Plant Circular RNA Database

Detail information of Os10g0405100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0405100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_006760
					
						Alias
						Os_ciR3286
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 13825451-13826469  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0405100						
					
						Parent gene annotation
						
							Similar to serine/threonine-protein kinase NAK. (Os10t0405100-01
);Similar to Protein kinase APK1B, chloroplast precursor (EC 2.7
.1.-). (Os10t0405100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/2
					
						Tissues
						root/shoot, 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
						Os10t0405100-01:3
Os10t0405100-02:4

General Information
CircRNA Name	Os10g0405100_circ_g.1
ID in PlantcircBase	osa_circ_006760
Alias	Os_ciR3286
Organism	Oryza sativa
Position	chr10: 13825451-13826469 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0405100
Parent gene annotation	Similar to serine/threonine-protein kinase NAK. (Os10t0405100-01 );Similar to Protein kinase APK1B, chloroplast precursor (EC 2.7 .1.-). (Os10t0405100-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	3/2
Tissues	root/shoot, 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	Os10t0405100-01:3 Os10t0405100-02:4

			
						 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  
						
							TTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCATGTTTCCACACAAGTCATGGGTA
CCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAGatccatcaaaagctgctagcaagacaac
ctattcatcttacccttcaactacaaaaagcggttcatcttggactgtaccttcctataaggat
cgtagcga

									
								

					

						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: 747
Transcript exons: 13825451-13825800,13825879-13826014,13826111-13826247,13
826346-13826469
ATCCATCAAAAGCTGCTAGCAAGACAACCTATTCATCTTACCCTTCAACTACAAAAAGCGGTTC
ATCTTGGACTGTACCTTCCTATAAGGATCGTAGCGACCTTCCTACTCCTAGGACAGAAGGAGAA
ATTTTATCATCGTCAAATTTAAAGGCATTCACACTGAGTGAACTCAAAAATGCAACAAAGAACT
TTAAGCCCGACAGTCTCCTTGGGGAAGGAGGATTTGGCTATGTCTATAAAGGTTGGATCGATGA
GCAAACTCTTGCTCCTGCAAGGCCAGGGAGTGGTATGGTTGTGGCCGTCAAAAAGTTAAAACCA
GAAGGTTTTCAGGGTCACAAGGAGTGGCTGACAGAGGTTGACTACCTTGGCCAACTTCACCATG
AGAATCTTGTTAAACTCATTGGTTATTGTTCAGATGGTGATAACCGACTTCTGGTGTATGAGTA
CATGCCTAAAGGAAGCTTGGAGAATCATCTATTTAGGCGTGGTGCAGATCCTTTATCCTGGGGA
ATAAGGCTCAAAGTTGCTATTGGGGCTGCTAGGGGTTTATCATTTTTGCACGATGCTGAAAATC
AAGTTATATATCGTGATTTCAAGGCATCAAACATTCTCCTTGACTCGGAGTTCAACGCAAAGCT
TTCAGACTTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCATGTTTCCACACAAGTC
ATGGGTACCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAG
						
					

