Plant Circular RNA Database

Detail information of Os12g0430000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os12g0430000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_011370
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 13820889-13826125  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0430000						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os12t0430000-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0430000_circ_g.4 Os12g0430000_circ_g.5 Os12g0430000_circ_g.6 Os12g0430000_circ_g.7 Os12g0430000_circ_g.8 Os12g0430000_circ_g.9 Os12g0430000_circ_g.10 Os12g0430000_circ_g.11 Os12g0430000_circ_g.12 						
					
						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
						Os12t0430000-00:6

General Information
CircRNA Name	Os12g0430000_circ_g.3
ID in PlantcircBase	osa_circ_011370
Alias	NA
Organism	Oryza sativa
Position	chr12: 13820889-13826125 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0430000
Parent gene annotation	Hypothetical conserved gene. (Os12t0430000-00)
Parent gene strand	-
Alternative splicing	Os12g0430000_circ_g.4 Os12g0430000_circ_g.5 Os12g0430000_circ_g.6 Os12g0430000_circ_g.7 Os12g0430000_circ_g.8 Os12g0430000_circ_g.9 Os12g0430000_circ_g.10 Os12g0430000_circ_g.11 Os12g0430000_circ_g.12
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	Os12t0430000-00:6

			
						 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  
						
							GGGAAATTGCACTGCAAGCTGCAGCTGTTGCACCAGTCTGTATGGCATTCATGGAGACATCAAT
GAGGAAAAAATACACAGCTGGCATTGGATCACGAACcttatctccagtggaaatatttgatcta
ccttcagcttccctggcagataatgaaccaattccaactgatggtagtactgcaagtgccaaaa
tgcacata

						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	GGGAAATTGCACTGCAAGCTGCAGCTGTTGCACCAGTCTGTATGGCATTCATGGAGACATCAAT GAGGAAAAAATACACAGCTGGCATTGGATCACGAACcttatctccagtggaaatatttgatcta ccttcagcttccctggcagataatgaaccaattccaactgatggtagtactgcaagtgccaaaa tgcacata
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
						0.098534863

Conservation Information
Conserved circRNAs	NA
PMCS	0.098534863

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13823994-13820909(+)
13826068-13823272(+)
13826115-13820891(-)
						
						Potential amino acid sequence
						
							MNSGIKCGNPNHCSRTFRKVRKSLGNCTASCSCCTSLYGIHGDINEEKIHSWHWITNLISSGNI
*(+)
MAFMETSMRKKYTAGIGSRTLSPVEIFDLPSASLADNEPIPTDGSTDWNTSSFPPVDFIARKLA
FIAAPNAESATLLFSNMLGMLSSNCSKFSRHSEIRRIRSV*(+)
MPAVYFFLIDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQP
LMLIVPDIQDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKS
TGGKLLVFQSVLPSVGIGSLSAREAEGRSNISTGDKVRDPMPAVYFFLIDVSMNAIQTGATAAA
CSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQPLMLIVPDIQDVYTPLQTDLILLIS
ECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKSTGGKLLVFQSVLPSVGIGSLSARE
AEGRSNISTGDKVRDPMPAVYFFLIDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATF
DSAIHFYSLKRDQQQPLMLIVPDIQDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVAD
SAFGAAMKASFLAMKSTGGKLLVFQSVLPSVGIGSLSAREAEGRSNISTGDKVRDPMPAVYFFL
IDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQPLMLIVPDI
QDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKSTGGKLLVF
QSVLPSVGIGSLSAREAEGRSNISTGDK(-)
						
						Sponge-miRNAs
						
							osa-miR1859 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13823994-13820909(+) 13826068-13823272(+) 13826115-13820891(-)
Potential amino acid sequence	MNSGIKCGNPNHCSRTFRKVRKSLGNCTASCSCCTSLYGIHGDINEEKIHSWHWITNLISSGNI (+) MAFMETSMRKKYTAGIGSRTLSPVEIFDLPSASLADNEPIPTDGSTDWNTSSFPPVDFIARKLA FIAAPNAESATLLFSNMLGMLSSNCSKFSRHSEIRRIRSV(+) MPAVYFFLIDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQP LMLIVPDIQDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKS TGGKLLVFQSVLPSVGIGSLSAREAEGRSNISTGDKVRDPMPAVYFFLIDVSMNAIQTGATAAA CSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQPLMLIVPDIQDVYTPLQTDLILLIS ECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKSTGGKLLVFQSVLPSVGIGSLSARE AEGRSNISTGDKVRDPMPAVYFFLIDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATF DSAIHFYSLKRDQQQPLMLIVPDIQDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVAD SAFGAAMKASFLAMKSTGGKLLVFQSVLPSVGIGSLSAREAEGRSNISTGDKVRDPMPAVYFFL IDVSMNAIQTGATAAACSAISQALSDLPEGPRTMVGIATFDSAIHFYSLKRDQQQPLMLIVPDI QDVYTPLQTDLILLISECRENLEQLLESIPNMFENNRVADSAFGAAMKASFLAMKSTGGKLLVF QSVLPSVGIGSLSAREAEGRSNISTGDK(-)
Sponge-miRNAs	osa-miR1859
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0430000_circ_g.3

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