Plant Circular RNA Database

Detail information of Os08g0439100_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os08g0439100_circ_g.4
					
						ID in PlantcircBase
						osa_circ_037183
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 21338926-21347706  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os08g0439100						
					
						Parent gene annotation
						
							Protein of unknown function DUF1336 domain containing protein. (
Os08t0439100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0439100_circ_g.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.5 Os08g0439100_circ_igg.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_g.6 Os08g0439100_circ_g.7 Os08g0439100_circ_g.8 Os08g0439100_circ_g.9 Os08g0439100_circ_g.10 Os08g0439100_circ_g.11 						
					
						Support reads
						2
					
						Tissues
						pistil
					
						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
						Os08t0439100-01:15

General Information
CircRNA Name	Os08g0439100_circ_g.4
ID in PlantcircBase	osa_circ_037183
Alias	NA
Organism	Oryza sativa
Position	chr8: 21338926-21347706 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os08g0439100
Parent gene annotation	Protein of unknown function DUF1336 domain containing protein. ( Os08t0439100-01)
Parent gene strand	+
Alternative splicing	Os08g0439100_circ_g.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.5 Os08g0439100_circ_igg.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_g.6 Os08g0439100_circ_g.7 Os08g0439100_circ_g.8 Os08g0439100_circ_g.9 Os08g0439100_circ_g.10 Os08g0439100_circ_g.11
Support reads	2
Tissues	pistil
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	Os08t0439100-01:15

			
						 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  
						
							TCGACGAGCGAAAAGTGAGAATGACCCAAACTCTTGGAGTGAGCCTGGTGGAGAGAAGTTCATG
ATAAGAGGAAAGACTTACCTGACAGATTACACTAAGcaacctatccgaaagggtgttgtaagtc
acactcttatggtggaggagcttggtcgccggattactagccatggggtaatggtccaattctg
tcctttga

									
								

					

