGCTAACAATATTCATCCCGCTTCTTGTAGATGAGgttttgaatggactagaggcagcaacaa atatcgttgatgacatggatgaatggttaggaatattcaacattaaacttagacacatgaggga agacattg
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	GTTTTGAATGGACTAGAGGCAGCAACAAATATCGTTGATGACATGGATGAATGGTTAGGAATAT TCAACATTAAACTTAGACACATGAGGGAAGACATTGAATCGGTAGGACTCTTGACCTATAAATG ATCTTTTTTGCTGTGTTCTATTATGAGGACAATGTCACTGCAGTGAGAAATTAGTTGTTGTATG TTGTCAATAAACTCTTCTCATGGATATACATTGCTTTACTATTTCTTTTTGGTTCGTAATTTCT TTCACAGTACTTCTGAAATCTGCAAGAGTAGGAGTGAAAGAGAAATTTATTTCAAGTATATTTG TTGTTGGACTGATCAAACCATTATATGTCAACACATGTTCTCACTTTTTTTTTTGTGGTTACCA GATAGAAACTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAA CTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTGAGGTTTGTTTCACTTTTTTTGTGCTTG CCTCTCTTCTGTCTAATTGGTTCGCTTATAGAAGTGTTGTTGATTGCAGTATGCAGCATCCCTA ACAGGAGGCTCATTTGATGAAGCAGACATGCTCCAGAATATTGAGGCTTGCGAGTGGTTAGCCA AAGCTTTAAGGGGTCTTGAAGTGCCCAACTTAGACCCGATCTATGCTAATATGCGAGCTGTATG CCTAATCACTTAGATCTTTCTAATTCGCTATCTCTAGTTATTATTCTAGTTTTATAGTACATCG GCCTGGCTTATTACATTACGTTTTGTGAATAGAAAAAAACATTTATAATTGTCTGATACATTCA TTTAAAATGTCTTTTTTTGTAATACTCTTGCTGTATTTTCTTCAGGTAAAAGAGAAACGAGCAG AACTAGAAAAATTAAAAGCTACTTTTGTAAGGAGAGCTTCGGAGTTCTTGAGAAACTACTTTGC TAGTTTGGTAGATTTCATGGTCAGCGACAAAAGCTACTTTTCTCAGGTACTAATTTTATAAAAT TCTATTCCAATATGAAGTCTAGTGATTATAATTCTGAATATTTATCACCGCATCTTTTAAACAG AGAGGGCAGCTGAAGAGGCCTGACCATGCTGATTTGCGGTACAAATGCAGAACATATGCTCGTC TTTTGCAACATTTAAAGGTAAAACCGAGAAATGACTAGGTGACATGCTAAATGCTCAATGCAGT ACATTGATTCCTTGTCTTCTTTCTTGTTGCAGGGTCTTGATAAGAATTGTTTGGGACCATTGAG AAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGGTGAGGAAAGATATATGTTTC TTTATCAATTTGACCGCTGACTAACTGGGACTCTTAATTGACTAAAAGGCTGCTATAACCTACT GAATGTTAATGTGTGGATAATCAGCAAACATTTTATTGTCTTCCTTAGCTTTAAATTTTCAGTT ACCAAAGCTTTGTTTCTTCAAAATATACAGGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCA CAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAA CACTGACACCTCTGCAGTGTCAGATGCTTATGCCAAGATGCTAACAATATTCATCCCGCTTCTT GTAGATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.157166906

Conservation Information
Conserved circRNAs	NA
PMCS	0.157166906

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17459913-17461540(+)
						
						Potential amino acid sequence
						
							MDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEELDKVIERLRVPSEYAASLTGGS
FDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKRAELEKLKATFVRRASEFLRNYF
ASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHLKGLDKNCLGPLRKAYCSSLNLL
LRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSAVSDAYAKMLTIFIPLLVDEVLN
GLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEELDKVIERLRVP
SEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKRAELEKLKATFV
RRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHLKGLDKNCLGPL
RKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSAVSDAYAKMLTI
FIPLLVDEVLNGLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEE
LDKVIERLRVPSEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKR
AELEKLKATFVRRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHL
KGLDKNCLGPLRKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSA
VSDAYAKMLTIFIPLLVDEVLNGLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEM
QSVNNKALIEELDKVIERLRVPSEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPI
YANMRAVKEKRAELEKLKATFVRRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYK
CRTYARLLQHLKGLDKNCLGPLRKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTG
SSQNANTDTSAVSDAYAKMLTIFIPLLVDE(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17459913-17461540(+)
Potential amino acid sequence	MDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEELDKVIERLRVPSEYAASLTGGS FDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKRAELEKLKATFVRRASEFLRNYF ASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHLKGLDKNCLGPLRKAYCSSLNLL LRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSAVSDAYAKMLTIFIPLLVDEVLN GLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEELDKVIERLRVP SEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKRAELEKLKATFV RRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHLKGLDKNCLGPL RKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSAVSDAYAKMLTI FIPLLVDEVLNGLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEMQSVNNKALIEE LDKVIERLRVPSEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPIYANMRAVKEKR AELEKLKATFVRRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYKCRTYARLLQHL KGLDKNCLGPLRKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTGSSQNANTDTSA VSDAYAKMLTIFIPLLVDEVLNGLEAATNIVDDMDEWLGIFNIKLRHMREDIESIETRNNKLEM QSVNNKALIEELDKVIERLRVPSEYAASLTGGSFDEADMLQNIEACEWLAKALRGLEVPNLDPI YANMRAVKEKRAELEKLKATFVRRASEFLRNYFASLVDFMVSDKSYFSQRGQLKRPDHADLRYK CRTYARLLQHLKGLDKNCLGPLRKAYCSSLNLLLRREAREFANELRASTKVSRNPTVWLEGSTG SSQNANTDTSAVSDAYAKMLTIFIPLLVDE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G47550_circ_g.11

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