Plant Circular RNA Database

Detail information of Os09g0439700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0439700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_039342
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 16301698-16303230  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0439700						
					
						Parent gene annotation
						
							Transmembrane receptor, eukaryota domain containing protein. (Os
09t0439700-01);Transmembrane receptor, eukaryota domain containi
ng protein. (Os09t0439700-02);Hypothetical conserved gene. (Os09
t0439700-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						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
						Os09t0439700-03:1
Os09t0439700-01:3
Os09t0439700-02:3

General Information
CircRNA Name	Os09g0439700_circ_g.1
ID in PlantcircBase	osa_circ_039342
Alias	NA
Organism	Oryza sativa
Position	chr9: 16301698-16303230 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0439700
Parent gene annotation	Transmembrane receptor, eukaryota domain containing protein. (Os 09t0439700-01);Transmembrane receptor, eukaryota domain containi ng protein. (Os09t0439700-02);Hypothetical conserved gene. (Os09 t0439700-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
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	Os09t0439700-03:1 Os09t0439700-01:3 Os09t0439700-02:3

			
						 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  
						
							CATCTCACGATCTTCTATCTCAAAAACAAGTATCTGAACCATTGCTGAACCAGTTTCCTTTGCA
GCATCCTTTGGTCTCCTAAACGTAATCTTGTCAAATctcattgagttctgtgacggcgcccaca
ggtatgaaatgacacaaagaagtgagaaagacaagacatgccagaacgcaggaattatccatgc
atactgcc

									
								

					

						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
						
							CTCATTGAGTTCTGTGACGGCGCCCACAGGTATGAAATGACACAAAGAAGTGAGAAAGACAAGA
CATGCCAGAACGCAGGAATTATCCATGCATACTGCCATCGTTCATTGAATACATCTGTTGATTT
GAAGTAAATCTGCAACAAATGTCAACCACAGCACCTTAAATTCTGAACAAGATAAAATGACTAG
ATTCTTAAAAAACAAATACATGACTCTGAAGTATGCAGCCTCTACAACGGGTGAGGCAAAACCA
GTTTTGTGCAAGACAATGATATTTTCTTGGACTCAATACAGTCAACATATGGTTTTGATACACA
TTAACGTACCTCATAGCCAATCCAGCCAATAGACACCAGAACAGTTACAGCCAATGCTATTGTG
AATTTCCTGTAAATGTCAAGTTTGGCCATTGACCTTCTGGCCTGTGATCCACAAGAAAACGATT
ACAGCTGGTTAGTTATTTTTCATTTTTAAATAAGTCAACATTGTGTCACCTCCTACCTGTGAAA
TAAATAACATAAAAGACATTGCACTGATAAATCTGAAATAGGTTAGTTGGATAGGGCAAAAGGA
GTTGATAAAGAATAATATAAAAGTATATTGCTCACCTGAAGTTTGTCAAGGGTCTTAGCTAGCG
AAATAAAAATCCAAACAACGAATGCAGCATCCAAAATAGCCACGGGATAAACCAAGAACAATCG
AGCTTTTCCAGATAGATCATTTACGGCACCAAGATTTTCTACCAATTCAAGGATTTCCGTAGCT
AAAAAGAATGTTCCTCCAAGCATAACCACCTTTGATGTGAGACCACCCAAACTAGGCCTGACAA
CTCCATATCCCATTGAGACAATGAGAATAATAACACGGGCTACTGTTCTTTTAACAGTCCCAAA
TGTTACAGCCCAAAATGTGATGCCCTTTGGTCGAACACCAGTCTCGTTGAACTCAGCATACTCA
AAATACCACAATGACATCTCAAGCATGCCCAATGTAATGACAAGAGTAATACAGTTTTGCAGTG
GCAGAACTTCACGCCAAAACTTCATGTACTGATAGAACCAATAAATCCCAAGTACAACAAAAGC
GAATGACATAATTCCAAAAAAGTTCTTAAGAGGTGCCATCCGACCAGGAAGATACCCAGTAGGA
TTTTTCCATACGGTTTGCCCCTCTATCTCCAGACCAGCAAGTGATGGATCACAGTGTATGAAGT
ACATATTGTACATCCCGGTTTTTGTTATAGGAATGATCCTTGAAGGTAGTGTTGCAATCGTGTC
ACTTCCATCAAAAGATGAAAAAAGCAACTGTGGCCAGCCAGGATTCACCTGTGATGGCCGATAG
ATGACAGAACCTTCCGTGCAAGCTCCTAACTTCGCAAGATCTGAGGTACAACAAATAGCTTTCT
GACCTCCATATGCTGATCCACCAATCATCTCACGATCTTCTATCTCAAAAACAAGTATCTGAAC
CATTGCTGAACCAGTTTCCTTTGCAGCATCCTTTGGTCTCCTAAACGTAATCTTGTCAAAT
						
					

			
		

