Plant Circular RNA Database

Detail information of Os08g0517200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os08g0517200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_037688
					
						Alias
						Os_ciR11563
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 25654454-25654994  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os08g0517200						
					
						Parent gene annotation
						
							Similar to autoinhibited calcium ATPase. (Os08t0517200-01);Simil
ar to Cation transporting ATPase, C-terminal. (Os08t0517200-02);
Similar to P-type ATPase (Fragment). (Os08t0517200-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0517200_circ_g.2 Os08g0517200_circ_g.3 Os08g0517200_circ_g.5 Os08g0517200_circ_g.6 Os08g0517200_circ_g.7 						
					
						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
						Os08t0517200-03:3
Os08t0517200-01:3
Os08t0517200-02:3

General Information
CircRNA Name	Os08g0517200_circ_g.4
ID in PlantcircBase	osa_circ_037688
Alias	Os_ciR11563
Organism	Oryza sativa
Position	chr8: 25654454-25654994 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os08g0517200
Parent gene annotation	Similar to autoinhibited calcium ATPase. (Os08t0517200-01);Simil ar to Cation transporting ATPase, C-terminal. (Os08t0517200-02); Similar to P-type ATPase (Fragment). (Os08t0517200-03)
Parent gene strand	-
Alternative splicing	Os08g0517200_circ_g.2 Os08g0517200_circ_g.3 Os08g0517200_circ_g.5 Os08g0517200_circ_g.6 Os08g0517200_circ_g.7
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	Os08t0517200-03:3 Os08t0517200-01:3 Os08t0517200-02:3

			
						 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  
						
							TTCGACCAACAGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGC
TCCCAGTGTATCCATGATTAGATTTACCCAGAGAAGctggcaaaagacaaaggtgttgaagata
aaggtgttttgtgttttctcagcatcctcccgactatcattctgtaaccgcagtatgcttcttc
cagaaaaa

						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: 282
Transcript exons: 25654454-25654588,25654685-25654729,25654893-25654994
CTGGCAAAAGACAAAGGTGTTGAAGATAAAGGTGTTTTGTGTTTTCTCAGCATCCTCCCGACTA
TCATTCTGTAACCGCAGTATGCTTCTTCCAGAAAAATCAAAGATAAGAAGGATCGCTATTTGGT
AAATGGCCTGGACAAACAAGTTTCGCCACATAATATTAGTCACAAGAGGTTCCCTTCGACCAAC
AGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGCTCCCAGTGTA
TCCATGATTAGATTTACCCAGAGAAG
						
						Genomic sequence
						
							CTGGCAAAAGACAAAGGTGTTGAAGATAAAGGTGTTTTGTGTTTTCTCAGCATCCTCCCGACTA
TCATTCTGTAACCGCAGTATGCTTCTTCCAGAAAAATCAAAGATAAGAAGGATCGCTATTTGGT
AAATGGCCTGCAAAAGATTAAAATATATCAGAATAACAAAAGAAGATCCAACATTACTCAATTA
TCTGCTGAAGACATACAGTTGAGTTGCTTAAATTCTAACCTGGACAAACAAGTTTCGCCACATA
ATATTAGTCACAAGAGGTTCCCTGAAATAGCGAAAGATGGTTAGTATTGTGAGTTATCTCAAGA
ACAGTTCAAATTATATCTCTCCAGAATGGCACAGCTTGGGACACCACTCAAAAAGTTCAGCGTC
CATCATACTCAGTAACATGTAAATACAATAGCAATGGTCAGGGAAAATTTACATGCCTTCGACC
AACAGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGCTCCCAGT
GTATCCATGATTAGATTTACCCAGAGAAG

