Plant Circular RNA Database

Detail information of Os07g0657200_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os07g0657200_circ_g.5
					
						ID in PlantcircBase
						osa_circ_035082
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 27658126-27659246  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os07g0657200						
					
						Parent gene annotation
						
							WD40/YVTN repeat-like domain containing protein. (Os07t0657200-0
1);WD40/YVTN repeat-like domain containing protein. (Os07t065720
0-02);Similar to Sec31p. (Os07t0657200-03);Similar to Sec31p. (O
s07t0657200-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0657200_circ_g.6 						
					
						Support reads
						6
					
						Tissues
						seed
					
						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
						Os07t0657200-01:4
Os07t0657200-02:4

General Information
CircRNA Name	Os07g0657200_circ_g.5
ID in PlantcircBase	osa_circ_035082
Alias	NA
Organism	Oryza sativa
Position	chr7: 27658126-27659246 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os07g0657200
Parent gene annotation	WD40/YVTN repeat-like domain containing protein. (Os07t0657200-0 1);WD40/YVTN repeat-like domain containing protein. (Os07t065720 0-02);Similar to Sec31p. (Os07t0657200-03);Similar to Sec31p. (O s07t0657200-04)
Parent gene strand	+
Alternative splicing	Os07g0657200_circ_g.6
Support reads	6
Tissues	seed
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	Os07t0657200-01:4 Os07t0657200-02:4

			
						 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  
						
							TGTACAAGTACAGCACTAATTAGTTATCTGAAATTCGGTATATTTCTTTTACAGTTCTCTGGCC
TTTATGCAGCTGGTGATAGTGCTATTGGTGCCCCAGgtttgggatgtgaggaaaaccatttcac
cagtaagagaatttgtgggacactcaaaaggtcttatttcccttgctcttctcctaatattttt
cgtcaaat

						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
						
							GTTTGGGATGTGAGGAAAACCATTTCACCAGTAAGAGAATTTGTGGGACACTCAAAAGGTCTTA
TTTCCCTTGCTCTTCTCCTAATATTTTTCGTCAAATACATAATGATGCACGCAAATATACTCCA
TTCTTATTTGTCTTCTTTTATATTTTGCAGGTGTAATTGCTATGTCGTGGTGCCCCTATGATAG
TTCATACTTGCTTACCTGTTCTAAAGATAATAGAACAATATGCTGGGATACTGTTAGTGGAGAG
GTACATTATGACAGTAACATTCTCAAAAGCTGAAACTACATAAATATATTGTTTCACCAATACT
GTTATTTAACACGTGTATCCTGTACATTGCATTATTTATTACAGATTATGAGTGAGCTACCAGC
AAGCTCAAACGGTAACTTCGACATTCACTGGTATCGAAAAATACCAGGTGTTGTTGCAGCATCC
TCATTTGATGTGAAAATCGGCATATACAACTTAGAGGTAATATATTTGTTTTCCGTGAATTGAT
GATTATACCAATCCATCATGTCTTTTGTGATACATTAAGAGTGTTGCAGGCTTGATTTTCTTTC
AACTCCTAGCCTTCTCAGTGTTATATTAAAATGGGTTACTTTACTAATTGTGTGCTACCAGAAA
TTTAGCCTGTCATGTGTGAACTTGAATTGAATTAAAGTTTAACTGAACTAAGTTTGTTCTGTTG
GATGAAAATTGAACATCATGCTTGTTCTGGATGAGCAATTCTCCTATAACATCATATTATCTTT
GCCAGTTTTTAAATCATTCTTCTCAATAGTAATCCCCATGTTGAAGTCTTAAATCCCTGCTTTT
CATTTGAAAGATAAACCTGGAAGGTTAAAGCTTTTCAACATATGGGATGTAAAAATGCTTATAC
ATTGATTCGTTGGTTGGACACATGAAGGTTATATTTTCCAGTGCACACTTATCACAATGACTTC
ATTCTGCATCACTCTTAGTATGCTAGGTTCATATGGGGCCTACCAGTTCTTCCATGTTTAGTGT
ACAAGTACAGCACTAATTAGTTATCTGAAATTCGGTATATTTCTTTTACAGTTCTCTGGCCTTT
ATGCAGCTGGTGATAGTGCTATTGGTGCCCCAG

