Plant Circular RNA Database

Detail information of Os02g0274100_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os02g0274100_circ_g.6
					
						ID in PlantcircBase
						osa_circ_014236
					
						Alias
						Os_ciR7613
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 10007103-10009221  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0274100						
					
						Parent gene annotation
						
							3-hydroxyacyl-CoA dehydrogenase, Multifunctional protein,  RNA- 
and microtubule-binding protein, Salicylic acid (SA) biosynthesi
s, Maintenance of root meristem activity, Beta -oxidation of fat
ty acids (Os02t0274100-01);Similar to Peroxisomal fatty acid bet
a-oxidation multifunctional protein. (Os02t0274100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0274100_circ_g.4 Os02g0274100_circ_g.5 Os02g0274100_circ_g.7 Os02g0274100_circ_g.8 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os02t0274100-01:5
Os02t0274100-02:5

General Information
CircRNA Name	Os02g0274100_circ_g.6
ID in PlantcircBase	osa_circ_014236
Alias	Os_ciR7613
Organism	Oryza sativa
Position	chr2: 10007103-10009221 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0274100
Parent gene annotation	3-hydroxyacyl-CoA dehydrogenase, Multifunctional protein, RNA- and microtubule-binding protein, Salicylic acid (SA) biosynthesi s, Maintenance of root meristem activity, Beta -oxidation of fat ty acids (Os02t0274100-01);Similar to Peroxisomal fatty acid bet a-oxidation multifunctional protein. (Os02t0274100-02)
Parent gene strand	+
Alternative splicing	Os02g0274100_circ_g.4 Os02g0274100_circ_g.5 Os02g0274100_circ_g.7 Os02g0274100_circ_g.8
Support reads	2/1
Tissues	root/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	Os02t0274100-01:5 Os02t0274100-02:5

			
						 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  
						
							TTATATACATTCAAAGCTTAGCAAGTGGACTGAAATTTATGGCGATTTCTTCAAACCATCATCC
TATTTGGAAGATAGAGCTAAAAGAAGCCTACCATTGccctgcccatattatgcctttgcttgaa
attgtccggacggagaagacatcaccgcaagctattcttgatctcatcacagttgggaaaatga
taaagaaa

									
								

					

						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: 787
Transcript exons: 10007103-10007357,10007881-10008002,10008122-10008243,10
008354-10008502,10009083-10009221
CCCTGCCCATATTATGCCTTTGCTTGAAATTGTCCGGACGGAGAAGACATCACCGCAAGCTATT
CTTGATCTCATCACAGTTGGGAAAATGATAAAGAAAGTCCCTGTTGTGGTTGGGAACTGCACAG
GCTTCGCAGTCAATCGTACATTTTTCCCTTACACACAGGGTTCTCATCTTCTAGTTAGTATTGG
GATCGACGTTTTCAGAATTGATCGAGTAATAAGCAGCTTTGGCATGCCAATGGGACCTTTTCAA
CTGCAAGATCTGGCTGGATATGGAGTGGCATTGGCAGTAAAGGATATCTATGCGGCTGCCTTTG
GAACAAGGAATCTGGACTCTAATCTGGTGGATTTGATGGTACAGAATGGACGGCAGGGAAAGAG
CAATGGTAAAGGTTATTACCTTTATGAGAAGGGTGGGAAGCCGAAGCCTGACCCAAGTGTTCAG
GTTGTGATTGACGAGTACAGAAGATGTGCAAAGACAATGCCTGGTGGAAAGCCTGTTACTTTAT
CTGATCAAGATATATTGGAGATGATTTTCTTCCCAGTTGTTAATGAGGCATGCAGGGTCATGGA
TGAAAATGTTGTGATCCGAGCTTCTGATCTTGATATTGCTTCTATCCTTGGGATGGGTTTTCCC
AAGTTCAGGGGTGGTCTTGTCTTTTGGGCTGACACTATTGGAGCACCTTATATACATTCAAAGC
TTAGCAAGTGGACTGAAATTTATGGCGATTTCTTCAAACCATCATCCTATTTGGAAGATAGAGC
TAAAAGAAGCCTACCATTG
						
					

