Plant Circular RNA Database

Detail information of Os09g0298200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0298200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_038778
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 7246563-7248068  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0298200						
					
						Parent gene annotation
						
							Similar to Brittle 2. (Os09t0298200-01);Similar to Brittle 2. (O
s09t0298200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						Os09t0298200-02:6
Os09t0298200-01:6

General Information
CircRNA Name	Os09g0298200_circ_g.1
ID in PlantcircBase	osa_circ_038778
Alias	NA
Organism	Oryza sativa
Position	chr9: 7246563-7248068 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0298200
Parent gene annotation	Similar to Brittle 2. (Os09t0298200-01);Similar to Brittle 2. (O s09t0298200-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	2
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	Os09t0298200-02:6 Os09t0298200-01:6

			
						 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  
						
							AGTCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATAACATTGTGTTCCTCAAA
TAGCCATAAGTATTGTCGCACAGCATCTGCAGTACCcttaacattttctccaatacgagcattc
ttgtcaattattgcttttctgatgtgtgcattctttccaataccaatgggaatgccaccagtct
cagaaagg

									
								

					

						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: 885
Transcript exons: 7246563-7246682,7246756-7246854,7247034-7247145,7247246-
7247349,7247529-7247708,7247799-7248068
CTTAACATTTTCTCCAATACGAGCATTCTTGTCAATTATTGCTTTTCTGATGTGTGCATTCTTT
CCAATACCAATGGGAATGCCACCAGTCTCAGAAAGGGCTTTCTTGTCCGTCTCCGTCTCATAAT
AGTCTGCACCCATTAGCAGAGAGTCCTCTATCACTGCGCCTTCAGATATACAGGACCGGAGTCC
AACCACAGAATGGTTGATTGTGCAATGTCTAATAACACAACCTTCACCAATAACACTGTCTGTC
ACATCAGCATCAAGAACTTTTGATGGAGGCAAGTATCGAGGTTGCGTATAAATTGCGGCAGAAC
GGTCATAGAAGCTAAAATCTGGCACAGGTTTCTTGGTTATCCCCAAGTTGGCATTGTAGAATGC
CTCTATAGTACCAATATCTTCCCAGTAACCATCATATAAGTAAGCTTGCACCCTCATTCCAATT
TCTGTTGCTCCAGGAATAACCTCGCTTCCAAAGTCATTTGCAGCAGGGAAATTTTGACGGAGAA
GCTTAAGCATCACATCTTTGCTAAAAACATAGATTCCCATACTAGCAATGTAAGGCAATTCCTT
TGCCCTCTCAGTATCAAGGCCAAGTATGGTAGTGTCAACCATCATTGATTTCAACTTCTCTCCT
TTTGGCTTTTCTGCAAATTCAATGATCCTCCCTTCATCATCAATCTTCATAAGGCCAAATGCTG
TAGCACGTTCTTCATCCATGGGCAGCGCAGCAACGGTTATATCAGCATTTGTTTCTCTGTGGGC
CTGAATGAACTTTTGGTAGTCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATA
ACATTGTGTTCCTCAAATAGCCATAAGTATTGTCGCACAGCATCTGCAGTACC
						
					

