Plant Circular RNA Database

Detail information of Os06g0367100_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os06g0367100_circ_g.7
					
						ID in PlantcircBase
						osa_circ_030807
					
						Alias
						Os_ciR4901
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 15355190-15364347  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os06g0367100						
					
						Parent gene annotation
						
							Glycoside hydrolase, subgroup, catalytic core domain containing 
protein. (Os06t0367100-01);Similar to starch branching enzyme II
I. (Os06t0367100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0367100_circ_g.5 Os06g0367100_circ_g.6 Os06g0367100_circ_g.8 						
					
						Support reads
						4/1
					
						Tissues
						root/shoot, 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
						Os06t0367100-02:5
Os06t0367100-01:5

General Information
CircRNA Name	Os06g0367100_circ_g.7
ID in PlantcircBase	osa_circ_030807
Alias	Os_ciR4901
Organism	Oryza sativa
Position	chr6: 15355190-15364347 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
Parent gene	Os06g0367100
Parent gene annotation	Glycoside hydrolase, subgroup, catalytic core domain containing protein. (Os06t0367100-01);Similar to starch branching enzyme II I. (Os06t0367100-02)
Parent gene strand	+
Alternative splicing	Os06g0367100_circ_g.5 Os06g0367100_circ_g.6 Os06g0367100_circ_g.8
Support reads	4/1
Tissues	root/shoot, 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	Os06t0367100-02:5 Os06t0367100-01:5

			
						 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  
						
							ATTGTTGATAGACCAAGCAATTCGGGTCCTCAGAAGACGGAACTTCTCTGTTAATATCTGAACT
CTTGCAAACTTAAAGATTCGCATGGCAAAAACTGAGgatatcatgagcttagatggcaaagaga
ggctaatttctgggggttcacccattgttcatcactgtgatgacactagcatggtatgtacatc
ttttgtta

						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: 140
Transcript exons: 15355190-15355261,15364280-15364347
GATATCATGAGCTTAGATGGCAAAGAGAGGCTAATTTCTGGGGGTTCACCCATTGTTCATCACT
GTGATGACGAAGACGGAACTTCTCTGTTAATATCTGAACTCTTGCAAACTTAAAGATTCGCATG
GCAAAAACTGAG
Transcript length: 476
Transcript exons: 15355190-15355270,15362456-15362560,15363847-15363932,15
364035-15364089,15364199-15364347
GATATCATGAGCTTAGATGGCAAAGAGAGGCTAATTTCTGGGGGTTCACCCATTGTTCATCACT
GTGATGACACTAGCATGATCATATATTTTACTAGAGGACCTTTCCTTTTTGTTTTCAATTTCAA
TCCTGACGCCTCCTATCAGCTCTATTCTGTTGGTGTGGATGAAGCTGGTGAATATCAGCTTATA
TTGAACACAGATGAAACTAAATATGGTGGACGTGGGGAGCTGACGAGCAATCAATATATGAAAA
GAACCAGTGACAATAGGGTTGGTGGTTGCCGCAACTCCTTGGAATTGACATTACCATCTAGGAG
TGCTCAGGTATTCAAGTTGGTCCGAATTTTGAGAATTTAGATTCTCAAGGATGAGCATTGTTGA
TAGACCAAGCAATTCGGGTCCTCAGAAGACGGAACTTCTCTGTTAATATCTGAACTCTTGCAAA
CTTAAAGATTCGCATGGCAAAAACTGAG
						
						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	ATTGTTGATAGACCAAGCAATTCGGGTCCTCAGAAGACGGAACTTCTCTGTTAATATCTGAACT CTTGCAAACTTAAAGATTCGCATGGCAAAAACTGAGgatatcatgagcttagatggcaaagaga ggctaatttctgggggttcacccattgttcatcactgtgatgacactagcatggtatgtacatc ttttgtta
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: 140 Transcript exons: 15355190-15355261,15364280-15364347 GATATCATGAGCTTAGATGGCAAAGAGAGGCTAATTTCTGGGGGTTCACCCATTGTTCATCACT GTGATGACGAAGACGGAACTTCTCTGTTAATATCTGAACTCTTGCAAACTTAAAGATTCGCATG GCAAAAACTGAG Transcript length: 476 Transcript exons: 15355190-15355270,15362456-15362560,15363847-15363932,15 364035-15364089,15364199-15364347 GATATCATGAGCTTAGATGGCAAAGAGAGGCTAATTTCTGGGGGTTCACCCATTGTTCATCACT GTGATGACACTAGCATGATCATATATTTTACTAGAGGACCTTTCCTTTTTGTTTTCAATTTCAA TCCTGACGCCTCCTATCAGCTCTATTCTGTTGGTGTGGATGAAGCTGGTGAATATCAGCTTATA TTGAACACAGATGAAACTAAATATGGTGGACGTGGGGAGCTGACGAGCAATCAATATATGAAAA GAACCAGTGACAATAGGGTTGGTGGTTGCCGCAACTCCTTGGAATTGACATTACCATCTAGGAG TGCTCAGGTATTCAAGTTGGTCCGAATTTTGAGAATTTAGATTCTCAAGGATGAGCATTGTTGA TAGACCAAGCAATTCGGGTCCTCAGAAGACGGAACTTCTCTGTTAATATCTGAACTCTTGCAAA CTTAAAGATTCGCATGGCAAAAACTGAG
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
						0.297421102

Conservation Information
Conserved circRNAs	NA
PMCS	0.297421102

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15364334-15364228(+)
15355244-15364238(-)
						
						Potential amino acid sequence
						
							MAKTEDIMSLDGKERLISGGSPIVHHCDDTSMIIYFTRGPFLFVFNFNPDASYQLYSVGVDEAG
EYQLILNTDETKYGGRGELTSNQYMKRTSDNRVGGCRNSLELTLPSRSAQVFKLVRILRI*(+)
MGEPPEISLSLPSKLMISSVFAMRIFKFARVQILTEKFRLLRTRIAWSINNAHP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15364334-15364228(+) 15355244-15364238(-)
Potential amino acid sequence	MAKTEDIMSLDGKERLISGGSPIVHHCDDTSMIIYFTRGPFLFVFNFNPDASYQLYSVGVDEAG EYQLILNTDETKYGGRGELTSNQYMKRTSDNRVGGCRNSLELTLPSRSAQVFKLVRILRI(+) MGEPPEISLSLPSKLMISSVFAMRIFKFARVQILTEKFRLLRTRIAWSINNAHP(-)
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 Os06g0367100_circ_g.7

Address

Any questions?

Supported by