						Genomic sequence
						
							CCCTGCCCATATTATGCCTTTGCTTGAAATTGTCCGGACGGAGAAGACATCACCGCAAGCTATT
CTTGATCTCATCACAGTTGGGAAAATGATAAAGAAAGTCCCTGTTGTGGTTGGGAACTGCACAG
GCTTCGCAGTCAATCGTACATTTTTCCCTTACACACAGGGTTCTCATCTTCTAGTTAGTATTGG
GATCGACGTTTTCAGAATTGATCGAGTAATAAGCAGCTTTGGCATGCCAATGGGACCTTTTCAG
TAAGTGTTCAACTCTATTTTTATACATCTTTATGTCGCACTAGATTATCATCACAAATATTAGT
ATTTGTATTGAAATTTGTTTAAATAGACAAAATAAGATAGGAAATATGTAGTTTGAATAAATTC
ATGGTTTGCGTTTTATGCCTTATTTATTTGTATATAGCTTATAGTGAACATTTTTTTAGTCCAA
TTCAATTTATTTTTGTGGGCTTTAGTAAGCTACATCTTTTGAAATGTGATTGGATGCCTCCTCA
ATAACTCAATGGAGGTCACATTTCCTTTAATTGTTGTAATGCAACATGTCACTTATACCTTTGT
GCATAAATATCTAATCACCTCAAATTGCATACCTTCTGTGCATGAACAATTAACAGTGAGATAT
TGTTGTGTGCCTTACCTAGATTATTTAAATGAACAGTGCAGTGCTGGTCCGTTGTTGATTGACC
TGTTTTTCTGTAATCATCATTCCCAAGGGTTTTTATATCTAATAAATCCCCCTCTTCCCTCTGC
ACTCCTGCAGACTGCAAGATCTGGCTGGATATGGAGTGGCATTGGCAGTAAAGGATATCTATGC
GGCTGCCTTTGGAACAAGGAATCTGGACTCTAATCTGGTGGATTTGATGGTACAGAATGGACGG
CAGGGTATGCTTCCTAGCCTGCTTTTGCTCCTGCGATGCTGTTGGTTGTAGCAGATAGGATGGA
TTGGACAAGAAACAGTAGTCAAACAAAAAATTGATGTGAAATTTCCCTGTATTTTATAGGAAAG
AGCAATGGTAAAGGTTATTACCTTTATGAGAAGGGTGGGAAGCCGAAGCCTGACCCAAGTGTTC
AGGTTGTGATTGACGAGTACAGAAGATGTGCAAAGACAATGCCTGGTGGAAAGGTTTCCCTCCT
TCCCTGCCTGAGTCATGGATTTTTCATTTAAAAATTCCCATGCTATCCCAGCTGGTGATGGAAA
AAATTTCTGACATGGAGACATTATCTTGCTTGCAGCCTGTTACTTTATCTGATCAAGATATATT
GGAGATGATTTTCTTCCCAGTTGTTAATGAGGCATGCAGGGTCATGGATGAAAATGTTGTGATC
CGAGCTTCTGATCTTGATATTGCTTCTATCCTTGGGATGGGTTTTCCCAAGTTCAGGTAAACAA
CTGTTGCTTAAGCTTAAGTTGTGTGGTATGTTATTAGCAGGTGACAATTTACGTTCACTTGCAT
AATCGTCTTATGTAACTAAATGCTAATAATTAGCATGCACTTGAAGTATGCCTTAGTTGTATCA
ATATTTAGATACTTGGATTGAGATGCATGTTTGGTTTGTGCACAAATATAACATATGGACTTAA
AATTTTATCAGAACACTTCTGATATCTAAACATGAACCTTATTTAATCCTTATGTAGGGTAGGG
CTGCATGGCGTATATATCAAAATAAATTTATGTTGCTTTATAACGTGGTGTTTAACTTTAGCAC
TTGGAATTCCACCATAAGGTATTCCAAATGAGTGTTTATTGCTAAGTTCTGTTACATCATTGTC
TAATACCAAACAACTCTCAAGTTTTATATTATTATGCATTCGTGTGAAGCTGTATAATTTTGTC
AATCCATGATACTGTTAGCCGTCAGTCCTCACATGTATATTTTGCTTTCCTTTTTCTTTTTGTC
GCGCATAAAGTGTTGTGGTTATTCTGAGTGTTAGTTTAACCTTTGATGTTTTTTATGAAGGGGT
GGTCTTGTCTTTTGGGCTGACACTATTGGAGCACCTTATATACATTCAAAGCTTAGCAAGTGGA
CTGAAATTTATGGCGATTTCTTCAAACCATCATCCTATTTGGAAGATAGAGCTAAAAGAAGCCT
ACCATTG
						
					

			
		