						Genomic sequence
						
							CTTAACATTTTCTCCAATACGAGCATTCTTGTCAATTATTGCTTTTCTGATGTGTGCATTCTTT
CCAATACCAATGGGAATGCCACCAGTCTCAGAAAGGGCTTTCTTGTCCGTCTCCGTCTGAACAA
AAAGCACAATTAAGTTCCCACAACACCAATACACCATAATATAGTATAGTTTTGTTTTATTTTA
CCTCATAATAGTCTGCACCCATTAGCAGAGAGTCCTCTATCACTGCGCCTTCAGATATACAGGA
CCGGAGTCCAACCACAGAATGGTTGATTGTGCAATGCTAGCCAAAATAAAGGGGGAAAGGCATG
TCAACAAATTTAGGGTCTCTGTTTTGAAGCAATGAAAAAGAAATGTTCGACTAACAAGTAATAA
CTCAAGGTCCTAATATGTTATGATCTAATACTATCCACAGATCATAGAAGGAAGCGCTATGATA
ATTCATCTGAAAAGGATACTTACTCTAATAACACAACCTTCACCAATAACACTGTCTGTCACAT
CAGCATCAAGAACTTTTGATGGAGGCAAGTATCGAGGTTGCGTATAAATTGCGGCAGAACGGTC
ATAGAAGCTGCACACAATAATGTTTGCTCAAAAATAGGAAGAAAATTCAGCAGAAATGCACCCT
TTTAAAAGTAACTTGTTTTCACCATGCAAAATGTAAACCTTACCTAAAATCTGGCACAGGTTTC
TTGGTTATCCCCAAGTTGGCATTGTAGAATGCCTCTATAGTACCAATATCTTCCCAGTAACCAT
CATATAAGTAAGCTTGCACCTATCAAATACATTAGCAGCATAAGCAAACATGCAAAGTAAAAAT
TAAGTAAAGAAGTAACATTTCACAATAAATGATGTAACTGCAGTTTACATACCAAACTTCACAA
AACCTACAGCATGAACTGAGAGAAGGATAAAAATTCCCTACATGCTACAAGTTTCAAGAGCATA
GCGTACCCTCATTCCAATTTCTGTTGCTCCAGGAATAACCTCGCTTCCAAAGTCATTTGCAGCA
GGGAAATTTTGACGGAGAAGCTTAAGCATCACATCTTTGCTAAAAACATAGATTCCCATACTAG
CAATGTAAGGCAATTCCTTTGCCCTCTCAGTATCAAGGCCAAGTATGGTAGTGTCAACCTGCAA
GATCAAAACATGCAGACAATCACTGAAATGTATGCTTCAACAGATCAGGTTGCATATGGTCTCA
ACGGATGACTCATCAATTACCATCATTGATTTCAACTTCTCTCCTTTTGGCTTTTCTGCAAATT
CAATGATCCTCCCTTCATCATCAATCTTCATAAGGCCAAATGCTGTAGCACGTTCTTCATCCAT
GGGCAGCGCAGCAACGGTTATATCAGCATTTGTTTCTCTGTGGGCCTGAATGAACTTTTGGTAG
TCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATAACATTGTGTTCCTCAAATA
GCCATAAGTATTGTCGCACAGCATCTGCAGTACC
						
					

			
		