						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: 1440
Transcript exons: 21338926-21339000,21339166-21339219,21339306-21339371,21
340457-21340515,21340625-21340701,21341394-21341519,2134
2132-21342166,21342950-21343050,21343152-21343247,213437
49-21343813,21345012-21345083,21345996-21346163,21346247
-21346449,21346554-21346620,21347531-21347706
CAACCTATCCGAAAGGGTGTTGTAAGTCACACTCTTATGGTGGAGGAGCTTGGTCGCCGGATTA
CTAGCCATGGGGAACTGTATGTCTTGCGGTTTTACAATCGGTTGGATCAAACAAAGAAAGGAGA
GATTGCATGTGGGGACCCCGGTGAAGCTAGGAAATGGGTTGAAGCATTTGAGCAGGCAAAACAG
CAGGCTGATTATGACCTGATGACGAGAGGGGTTAGTTGGAATAGATCCCAGAATGAAAACGAGC
TTAATCTTGATGGGCATCGACCACGTGTAAGGAGATATGCACAAGGCTTGGGGAAACTTGTACG
AATTGGTAAAGGGCCAGAAAAGCTCTTGCGGCAGTCTTCAAATCTTCAAAGCCATGAGATAATT
AATACAAACTTTGGAGGCGATTCTGGAGATGCATTCGAAGCACACGAATGGAGATATGTTCGAA
CATTTAATGGTATAAGAATTTTTGAAGATATTGCAAACACAAAGGGTGGAAAAGGGGTACTTCT
TAAGTCTGTTGGTGTGGTTGGGGCGAATCCTGATACTGTATTTGCAGTGGTTCTCAGCTCTGAT
AAGCATAAGCGATATGAGTGGGATATGCTGACTGCCGATTTGGAATTGGTAGAAACAATTGATG
GATACTATGACGTGGTTTATGGAACCTATGAACCTAGATATTTAAGCTGGTGGAAAACAAAGAA
GGATTTTGTTTTTTCCAGACAATGGTTTCGTGGACAAGATGGGGCATATACCATTTTGCAGATT
CCTGCTTGTCACAAGAACAAACCTCCAAGGCATGGCTACGAGCGTACAAAAATCAATTCCTCAA
CATGGGAACTAAGAAGGTTGAACCCACCAGGATCATCAACTCCGAAATGCCTTGTTACTCATAT
GTTGGAAATGAGCCCAAGTTTTTGGGATAGATGGAAGAGAAGACATAACGAGAATTTTGACAGA
AGTATTGCTTTTGCTTTGCTCAGCCAAGTAGCAGGTCTAAGAGAATACTTTGCAGCAAATCCAG
CTTTGACATCTGATTTGCCTTCAACAGTAGTGAAGCCCAAACAGTCTGATTCTTTGATCATCCA
GAGTGAACTGGAAGATTCTGAACTTAATGATGAATTCTATGATGCACTTGCTAGAGGCGAATCC
TTTGAAGATGAGGATAGTGATGACGATGATGATATGATTCCTAAGGCTGGAAAAGTGAAGTTCA
AGAATATTTCATGGGCTATCGCAGGTCTTGCTATGAAACCGACTAAAGCTTCGGTTGAGAAGAG
TGAATTGGTTACAAATTCAACTCCGGTAACTATTGATTCAAACCATTTCCATGGCACCCTTCGA
CGAGCGAAAAGTGAGAATGACCCAAACTCTTGGAGTGAGCCTGGTGGAGAGAAGTTCATGATAA
GAGGAAAGACTTACCTGACAGATTACACTAAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	TCGACGAGCGAAAAGTGAGAATGACCCAAACTCTTGGAGTGAGCCTGGTGGAGAGAAGTTCATG ATAAGAGGAAAGACTTACCTGACAGATTACACTAAGcaacctatccgaaagggtgttgtaagtc acactcttatggtggaggagcttggtcgccggattactagccatggggtaatggtccaattctg tcctttga