Sequences
Splice junction sequence	TTATATACATTCAAAGCTTAGCAAGTGGACTGAAATTTATGGCGATTTCTTCAAACCATCATCC TATTTGGAAGATAGAGCTAAAAGAAGCCTACCATTGccctgcccatattatgcctttgcttgaa attgtccggacggagaagacatcaccgcaagctattcttgatctcatcacagttgggaaaatga taaagaaa
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: 787 Transcript exons: 10007103-10007357,10007881-10008002,10008122-10008243,10 008354-10008502,10009083-10009221 CCCTGCCCATATTATGCCTTTGCTTGAAATTGTCCGGACGGAGAAGACATCACCGCAAGCTATT CTTGATCTCATCACAGTTGGGAAAATGATAAAGAAAGTCCCTGTTGTGGTTGGGAACTGCACAG GCTTCGCAGTCAATCGTACATTTTTCCCTTACACACAGGGTTCTCATCTTCTAGTTAGTATTGG GATCGACGTTTTCAGAATTGATCGAGTAATAAGCAGCTTTGGCATGCCAATGGGACCTTTTCAA CTGCAAGATCTGGCTGGATATGGAGTGGCATTGGCAGTAAAGGATATCTATGCGGCTGCCTTTG GAACAAGGAATCTGGACTCTAATCTGGTGGATTTGATGGTACAGAATGGACGGCAGGGAAAGAG CAATGGTAAAGGTTATTACCTTTATGAGAAGGGTGGGAAGCCGAAGCCTGACCCAAGTGTTCAG GTTGTGATTGACGAGTACAGAAGATGTGCAAAGACAATGCCTGGTGGAAAGCCTGTTACTTTAT CTGATCAAGATATATTGGAGATGATTTTCTTCCCAGTTGTTAATGAGGCATGCAGGGTCATGGA TGAAAATGTTGTGATCCGAGCTTCTGATCTTGATATTGCTTCTATCCTTGGGATGGGTTTTCCC AAGTTCAGGGGTGGTCTTGTCTTTTGGGCTGACACTATTGGAGCACCTTATATACATTCAAAGC TTAGCAAGTGGACTGAAATTTATGGCGATTTCTTCAAACCATCATCCTATTTGGAAGATAGAGC TAAAAGAAGCCTACCATTG
Genomic sequence	CCCTGCCCATATTATGCCTTTGCTTGAAATTGTCCGGACGGAGAAGACATCACCGCAAGCTATT CTTGATCTCATCACAGTTGGGAAAATGATAAAGAAAGTCCCTGTTGTGGTTGGGAACTGCACAG GCTTCGCAGTCAATCGTACATTTTTCCCTTACACACAGGGTTCTCATCTTCTAGTTAGTATTGG GATCGACGTTTTCAGAATTGATCGAGTAATAAGCAGCTTTGGCATGCCAATGGGACCTTTTCAG TAAGTGTTCAACTCTATTTTTATACATCTTTATGTCGCACTAGATTATCATCACAAATATTAGT ATTTGTATTGAAATTTGTTTAAATAGACAAAATAAGATAGGAAATATGTAGTTTGAATAAATTC ATGGTTTGCGTTTTATGCCTTATTTATTTGTATATAGCTTATAGTGAACATTTTTTTAGTCCAA TTCAATTTATTTTTGTGGGCTTTAGTAAGCTACATCTTTTGAAATGTGATTGGATGCCTCCTCA ATAACTCAATGGAGGTCACATTTCCTTTAATTGTTGTAATGCAACATGTCACTTATACCTTTGT GCATAAATATCTAATCACCTCAAATTGCATACCTTCTGTGCATGAACAATTAACAGTGAGATAT TGTTGTGTGCCTTACCTAGATTATTTAAATGAACAGTGCAGTGCTGGTCCGTTGTTGATTGACC TGTTTTTCTGTAATCATCATTCCCAAGGGTTTTTATATCTAATAAATCCCCCTCTTCCCTCTGC ACTCCTGCAGACTGCAAGATCTGGCTGGATATGGAGTGGCATTGGCAGTAAAGGATATCTATGC GGCTGCCTTTGGAACAAGGAATCTGGACTCTAATCTGGTGGATTTGATGGTACAGAATGGACGG CAGGGTATGCTTCCTAGCCTGCTTTTGCTCCTGCGATGCTGTTGGTTGTAGCAGATAGGATGGA TTGGACAAGAAACAGTAGTCAAACAAAAAATTGATGTGAAATTTCCCTGTATTTTATAGGAAAG AGCAATGGTAAAGGTTATTACCTTTATGAGAAGGGTGGGAAGCCGAAGCCTGACCCAAGTGTTC AGGTTGTGATTGACGAGTACAGAAGATGTGCAAAGACAATGCCTGGTGGAAAGGTTTCCCTCCT TCCCTGCCTGAGTCATGGATTTTTCATTTAAAAATTCCCATGCTATCCCAGCTGGTGATGGAAA AAATTTCTGACATGGAGACATTATCTTGCTTGCAGCCTGTTACTTTATCTGATCAAGATATATT GGAGATGATTTTCTTCCCAGTTGTTAATGAGGCATGCAGGGTCATGGATGAAAATGTTGTGATC CGAGCTTCTGATCTTGATATTGCTTCTATCCTTGGGATGGGTTTTCCCAAGTTCAGGTAAACAA CTGTTGCTTAAGCTTAAGTTGTGTGGTATGTTATTAGCAGGTGACAATTTACGTTCACTTGCAT AATCGTCTTATGTAACTAAATGCTAATAATTAGCATGCACTTGAAGTATGCCTTAGTTGTATCA ATATTTAGATACTTGGATTGAGATGCATGTTTGGTTTGTGCACAAATATAACATATGGACTTAA AATTTTATCAGAACACTTCTGATATCTAAACATGAACCTTATTTAATCCTTATGTAGGGTAGGG CTGCATGGCGTATATATCAAAATAAATTTATGTTGCTTTATAACGTGGTGTTTAACTTTAGCAC TTGGAATTCCACCATAAGGTATTCCAAATGAGTGTTTATTGCTAAGTTCTGTTACATCATTGTC TAATACCAAACAACTCTCAAGTTTTATATTATTATGCATTCGTGTGAAGCTGTATAATTTTGTC AATCCATGATACTGTTAGCCGTCAGTCCTCACATGTATATTTTGCTTTCCTTTTTCTTTTTGTC GCGCATAAAGTGTTGTGGTTATTCTGAGTGTTAGTTTAACCTTTGATGTTTTTTATGAAGGGGT GGTCTTGTCTTTTGGGCTGACACTATTGGAGCACCTTATATACATTCAAAGCTTAGCAAGTGGA CTGAAATTTATGGCGATTTCTTCAAACCATCATCCTATTTGGAAGATAGAGCTAAAAGAAGCCT ACCATTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.248411853