Sequences
Splice junction sequence	TTCGACCAACAGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGC TCCCAGTGTATCCATGATTAGATTTACCCAGAGAAGctggcaaaagacaaaggtgttgaagata aaggtgttttgtgttttctcagcatcctcccgactatcattctgtaaccgcagtatgcttcttc cagaaaaa
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: 282 Transcript exons: 25654454-25654588,25654685-25654729,25654893-25654994 CTGGCAAAAGACAAAGGTGTTGAAGATAAAGGTGTTTTGTGTTTTCTCAGCATCCTCCCGACTA TCATTCTGTAACCGCAGTATGCTTCTTCCAGAAAAATCAAAGATAAGAAGGATCGCTATTTGGT AAATGGCCTGGACAAACAAGTTTCGCCACATAATATTAGTCACAAGAGGTTCCCTTCGACCAAC AGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGCTCCCAGTGTA TCCATGATTAGATTTACCCAGAGAAG
Genomic sequence	CTGGCAAAAGACAAAGGTGTTGAAGATAAAGGTGTTTTGTGTTTTCTCAGCATCCTCCCGACTA TCATTCTGTAACCGCAGTATGCTTCTTCCAGAAAAATCAAAGATAAGAAGGATCGCTATTTGGT AAATGGCCTGCAAAAGATTAAAATATATCAGAATAACAAAAGAAGATCCAACATTACTCAATTA TCTGCTGAAGACATACAGTTGAGTTGCTTAAATTCTAACCTGGACAAACAAGTTTCGCCACATA ATATTAGTCACAAGAGGTTCCCTGAAATAGCGAAAGATGGTTAGTATTGTGAGTTATCTCAAGA ACAGTTCAAATTATATCTCTCCAGAATGGCACAGCTTGGGACACCACTCAAAAAGTTCAGCGTC CATCATACTCAGTAACATGTAAATACAATAGCAATGGTCAGGGAAAATTTACATGCCTTCGACC AACAGGCTGTCTCTTCATAAGGTTATCCGTCGGTGGTTCAGTTGCTAAAGCCAGAGCTCCCAGT GTATCCATGATTAGATTTACCCAGAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.290392098

Conservation Information
Conserved circRNAs	NA
PMCS	0.290392098

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25654585-25654580(+)
25654975-25654456(-)
25654523-25654984(-)
						
						Potential amino acid sequence
						
							MAWTNKFRHIILVTRGSLRPTGCLFIRLSVGGSVAKARAPSVSMIRFTQRSWQKTKVLKIKVFC
VFSASSRLSFCNRSMLLPEKSKIRRIAIW*(+)
MDTLGALALATEPPTDNLMKRQPVGRREPLVTNIMWRNLFVQAIYQIAILLIFDFSGRSILRLQ
NDSREDAEKTQNTFIFNTFVFCQLLWVNLIMDTLGALALATEPPTDNLMKRQPVGRREPLVTNI
MWRNLFVQAIYQIAILLIFDFSGRSILRLQNDSREDAEKTQNTFIFNTFVFCQLLWVNLIMDTL
GALALATEPPTDNLMKRQPVGRREPLVTNIMWRNLFVQAIYQIAILLIFDFSGRSILRLQNDSR
EDAEKTQNTFIFNTFVFCQLLWVNLIMDTLGALALATEPPTDNLMKRQPVGRREPLVTNIMWRN
LFVQAIYQIAILLIFDFSGRSILRLQNDSREDAEKTQNTFIFNTFVFCQ(-)
MIVGRMLRKHKTPLSSTPLSFASFSG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25654585-25654580(+) 25654975-25654456(-) 25654523-25654984(-)
Potential amino acid sequence	MAWTNKFRHIILVTRGSLRPTGCLFIRLSVGGSVAKARAPSVSMIRFTQRSWQKTKVLKIKVFC VFSASSRLSFCNRSMLLPEKSKIRRIAIW(+) MDTLGALALATEPPTDNLMKRQPVGRREPLVTNIMWRNLFVQAIYQIAILLIFDFSGRSILRLQ NDSREDAEKTQNTFIFNTFVFCQLLWVNLIMDTLGALALATEPPTDNLMKRQPVGRREPLVTNI MWRNLFVQAIYQIAILLIFDFSGRSILRLQNDSREDAEKTQNTFIFNTFVFCQLLWVNLIMDTL GALALATEPPTDNLMKRQPVGRREPLVTNIMWRNLFVQAIYQIAILLIFDFSGRSILRLQNDSR EDAEKTQNTFIFNTFVFCQLLWVNLIMDTLGALALATEPPTDNLMKRQPVGRREPLVTNIMWRN LFVQAIYQIAILLIFDFSGRSILRLQNDSREDAEKTQNTFIFNTFVFCQ(-) MIVGRMLRKHKTPLSSTPLSFASFSG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os08g0517200_circ_g.4

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