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: 1440 Transcript exons: 21338926-21339000,21339166-21339219,21339306-21339371,21 340457-21340515,21340625-21340701,21341394-21341519,2134 2132-21342166,21342950-21343050,21343152-21343247,213437 49-21343813,21345012-21345083,21345996-21346163,21346247 -21346449,21346554-21346620,21347531-21347706 CAACCTATCCGAAAGGGTGTTGTAAGTCACACTCTTATGGTGGAGGAGCTTGGTCGCCGGATTA CTAGCCATGGGGAACTGTATGTCTTGCGGTTTTACAATCGGTTGGATCAAACAAAGAAAGGAGA GATTGCATGTGGGGACCCCGGTGAAGCTAGGAAATGGGTTGAAGCATTTGAGCAGGCAAAACAG CAGGCTGATTATGACCTGATGACGAGAGGGGTTAGTTGGAATAGATCCCAGAATGAAAACGAGC TTAATCTTGATGGGCATCGACCACGTGTAAGGAGATATGCACAAGGCTTGGGGAAACTTGTACG AATTGGTAAAGGGCCAGAAAAGCTCTTGCGGCAGTCTTCAAATCTTCAAAGCCATGAGATAATT AATACAAACTTTGGAGGCGATTCTGGAGATGCATTCGAAGCACACGAATGGAGATATGTTCGAA CATTTAATGGTATAAGAATTTTTGAAGATATTGCAAACACAAAGGGTGGAAAAGGGGTACTTCT TAAGTCTGTTGGTGTGGTTGGGGCGAATCCTGATACTGTATTTGCAGTGGTTCTCAGCTCTGAT AAGCATAAGCGATATGAGTGGGATATGCTGACTGCCGATTTGGAATTGGTAGAAACAATTGATG GATACTATGACGTGGTTTATGGAACCTATGAACCTAGATATTTAAGCTGGTGGAAAACAAAGAA GGATTTTGTTTTTTCCAGACAATGGTTTCGTGGACAAGATGGGGCATATACCATTTTGCAGATT CCTGCTTGTCACAAGAACAAACCTCCAAGGCATGGCTACGAGCGTACAAAAATCAATTCCTCAA CATGGGAACTAAGAAGGTTGAACCCACCAGGATCATCAACTCCGAAATGCCTTGTTACTCATAT GTTGGAAATGAGCCCAAGTTTTTGGGATAGATGGAAGAGAAGACATAACGAGAATTTTGACAGA AGTATTGCTTTTGCTTTGCTCAGCCAAGTAGCAGGTCTAAGAGAATACTTTGCAGCAAATCCAG CTTTGACATCTGATTTGCCTTCAACAGTAGTGAAGCCCAAACAGTCTGATTCTTTGATCATCCA GAGTGAACTGGAAGATTCTGAACTTAATGATGAATTCTATGATGCACTTGCTAGAGGCGAATCC TTTGAAGATGAGGATAGTGATGACGATGATGATATGATTCCTAAGGCTGGAAAAGTGAAGTTCA AGAATATTTCATGGGCTATCGCAGGTCTTGCTATGAAACCGACTAAAGCTTCGGTTGAGAAGAG TGAATTGGTTACAAATTCAACTCCGGTAACTATTGATTCAAACCATTTCCATGGCACCCTTCGA CGAGCGAAAAGTGAGAATGACCCAAACTCTTGGAGTGAGCCTGGTGGAGAGAAGTTCATGATAA GAGGAAAGACTTACCTGACAGATTACACTAAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.097030782