Sequences
Splice junction sequence	AGTCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATAACATTGTGTTCCTCAAA TAGCCATAAGTATTGTCGCACAGCATCTGCAGTACCcttaacattttctccaatacgagcattc ttgtcaattattgcttttctgatgtgtgcattctttccaataccaatgggaatgccaccagtct cagaaagg
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: 885 Transcript exons: 7246563-7246682,7246756-7246854,7247034-7247145,7247246- 7247349,7247529-7247708,7247799-7248068 CTTAACATTTTCTCCAATACGAGCATTCTTGTCAATTATTGCTTTTCTGATGTGTGCATTCTTT CCAATACCAATGGGAATGCCACCAGTCTCAGAAAGGGCTTTCTTGTCCGTCTCCGTCTCATAAT AGTCTGCACCCATTAGCAGAGAGTCCTCTATCACTGCGCCTTCAGATATACAGGACCGGAGTCC AACCACAGAATGGTTGATTGTGCAATGTCTAATAACACAACCTTCACCAATAACACTGTCTGTC ACATCAGCATCAAGAACTTTTGATGGAGGCAAGTATCGAGGTTGCGTATAAATTGCGGCAGAAC GGTCATAGAAGCTAAAATCTGGCACAGGTTTCTTGGTTATCCCCAAGTTGGCATTGTAGAATGC CTCTATAGTACCAATATCTTCCCAGTAACCATCATATAAGTAAGCTTGCACCCTCATTCCAATT TCTGTTGCTCCAGGAATAACCTCGCTTCCAAAGTCATTTGCAGCAGGGAAATTTTGACGGAGAA GCTTAAGCATCACATCTTTGCTAAAAACATAGATTCCCATACTAGCAATGTAAGGCAATTCCTT TGCCCTCTCAGTATCAAGGCCAAGTATGGTAGTGTCAACCATCATTGATTTCAACTTCTCTCCT TTTGGCTTTTCTGCAAATTCAATGATCCTCCCTTCATCATCAATCTTCATAAGGCCAAATGCTG TAGCACGTTCTTCATCCATGGGCAGCGCAGCAACGGTTATATCAGCATTTGTTTCTCTGTGGGC CTGAATGAACTTTTGGTAGTCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATA ACATTGTGTTCCTCAAATAGCCATAAGTATTGTCGCACAGCATCTGCAGTACC
Genomic sequence	CTTAACATTTTCTCCAATACGAGCATTCTTGTCAATTATTGCTTTTCTGATGTGTGCATTCTTT CCAATACCAATGGGAATGCCACCAGTCTCAGAAAGGGCTTTCTTGTCCGTCTCCGTCTGAACAA AAAGCACAATTAAGTTCCCACAACACCAATACACCATAATATAGTATAGTTTTGTTTTATTTTA CCTCATAATAGTCTGCACCCATTAGCAGAGAGTCCTCTATCACTGCGCCTTCAGATATACAGGA CCGGAGTCCAACCACAGAATGGTTGATTGTGCAATGCTAGCCAAAATAAAGGGGGAAAGGCATG TCAACAAATTTAGGGTCTCTGTTTTGAAGCAATGAAAAAGAAATGTTCGACTAACAAGTAATAA CTCAAGGTCCTAATATGTTATGATCTAATACTATCCACAGATCATAGAAGGAAGCGCTATGATA ATTCATCTGAAAAGGATACTTACTCTAATAACACAACCTTCACCAATAACACTGTCTGTCACAT CAGCATCAAGAACTTTTGATGGAGGCAAGTATCGAGGTTGCGTATAAATTGCGGCAGAACGGTC ATAGAAGCTGCACACAATAATGTTTGCTCAAAAATAGGAAGAAAATTCAGCAGAAATGCACCCT TTTAAAAGTAACTTGTTTTCACCATGCAAAATGTAAACCTTACCTAAAATCTGGCACAGGTTTC TTGGTTATCCCCAAGTTGGCATTGTAGAATGCCTCTATAGTACCAATATCTTCCCAGTAACCAT CATATAAGTAAGCTTGCACCTATCAAATACATTAGCAGCATAAGCAAACATGCAAAGTAAAAAT TAAGTAAAGAAGTAACATTTCACAATAAATGATGTAACTGCAGTTTACATACCAAACTTCACAA AACCTACAGCATGAACTGAGAGAAGGATAAAAATTCCCTACATGCTACAAGTTTCAAGAGCATA GCGTACCCTCATTCCAATTTCTGTTGCTCCAGGAATAACCTCGCTTCCAAAGTCATTTGCAGCA GGGAAATTTTGACGGAGAAGCTTAAGCATCACATCTTTGCTAAAAACATAGATTCCCATACTAG CAATGTAAGGCAATTCCTTTGCCCTCTCAGTATCAAGGCCAAGTATGGTAGTGTCAACCTGCAA GATCAAAACATGCAGACAATCACTGAAATGTATGCTTCAACAGATCAGGTTGCATATGGTCTCA ACGGATGACTCATCAATTACCATCATTGATTTCAACTTCTCTCCTTTTGGCTTTTCTGCAAATT CAATGATCCTCCCTTCATCATCAATCTTCATAAGGCCAAATGCTGTAGCACGTTCTTCATCCAT GGGCAGCGCAGCAACGGTTATATCAGCATTTGTTTCTCTGTGGGCCTGAATGAACTTTTGGTAG TCCATACGGTACAGGTGATCTCCAGCCAAAATGAGAAACTCCATAACATTGTGTTCCTCAAATA GCCATAAGTATTGTCGCACAGCATCTGCAGTACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.315135945