Conservation Information
Conserved circRNAs	NA
PMCS	0.248411853

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10007117-10007126(+)
10009161-10007126(+)
10007179-10009215(-)
						
						Potential amino acid sequence
						
							MPLLEIVRTEKTSPQAILDLITVGKMIKKVPVVVGNCTGFAVNRTFFPYTQGSHLLVSIGIDVF
RIDRVISSFGMPMGPFQLQDLAGYGVALAVKDIYAAAFGTRNLDSNLVDLMVQNGRQGKSNGKG
YYLYEKGGKPKPDPSVQVVIDEYRRCAKTMPGGKPVTLSDQDILEMIFFPVVNEACRVMDENVV
IRASDLDIASILGMGFPKFRGGLVFWADTIGAPYIHSKLSKWTEIYGDFFKPSSYLEDRAKRSL
PLPCPYYAFA*(+)
MAISSNHHPIWKIELKEAYHCPAHIMPLLEIVRTEKTSPQAILDLITVGKMIKKVPVVVGNCTG
FAVNRTFFPYTQGSHLLVSIGIDVFRIDRVISSFGMPMGPFQLQDLAGYGVALAVKDIYAAAFG
TRNLDSNLVDLMVQNGRQGKSNGKGYYLYEKGGKPKPDPSVQVVIDEYRRCAKTMPGGKPVTLS
DQDILEMIFFPVVNEACRVMDENVVIRASDLDIASILGMGFPKFRGGLVFWADTIGAPYIHSKL
SKWTEIYGDFFKPSSYLEDRAKRSLPLPCPYYAFA*(+)
MRSRIACGDVFSVRTISSKGIIWAGQW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10007117-10007126(+) 10009161-10007126(+) 10007179-10009215(-)
Potential amino acid sequence	MPLLEIVRTEKTSPQAILDLITVGKMIKKVPVVVGNCTGFAVNRTFFPYTQGSHLLVSIGIDVF RIDRVISSFGMPMGPFQLQDLAGYGVALAVKDIYAAAFGTRNLDSNLVDLMVQNGRQGKSNGKG YYLYEKGGKPKPDPSVQVVIDEYRRCAKTMPGGKPVTLSDQDILEMIFFPVVNEACRVMDENVV IRASDLDIASILGMGFPKFRGGLVFWADTIGAPYIHSKLSKWTEIYGDFFKPSSYLEDRAKRSL PLPCPYYAFA(+) MAISSNHHPIWKIELKEAYHCPAHIMPLLEIVRTEKTSPQAILDLITVGKMIKKVPVVVGNCTG FAVNRTFFPYTQGSHLLVSIGIDVFRIDRVISSFGMPMGPFQLQDLAGYGVALAVKDIYAAAFG TRNLDSNLVDLMVQNGRQGKSNGKGYYLYEKGGKPKPDPSVQVVIDEYRRCAKTMPGGKPVTLS DQDILEMIFFPVVNEACRVMDENVVIRASDLDIASILGMGFPKFRGGLVFWADTIGAPYIHSKL SKWTEIYGDFFKPSSYLEDRAKRSLPLPCPYYAFA(+) MRSRIACGDVFSVRTISSKGIIWAGQW*(-)
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 Os02g0274100_circ_g.6

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