Sequences
Splice junction sequence	CATCTCACGATCTTCTATCTCAAAAACAAGTATCTGAACCATTGCTGAACCAGTTTCCTTTGCA GCATCCTTTGGTCTCCTAAACGTAATCTTGTCAAATctcattgagttctgtgacggcgcccaca ggtatgaaatgacacaaagaagtgagaaagacaagacatgccagaacgcaggaattatccatgc atactgcc
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	CTCATTGAGTTCTGTGACGGCGCCCACAGGTATGAAATGACACAAAGAAGTGAGAAAGACAAGA CATGCCAGAACGCAGGAATTATCCATGCATACTGCCATCGTTCATTGAATACATCTGTTGATTT GAAGTAAATCTGCAACAAATGTCAACCACAGCACCTTAAATTCTGAACAAGATAAAATGACTAG ATTCTTAAAAAACAAATACATGACTCTGAAGTATGCAGCCTCTACAACGGGTGAGGCAAAACCA GTTTTGTGCAAGACAATGATATTTTCTTGGACTCAATACAGTCAACATATGGTTTTGATACACA TTAACGTACCTCATAGCCAATCCAGCCAATAGACACCAGAACAGTTACAGCCAATGCTATTGTG AATTTCCTGTAAATGTCAAGTTTGGCCATTGACCTTCTGGCCTGTGATCCACAAGAAAACGATT ACAGCTGGTTAGTTATTTTTCATTTTTAAATAAGTCAACATTGTGTCACCTCCTACCTGTGAAA TAAATAACATAAAAGACATTGCACTGATAAATCTGAAATAGGTTAGTTGGATAGGGCAAAAGGA GTTGATAAAGAATAATATAAAAGTATATTGCTCACCTGAAGTTTGTCAAGGGTCTTAGCTAGCG AAATAAAAATCCAAACAACGAATGCAGCATCCAAAATAGCCACGGGATAAACCAAGAACAATCG AGCTTTTCCAGATAGATCATTTACGGCACCAAGATTTTCTACCAATTCAAGGATTTCCGTAGCT AAAAAGAATGTTCCTCCAAGCATAACCACCTTTGATGTGAGACCACCCAAACTAGGCCTGACAA CTCCATATCCCATTGAGACAATGAGAATAATAACACGGGCTACTGTTCTTTTAACAGTCCCAAA TGTTACAGCCCAAAATGTGATGCCCTTTGGTCGAACACCAGTCTCGTTGAACTCAGCATACTCA AAATACCACAATGACATCTCAAGCATGCCCAATGTAATGACAAGAGTAATACAGTTTTGCAGTG GCAGAACTTCACGCCAAAACTTCATGTACTGATAGAACCAATAAATCCCAAGTACAACAAAAGC GAATGACATAATTCCAAAAAAGTTCTTAAGAGGTGCCATCCGACCAGGAAGATACCCAGTAGGA TTTTTCCATACGGTTTGCCCCTCTATCTCCAGACCAGCAAGTGATGGATCACAGTGTATGAAGT ACATATTGTACATCCCGGTTTTTGTTATAGGAATGATCCTTGAAGGTAGTGTTGCAATCGTGTC ACTTCCATCAAAAGATGAAAAAAGCAACTGTGGCCAGCCAGGATTCACCTGTGATGGCCGATAG ATGACAGAACCTTCCGTGCAAGCTCCTAACTTCGCAAGATCTGAGGTACAACAAATAGCTTTCT GACCTCCATATGCTGATCCACCAATCATCTCACGATCTTCTATCTCAAAAACAAGTATCTGAAC CATTGCTGAACCAGTTTCCTTTGCAGCATCCTTTGGTCTCCTAAACGTAATCTTGTCAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.282378039

Conservation Information
Conserved circRNAs	NA
PMCS	0.282378039

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							16301801-16303227(-)
16303174-16301700(-)
						
					

						Potential amino acid sequence
						
							MAVCMDNSCVLACLVFLTSLCHFIPVGAVTELNEI*(-)
MVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSFDG
SDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGIMS
FAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFWAV
TFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLSGK
ARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIGYE
IYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKETGS
AMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSFD
GSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGIM
SFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFWA
VTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLSG
KARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIGY
EIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKETG
SAMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSF
DGSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGI
MSFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFW
AVTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLS
GKARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIG
YEIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKET
GSAMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSS
FDGSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFG
IMSFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITF
WAVTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDL
SGKARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWI
GYEIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSM(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	16301801-16303227(-) 16303174-16301700(-)
Potential amino acid sequence	MAVCMDNSCVLACLVFLTSLCHFIPVGAVTELNEI*(-) MVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSFDG SDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGIMS FAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFWAV TFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLSGK ARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIGYE IYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKETGS AMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSFD GSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGIM SFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFWA VTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLSG KARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIGY EIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKETG SAMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSSF DGSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFGI MSFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITFW AVTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDLS GKARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWIG YEIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSMRFDKITFRRPKDAAKET GSAMVQILVFEIEDREMIGGSAYGGQKAICCTSDLAKLGACTEGSVIYRPSQVNPGWPQLLFSS FDGSDTIATLPSRIIPITKTGMYNMYFIHCDPSLAGLEIEGQTVWKNPTGYLPGRMAPLKNFFG IMSFAFVVLGIYWFYQYMKFWREVLPLQNCITLVITLGMLEMSLWYFEYAEFNETGVRPKGITF WAVTFGTVKRTVARVIILIVSMGYGVVRPSLGGLTSKVVMLGGTFFLATEILELVENLGAVNDL SGKARLFLVYPVAILDAAFVVWIFISLAKTLDKLQARRSMAKLDIYRKFTIALAVTVLVSIGWI GYEIYFKSTDVFNERWQYAWIIPAFWHVLSFSLLCVISYLWAPSQNSM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0439700_circ_g.1

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