Conservation Information
Conserved circRNAs	NA
PMCS	0.315135945

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							7248002-7246759(+)
7248016-7246565(-)
7246590-7247926(-)
						
					

						Potential amino acid sequence
						
							MRNSITLCSSNSHKYCRTASAVPLTFSPIRAFLSIIAFLMCAFFPIPMGMPPVSERAFLSVSVS
*(+)
MEFLILAGDHLYRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPK
GEKLKSMMVDTTILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATE
IGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADV
TDSVIGEGCVIRHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIG
KNAHIRKAIIDKNARIGENVKGTADAVRQYLWLFEEHNVMEFLILAGDHLYRMDYQKFIQAHRE
TNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPKGEKLKSMMVDTTILGLDTERAKELP
YIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATEIGMRVQAYLYDGYWEDIGTIEAFYN
ANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADVTDSVIGEGCVIRHCTINHSVVGLRS
CISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIGKNAHIRKAIIDKNARIGENVKGTAD
AVRQYLWLFEEHNVMEFLILAGDHLYRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKI
DDEGRIIEFAEKPKGEKLKSMMVDTTILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPA
ANDFGSEVIPGATEIGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQ
PRYLPPSKVLDADVTDSVIGEGCVIRHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDK
KALSETGGIPIGIGKNAHIRKAIIDKNARIGENVKGTADAVRQYLWLFEEHNVMEFLILAGDHL
YRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPKGEKLKSMMVDT
TILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATEIGMRVQAYLYD
GYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADVTDSVIGEGCVI
RHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIGKNAHIRKAIID
KNARIGENVK(-)
MLVLEKMLRVLQMLCDNTYGYLRNTMLWSFSFWLEITCTVWTTKSSFRPTEKQMLI*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	7248002-7246759(+) 7248016-7246565(-) 7246590-7247926(-)
Potential amino acid sequence	MRNSITLCSSNSHKYCRTASAVPLTFSPIRAFLSIIAFLMCAFFPIPMGMPPVSERAFLSVSVS (+) MEFLILAGDHLYRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPK GEKLKSMMVDTTILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATE IGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADV TDSVIGEGCVIRHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIG KNAHIRKAIIDKNARIGENVKGTADAVRQYLWLFEEHNVMEFLILAGDHLYRMDYQKFIQAHRE TNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPKGEKLKSMMVDTTILGLDTERAKELP YIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATEIGMRVQAYLYDGYWEDIGTIEAFYN ANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADVTDSVIGEGCVIRHCTINHSVVGLRS CISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIGKNAHIRKAIIDKNARIGENVKGTAD AVRQYLWLFEEHNVMEFLILAGDHLYRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKI DDEGRIIEFAEKPKGEKLKSMMVDTTILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPA ANDFGSEVIPGATEIGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQ PRYLPPSKVLDADVTDSVIGEGCVIRHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDK KALSETGGIPIGIGKNAHIRKAIIDKNARIGENVKGTADAVRQYLWLFEEHNVMEFLILAGDHL YRMDYQKFIQAHRETNADITVAALPMDEERATAFGLMKIDDEGRIIEFAEKPKGEKLKSMMVDT TILGLDTERAKELPYIASMGIYVFSKDVMLKLLRQNFPAANDFGSEVIPGATEIGMRVQAYLYD GYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAAIYTQPRYLPPSKVLDADVTDSVIGEGCVI RHCTINHSVVGLRSCISEGAVIEDSLLMGADYYETETDKKALSETGGIPIGIGKNAHIRKAIID KNARIGENVK(-) MLVLEKMLRVLQMLCDNTYGYLRNTMLWSFSFWLEITCTVWTTKSSFRPTEKQMLI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0298200_circ_g.1

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