						Genomic sequence
						
							ATCCATCAAAAGCTGCTAGCAAGACAACCTATTCATCTTACCCTTCAACTACAAAAAGCGGTTC
ATCTTGGACTGTACCTTCCTATAAGGATCGTAGCGACCTTCCTACTCCTAGGACAGAAGGAGAA
ATTTTATCATCGTCAAATTTAAAGGCATTCACACTGAGTGAACTCAAAAATGCAACAAAGAACT
TTAAGCCCGACAGTCTCCTTGGGGAAGGAGGATTTGGCTATGTCTATAAAGGTTGGATCGATGA
GCAAACTCTTGCTCCTGCAAGGCCAGGGAGTGGTATGGTTGTGGCCGTCAAAAAGTTAAAACCA
GAAGGTTTTCAGGGTCACAAGGAGTGGCTGGTACGTCTGCTATAAACCAACTTTCTAGGTTTCT
CTGAGGTGCTACAATGTTTCTTAATTGTGATTGATGTGCTGCAGACAGAGGTTGACTACCTTGG
CCAACTTCACCATGAGAATCTTGTTAAACTCATTGGTTATTGTTCAGATGGTGATAACCGACTT
CTGGTGTATGAGTACATGCCTAAAGGAAGCTTGGAGAATCATCTATTTAGGCGTATGCATTTAA
CTCTACCACACTATTTTCTAAATATATACGGGTTCAATATCTTAAATTTGGCAGCACATTAAAT
GGAATTTTCTGTTATTTTAGGTGGTGCAGATCCTTTATCCTGGGGAATAAGGCTCAAAGTTGCT
ATTGGGGCTGCTAGGGGTTTATCATTTTTGCACGATGCTGAAAATCAAGTTATATATCGTGATT
TCAAGGCATCAAACATTCTCCTTGACTCGGTATACATGAAAATAGCTACTCATTCTTGTCCTTC
GAAAGTTTGACCTTTTGCAAATGTTTTTACTTTAACTTTTGTTTCCTTTTTTCACCATTATAGG
AGTTCAACGCAAAGCTTTCAGACTTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCA
TGTTTCCACACAAGTCATGGGTACCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAG
						
					

			
		

Sequences
Splice junction sequence	TTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCATGTTTCCACACAAGTCATGGGTA CCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAGatccatcaaaagctgctagcaagacaac ctattcatcttacccttcaactacaaaaagcggttcatcttggactgtaccttcctataaggat cgtagcga
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: 747 Transcript exons: 13825451-13825800,13825879-13826014,13826111-13826247,13 826346-13826469 ATCCATCAAAAGCTGCTAGCAAGACAACCTATTCATCTTACCCTTCAACTACAAAAAGCGGTTC ATCTTGGACTGTACCTTCCTATAAGGATCGTAGCGACCTTCCTACTCCTAGGACAGAAGGAGAA ATTTTATCATCGTCAAATTTAAAGGCATTCACACTGAGTGAACTCAAAAATGCAACAAAGAACT TTAAGCCCGACAGTCTCCTTGGGGAAGGAGGATTTGGCTATGTCTATAAAGGTTGGATCGATGA GCAAACTCTTGCTCCTGCAAGGCCAGGGAGTGGTATGGTTGTGGCCGTCAAAAAGTTAAAACCA GAAGGTTTTCAGGGTCACAAGGAGTGGCTGACAGAGGTTGACTACCTTGGCCAACTTCACCATG AGAATCTTGTTAAACTCATTGGTTATTGTTCAGATGGTGATAACCGACTTCTGGTGTATGAGTA CATGCCTAAAGGAAGCTTGGAGAATCATCTATTTAGGCGTGGTGCAGATCCTTTATCCTGGGGA ATAAGGCTCAAAGTTGCTATTGGGGCTGCTAGGGGTTTATCATTTTTGCACGATGCTGAAAATC AAGTTATATATCGTGATTTCAAGGCATCAAACATTCTCCTTGACTCGGAGTTCAACGCAAAGCT TTCAGACTTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCATGTTTCCACACAAGTC ATGGGTACCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAG
Genomic sequence	ATCCATCAAAAGCTGCTAGCAAGACAACCTATTCATCTTACCCTTCAACTACAAAAAGCGGTTC ATCTTGGACTGTACCTTCCTATAAGGATCGTAGCGACCTTCCTACTCCTAGGACAGAAGGAGAA ATTTTATCATCGTCAAATTTAAAGGCATTCACACTGAGTGAACTCAAAAATGCAACAAAGAACT TTAAGCCCGACAGTCTCCTTGGGGAAGGAGGATTTGGCTATGTCTATAAAGGTTGGATCGATGA GCAAACTCTTGCTCCTGCAAGGCCAGGGAGTGGTATGGTTGTGGCCGTCAAAAAGTTAAAACCA GAAGGTTTTCAGGGTCACAAGGAGTGGCTGGTACGTCTGCTATAAACCAACTTTCTAGGTTTCT CTGAGGTGCTACAATGTTTCTTAATTGTGATTGATGTGCTGCAGACAGAGGTTGACTACCTTGG CCAACTTCACCATGAGAATCTTGTTAAACTCATTGGTTATTGTTCAGATGGTGATAACCGACTT CTGGTGTATGAGTACATGCCTAAAGGAAGCTTGGAGAATCATCTATTTAGGCGTATGCATTTAA CTCTACCACACTATTTTCTAAATATATACGGGTTCAATATCTTAAATTTGGCAGCACATTAAAT GGAATTTTCTGTTATTTTAGGTGGTGCAGATCCTTTATCCTGGGGAATAAGGCTCAAAGTTGCT ATTGGGGCTGCTAGGGGTTTATCATTTTTGCACGATGCTGAAAATCAAGTTATATATCGTGATT TCAAGGCATCAAACATTCTCCTTGACTCGGTATACATGAAAATAGCTACTCATTCTTGTCCTTC GAAAGTTTGACCTTTTGCAAATGTTTTTACTTTAACTTTTGTTTCCTTTTTTCACCATTATAGG AGTTCAACGCAAAGCTTTCAGACTTTGGTCTGGCAAAAGCAGGCCCAACTGGGGATAGAACCCA TGTTTCCACACAAGTCATGGGTACCCGAGGTTATGCAGCTCCAGAATATGTTGCAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002805* osi_circ_008395 						
					