Conservation Information
Conserved circRNAs	NA
PMCS	0.097030782

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21338963-21347703(+)
21340645-21347586(-)
						
					

						Potential amino acid sequence
						
							MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS
WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF
EAHEWRYVRTFNGIRIFEDIANTKGGKGVLLKSVGVVGANPDTVFAVVLSSDKHKRYEWDMLTA
DLELVETIDGYYDVVYGTYEPRYLSWWKTKKDFVFSRQWFRGQDGAYTILQIPACHKNKPPRHG
YERTKINSSTWELRRLNPPGSSTPKCLVTHMLEMSPSFWDRWKRRHNENFDRSIAFALLSQVAG
LREYFAANPALTSDLPSTVVKPKQSDSLIIQSELEDSELNDEFYDALARGESFEDEDSDDDDDM
IPKAGKVKFKNISWAIAGLAMKPTKASVEKSELVTNSTPVTIDSNHFHGTLRRAKSENDPNSWS
EPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEI
ACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRI
GKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKGGKGVLLK
SVGVVGANPDTVFAVVLSSDKHKRYEWDMLTADLELVETIDGYYDVVYGTYEPRYLSWWKTKKD
FVFSRQWFRGQDGAYTILQIPACHKNKPPRHGYERTKINSSTWELRRLNPPGSSTPKCLVTHML
EMSPSFWDRWKRRHNENFDRSIAFALLSQVAGLREYFAANPALTSDLPSTVVKPKQSDSLIIQS
ELEDSELNDEFYDALARGESFEDEDSDDDDDMIPKAGKVKFKNISWAIAGLAMKPTKASVEKSE
LVTNSTPVTIDSNHFHGTLRRAKSENDPNSWSEPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTL
MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS
WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF
EAHEWRYVRTFNGIRIFEDIANTKGGKGVLLKSVGVVGANPDTVFAVVLSSDKHKRYEWDMLTA
DLELVETIDGYYDVVYGTYEPRYLSWWKTKKDFVFSRQWFRGQDGAYTILQIPACHKNKPPRHG
YERTKINSSTWELRRLNPPGSSTPKCLVTHMLEMSPSFWDRWKRRHNENFDRSIAFALLSQVAG
LREYFAANPALTSDLPSTVVKPKQSDSLIIQSELEDSELNDEFYDALARGESFEDEDSDDDDDM
IPKAGKVKFKNISWAIAGLAMKPTKASVEKSELVTNSTPVTIDSNHFHGTLRRAKSENDPNSWS
EPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEI
ACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRI
GKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKGGKGVLLK
SVGVVGANPDTVFAVVLSSDKHKRYEWDMLTADLELVETIDGYYDVVYGTYEPRYLSWWKTKKD
FVFSRQWFRGQDGAYTILQIPACHKNKPPRHGYERTKINSSTWELRRLNPPGSSTPKCLVTHML
EMSPSFWDRWKRRHNENFDRSIAFALLSQVAGLREYFAANPALTSDLPSTVVKPKQSDSLIIQS
ELEDSELNDEFYDALARGESFEDEDSDDDDDMIPKAGKVKFKNISWAIAGLAMKPTKASVEKSE
LVTNSTPVTIDSNHFHGTLRRAKSENDPNSWSEPGGEKFMIRGKTYLTDYTK(+)
MPIKIKLVFILGSIPTNPSRHQVIISLLFCLLKCFNPFPSFTGVPTCNLSFLCLIQPIVKPQDI
QFPMASNPATKLLHHKSVTYNTLSDRLLSVICQVSLSSYHELLSTRLTPRVWVILTFRSSKGAM
EMV*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21338963-21347703(+) 21340645-21347586(-)
Potential amino acid sequence	MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF EAHEWRYVRTFNGIRIFEDIANTKGGKGVLLKSVGVVGANPDTVFAVVLSSDKHKRYEWDMLTA DLELVETIDGYYDVVYGTYEPRYLSWWKTKKDFVFSRQWFRGQDGAYTILQIPACHKNKPPRHG YERTKINSSTWELRRLNPPGSSTPKCLVTHMLEMSPSFWDRWKRRHNENFDRSIAFALLSQVAG LREYFAANPALTSDLPSTVVKPKQSDSLIIQSELEDSELNDEFYDALARGESFEDEDSDDDDDM IPKAGKVKFKNISWAIAGLAMKPTKASVEKSELVTNSTPVTIDSNHFHGTLRRAKSENDPNSWS EPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEI ACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRI GKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKGGKGVLLK SVGVVGANPDTVFAVVLSSDKHKRYEWDMLTADLELVETIDGYYDVVYGTYEPRYLSWWKTKKD FVFSRQWFRGQDGAYTILQIPACHKNKPPRHGYERTKINSSTWELRRLNPPGSSTPKCLVTHML EMSPSFWDRWKRRHNENFDRSIAFALLSQVAGLREYFAANPALTSDLPSTVVKPKQSDSLIIQS ELEDSELNDEFYDALARGESFEDEDSDDDDDMIPKAGKVKFKNISWAIAGLAMKPTKASVEKSE LVTNSTPVTIDSNHFHGTLRRAKSENDPNSWSEPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTL MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF EAHEWRYVRTFNGIRIFEDIANTKGGKGVLLKSVGVVGANPDTVFAVVLSSDKHKRYEWDMLTA DLELVETIDGYYDVVYGTYEPRYLSWWKTKKDFVFSRQWFRGQDGAYTILQIPACHKNKPPRHG YERTKINSSTWELRRLNPPGSSTPKCLVTHMLEMSPSFWDRWKRRHNENFDRSIAFALLSQVAG LREYFAANPALTSDLPSTVVKPKQSDSLIIQSELEDSELNDEFYDALARGESFEDEDSDDDDDM IPKAGKVKFKNISWAIAGLAMKPTKASVEKSELVTNSTPVTIDSNHFHGTLRRAKSENDPNSWS EPGGEKFMIRGKTYLTDYTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEI ACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRI GKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKGGKGVLLK SVGVVGANPDTVFAVVLSSDKHKRYEWDMLTADLELVETIDGYYDVVYGTYEPRYLSWWKTKKD FVFSRQWFRGQDGAYTILQIPACHKNKPPRHGYERTKINSSTWELRRLNPPGSSTPKCLVTHML EMSPSFWDRWKRRHNENFDRSIAFALLSQVAGLREYFAANPALTSDLPSTVVKPKQSDSLIIQS ELEDSELNDEFYDALARGESFEDEDSDDDDDMIPKAGKVKFKNISWAIAGLAMKPTKASVEKSE LVTNSTPVTIDSNHFHGTLRRAKSENDPNSWSEPGGEKFMIRGKTYLTDYTK(+) MPIKIKLVFILGSIPTNPSRHQVIISLLFCLLKCFNPFPSFTGVPTCNLSFLCLIQPIVKPQDI QFPMASNPATKLLHHKSVTYNTLSDRLLSVICQVSLSSYHELLSTRLTPRVWVILTFRSSKGAM EMV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0439100_circ_g.4

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