Plant Circular RNA Database

Detail information of Os07g0419500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0419500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_033525
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 13405035-13410519  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0419500						
					
						Parent gene annotation
						
							Similar to UDP-glucose:sterol glucosyltransferase. (Os07t0419500
-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0419500_circ_g.1 Os07g0419500_circ_g.3 Os07g0419500_circ_g.4 Os07g0419500_circ_g.5 						
					
						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  
						
							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
						Os07t0419500-01:10

General Information
CircRNA Name	Os07g0419500_circ_g.2
ID in PlantcircBase	osa_circ_033525
Alias	NA
Organism	Oryza sativa
Position	chr7: 13405035-13410519 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0419500
Parent gene annotation	Similar to UDP-glucose:sterol glucosyltransferase. (Os07t0419500 -01)
Parent gene strand	+
Alternative splicing	Os07g0419500_circ_g.1 Os07g0419500_circ_g.3 Os07g0419500_circ_g.4 Os07g0419500_circ_g.5
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	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	Os07t0419500-01:10

			
						 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  
						
							CATGGTGCATGCTAGAGGATTGGGAGCCCCACCTGTCCCTGTGGAGCAATTACAATTGCATCTA
CTGGTTGATGCAATTAAATTTATGATGGATCCAAAGatctatggccatcgtgttagactggcaa
ctcatgccaacttcaaggattttgttgtgacggctggcctggagttttatcccctaggcggaga
cccaaaac

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

Sequences
Splice junction sequence	CATGGTGCATGCTAGAGGATTGGGAGCCCCACCTGTCCCTGTGGAGCAATTACAATTGCATCTA CTGGTTGATGCAATTAAATTTATGATGGATCCAAAGatctatggccatcgtgttagactggcaa ctcatgccaacttcaaggattttgttgtgacggctggcctggagttttatcccctaggcggaga cccaaaac
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	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
						0.099427607

Conservation Information
Conserved circRNAs	NA
PMCS	0.099427607

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							13405245-13410516(+)
13405069-13410483(-)
						
					

						Potential amino acid sequence
						
							MVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVHVAEA
LKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLKLRPV
TYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLESGEKP
IYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDWLFLQ
CKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLVDAIK
FMMDPKIYGHRVRLATHANFKDFVVTAGLEFYPLGGDPKLLAGYMVKNKGFLPATPSEIPIQRK
EIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVHVAEALKVPIHIIFTMPWTPTCEFP
HPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLKLRPVTYLSSAHAYSNDIPHAYIWS
PYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLESGEKPIYIGFGSLPIPEPDKLTRII
VEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDWLFLQCKAVVHHGGAGTTAASLKAA
CPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLVDAIKFMMDPKIYGHRVRLATHANF
KDFVVTAGLEFYPLGGDPKLLAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDT
GAPFNVNAIIANPAAYGHVHVAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVD
SFVWLGIRDIINDLRKRKLKLRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFC
FLDLASNYKPPEPLLKWLESGEKPIYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGL
GNLEEPKEFVYVIDNIPHDWLFLQCKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVH
ARGLGAPPVPVEQLQLHLLVDAIKFMMDPKIYGHRVRLATHANFKDFVVTAGLEFYPLGGDPKL
LAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVH
VAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLK
LRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLES
GEKPIYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDW
LFLQCKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLV
DAIKFMMDPK(+)
MSCQSNTMAIDLWIHHKFNCINQ*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	13405245-13410516(+) 13405069-13410483(-)
Potential amino acid sequence	MVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVHVAEA LKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLKLRPV TYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLESGEKP IYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDWLFLQ CKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLVDAIK FMMDPKIYGHRVRLATHANFKDFVVTAGLEFYPLGGDPKLLAGYMVKNKGFLPATPSEIPIQRK EIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVHVAEALKVPIHIIFTMPWTPTCEFP HPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLKLRPVTYLSSAHAYSNDIPHAYIWS PYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLESGEKPIYIGFGSLPIPEPDKLTRII VEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDWLFLQCKAVVHHGGAGTTAASLKAA CPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLVDAIKFMMDPKIYGHRVRLATHANF KDFVVTAGLEFYPLGGDPKLLAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDT GAPFNVNAIIANPAAYGHVHVAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVD SFVWLGIRDIINDLRKRKLKLRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFC FLDLASNYKPPEPLLKWLESGEKPIYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGL GNLEEPKEFVYVIDNIPHDWLFLQCKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVH ARGLGAPPVPVEQLQLHLLVDAIKFMMDPKIYGHRVRLATHANFKDFVVTAGLEFYPLGGDPKL LAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGHVH VAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRKLK LRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWLES GEKPIYIGFGSLPIPEPDKLTRIIVEALEITGQRGIINKGWGGLGNLEEPKEFVYVIDNIPHDW LFLQCKAVVHHGGAGTTAASLKAACPTTIVPFFGDQFFWGNMVHARGLGAPPVPVEQLQLHLLV DAIKFMMDPK(+) MSCQSNTMAIDLWIHHKFNCINQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0419500_circ_g.2

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