						PMCS
						0.532057188

Conservation Information
Conserved circRNAs	osi_circ_002805* osi_circ_008395
PMCS	0.532057188

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13826190-13825597(+)
13825742-13826466(+)
						
						Potential amino acid sequence
						
							MLKIKLYIVISRHQTFSLTRSSTQSFQTLVWQKQAQLGIEPMFPHKSWVPEVMQLQNMLQQIHQ
KLLARQPIHLTLQLQKAVHLGLYLPIRIVATFLLLGQKEKFYHRQI*(+)
MVVAVKKLKPEGFQGHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLF
RRGADPLSWGIRLKVAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPT
GDRTHVSTQVMGTRGYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRT
EGEILSSSNLKAFTLSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKK
LKPEGFQGHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPL
SWGIRLKVAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVS
TQVMGTRGYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRTEGEILSS
SNLKAFTLSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKKLKPEGFQ
GHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPLSWGIRLK
VAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVSTQVMGTR
GYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRTEGEILSSSNLKAFT
LSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKKLKPEGFQGHKEWLT
EVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPLSWGIRLKVAIGAAR
GLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVSTQVMGTRGYAAPEY
VAT(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13826190-13825597(+) 13825742-13826466(+)
Potential amino acid sequence	MLKIKLYIVISRHQTFSLTRSSTQSFQTLVWQKQAQLGIEPMFPHKSWVPEVMQLQNMLQQIHQ KLLARQPIHLTLQLQKAVHLGLYLPIRIVATFLLLGQKEKFYHRQI*(+) MVVAVKKLKPEGFQGHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLF RRGADPLSWGIRLKVAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPT GDRTHVSTQVMGTRGYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRT EGEILSSSNLKAFTLSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKK LKPEGFQGHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPL SWGIRLKVAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVS TQVMGTRGYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRTEGEILSS SNLKAFTLSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKKLKPEGFQ GHKEWLTEVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPLSWGIRLK VAIGAARGLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVSTQVMGTR GYAAPEYVATDPSKAASKTTYSSYPSTTKSGSSWTVPSYKDRSDLPTPRTEGEILSSSNLKAFT LSELKNATKNFKPDSLLGEGGFGYVYKGWIDEQTLAPARPGSGMVVAVKKLKPEGFQGHKEWLT EVDYLGQLHHENLVKLIGYCSDGDNRLLVYEYMPKGSLENHLFRRGADPLSWGIRLKVAIGAAR GLSFLHDAENQVIYRDFKASNILLDSEFNAKLSDFGLAKAGPTGDRTHVSTQVMGTRGYAAPEY VAT(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os10g0405100_circ_g.1

Address

Any questions?

Supported by