Sequences
Splice junction sequence	TGTACAAGTACAGCACTAATTAGTTATCTGAAATTCGGTATATTTCTTTTACAGTTCTCTGGCC TTTATGCAGCTGGTGATAGTGCTATTGGTGCCCCAGgtttgggatgtgaggaaaaccatttcac cagtaagagaatttgtgggacactcaaaaggtcttatttcccttgctcttctcctaatattttt cgtcaaat
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	GTTTGGGATGTGAGGAAAACCATTTCACCAGTAAGAGAATTTGTGGGACACTCAAAAGGTCTTA TTTCCCTTGCTCTTCTCCTAATATTTTTCGTCAAATACATAATGATGCACGCAAATATACTCCA TTCTTATTTGTCTTCTTTTATATTTTGCAGGTGTAATTGCTATGTCGTGGTGCCCCTATGATAG TTCATACTTGCTTACCTGTTCTAAAGATAATAGAACAATATGCTGGGATACTGTTAGTGGAGAG GTACATTATGACAGTAACATTCTCAAAAGCTGAAACTACATAAATATATTGTTTCACCAATACT GTTATTTAACACGTGTATCCTGTACATTGCATTATTTATTACAGATTATGAGTGAGCTACCAGC AAGCTCAAACGGTAACTTCGACATTCACTGGTATCGAAAAATACCAGGTGTTGTTGCAGCATCC TCATTTGATGTGAAAATCGGCATATACAACTTAGAGGTAATATATTTGTTTTCCGTGAATTGAT GATTATACCAATCCATCATGTCTTTTGTGATACATTAAGAGTGTTGCAGGCTTGATTTTCTTTC AACTCCTAGCCTTCTCAGTGTTATATTAAAATGGGTTACTTTACTAATTGTGTGCTACCAGAAA TTTAGCCTGTCATGTGTGAACTTGAATTGAATTAAAGTTTAACTGAACTAAGTTTGTTCTGTTG GATGAAAATTGAACATCATGCTTGTTCTGGATGAGCAATTCTCCTATAACATCATATTATCTTT GCCAGTTTTTAAATCATTCTTCTCAATAGTAATCCCCATGTTGAAGTCTTAAATCCCTGCTTTT CATTTGAAAGATAAACCTGGAAGGTTAAAGCTTTTCAACATATGGGATGTAAAAATGCTTATAC ATTGATTCGTTGGTTGGACACATGAAGGTTATATTTTCCAGTGCACACTTATCACAATGACTTC ATTCTGCATCACTCTTAGTATGCTAGGTTCATATGGGGCCTACCAGTTCTTCCATGTTTAGTGT ACAAGTACAGCACTAATTAGTTATCTGAAATTCGGTATATTTCTTTTACAGTTCTCTGGCCTTT ATGCAGCTGGTGATAGTGCTATTGGTGCCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159818406

Conservation Information
Conserved circRNAs	NA
PMCS	0.159818406

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27658296-27658311(+)
27659215-27658311(+)
27658150-27658606(-)
						
						Potential amino acid sequence
						
							MSWCPYDSSYLLTCSKDNRTICWDTVSGEIMSELPASSNGNFDIHWYRKIPGVVAASSFDVKIG
IYNLEFSGLYAAGDSAIGAPGLGCEENHFTSKRICGTLKRCNCYVVVPL*(+)
MQLVIVLLVPQVWDVRKTISPVREFVGHSKGVIAMSWCPYDSSYLLTCSKDNRTICWDTVSGEI
MSELPASSNGNFDIHWYRKIPGVVAASSFDVKIGIYNLEFSGLYAAGDSAIGAPGLGCEENHFT
SKRICGTLKRCNCYVVVPL*(+)
MVFLTSQTWGTNSTITSCIKAREL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27658296-27658311(+) 27659215-27658311(+) 27658150-27658606(-)
Potential amino acid sequence	MSWCPYDSSYLLTCSKDNRTICWDTVSGEIMSELPASSNGNFDIHWYRKIPGVVAASSFDVKIG IYNLEFSGLYAAGDSAIGAPGLGCEENHFTSKRICGTLKRCNCYVVVPL(+) MQLVIVLLVPQVWDVRKTISPVREFVGHSKGVIAMSWCPYDSSYLLTCSKDNRTICWDTVSGEI MSELPASSNGNFDIHWYRKIPGVVAASSFDVKIGIYNLEFSGLYAAGDSAIGAPGLGCEENHFT SKRICGTLKRCNCYVVVPL(+) MVFLTSQTWGTNSTITSCIKAREL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0657200_circ_g.5

Address

Any questions?

Supported by