Plant Circular RNA Database

Detail information of Os09g0128600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0128600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_038481
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 2212681-2220171  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os09g0128600						
					
						Parent gene annotation
						
							CMP/dCMP deaminase, zinc-binding domain containing protein. (Os0
9t0128600-01);Similar to hydrolase/ zinc ion binding protein. (O
s09t0128600-02);Non-protein coding transcript. (Os09t0128600-03)
;Similar to hydrolase/ zinc ion binding protein. (Os09t0128600-0
4);Similar to hydrolase/ zinc ion binding protein. (Os09t0128600
-05)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0128600_circ_g.2 Os09g0128600_circ_g.3 						
					
						Support reads
						1
					
						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  
						
							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
						Os09t0128600-04:7
Os09t0128600-01:8
Os09t0128600-05:4
Os09t0128600-02:4

General Information
CircRNA Name	Os09g0128600_circ_g.1
ID in PlantcircBase	osa_circ_038481
Alias	NA
Organism	Oryza sativa
Position	chr9: 2212681-2220171 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os09g0128600
Parent gene annotation	CMP/dCMP deaminase, zinc-binding domain containing protein. (Os0 9t0128600-01);Similar to hydrolase/ zinc ion binding protein. (O s09t0128600-02);Non-protein coding transcript. (Os09t0128600-03) ;Similar to hydrolase/ zinc ion binding protein. (Os09t0128600-0 4);Similar to hydrolase/ zinc ion binding protein. (Os09t0128600 -05)
Parent gene strand	-
Alternative splicing	Os09g0128600_circ_g.2 Os09g0128600_circ_g.3
Support reads	1
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	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	Os09t0128600-04:7 Os09t0128600-01:8 Os09t0128600-05:4 Os09t0128600-02:4

			
						 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  
						
							TTGAATAAAACAGAAACCTGTAGAGCCACGGAGGGAGGGAGTTGGGTTGCCTGGGACCTCAGTG
AGTTCCCATGCCATGAAGACCAATTCGCAAGGTAAAattgagcaaggttcccagactaggtaaa
tgtcaaatcctgtacaaaggtatggtctggtttctgacaagtcatcgcagattgcttcatgtgc
aatttttt

						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	TTGAATAAAACAGAAACCTGTAGAGCCACGGAGGGAGGGAGTTGGGTTGCCTGGGACCTCAGTG AGTTCCCATGCCATGAAGACCAATTCGCAAGGTAAAattgagcaaggttcccagactaggtaaa tgtcaaatcctgtacaaaggtatggtctggtttctgacaagtcatcgcagattgcttcatgtgc aatttttt
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
						0.092710377

Conservation Information
Conserved circRNAs	NA
PMCS	0.092710377

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							2219962-2212704(+)
2220151-2212683(-)
						
					

						Potential amino acid sequence
						
							MRLLANLGSILAAITSTVEPRREGVGLPGTSVSSHAMKTNSQGKIEQGSQTR*(+)
MAWELTEVPGNPTPSLRGSTVEVIAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEK
SELSIILCLATGPEHCSEMFPQDVKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHP
PHDLDGVSGFKECELPSIFNCMRTALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKC
AELNSDSPFSSLEVTEKKGSRLFLSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGF
PWHPLRHAAIVAIENAAERDKVMFPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHE
AICDDLSETRPYLCTGFDIYLVWEPCSILPCELVFMAWELTEVPGNPTPSLRGSTVEVIAAKIE
PKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEKSELSIILCLATGPEHCSEMFPQDVKKIVG
TYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHPPHDLDGVSGFKECELPSIFNCMRTALRLS
EVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKCAELNSDSPFSSLEVTEKKGSRLFLSNSNV
SKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGFPWHPLRHAAIVAIENAAERDKVMFPSIIS
STKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHEAICDDLSETRPYLCTGFDIYLVWEPCSIL
PCELVFMAWELTEVPGNPTPSLRGSTVEVIAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRC
CEYGEKSELSIILCLATGPEHCSEMFPQDVKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLW
PTSYHPPHDLDGVSGFKECELPSIFNCMRTALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDS
LKSNKCAELNSDSPFSSLEVTEKKGSRLFLSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSL
PCEGGFPWHPLRHAAIVAIENAAERDKVMFPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDD
KKIAHEAICDDLSETRPYLCTGFDIYLVWEPCSILPCELVFMAWELTEVPGNPTPSLRGSTVEV
IAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEKSELSIILCLATGPEHCSEMFPQD
VKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHPPHDLDGVSGFKECELPSIFNCMR
TALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKCAELNSDSPFSSLEVTEKKGSRLF
LSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGFPWHPLRHAAIVAIENAAERDKVM
FPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHEAICDDLSETRPYLCTGFDIYLVW
EPCS(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	2219962-2212704(+) 2220151-2212683(-)
Potential amino acid sequence	MRLLANLGSILAAITSTVEPRREGVGLPGTSVSSHAMKTNSQGKIEQGSQTR*(+) MAWELTEVPGNPTPSLRGSTVEVIAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEK SELSIILCLATGPEHCSEMFPQDVKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHP PHDLDGVSGFKECELPSIFNCMRTALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKC AELNSDSPFSSLEVTEKKGSRLFLSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGF PWHPLRHAAIVAIENAAERDKVMFPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHE AICDDLSETRPYLCTGFDIYLVWEPCSILPCELVFMAWELTEVPGNPTPSLRGSTVEVIAAKIE PKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEKSELSIILCLATGPEHCSEMFPQDVKKIVG TYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHPPHDLDGVSGFKECELPSIFNCMRTALRLS EVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKCAELNSDSPFSSLEVTEKKGSRLFLSNSNV SKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGFPWHPLRHAAIVAIENAAERDKVMFPSIIS STKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHEAICDDLSETRPYLCTGFDIYLVWEPCSIL PCELVFMAWELTEVPGNPTPSLRGSTVEVIAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRC CEYGEKSELSIILCLATGPEHCSEMFPQDVKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLW PTSYHPPHDLDGVSGFKECELPSIFNCMRTALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDS LKSNKCAELNSDSPFSSLEVTEKKGSRLFLSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSL PCEGGFPWHPLRHAAIVAIENAAERDKVMFPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDD KKIAHEAICDDLSETRPYLCTGFDIYLVWEPCSILPCELVFMAWELTEVPGNPTPSLRGSTVEV IAAKIEPKLANSLIRQLSQACPLENLRHVKRVRRCCEYGEKSELSIILCLATGPEHCSEMFPQD VKKIVGTYELNTFIAKVARFPATSKEEWEEQCKLWPTSYHPPHDLDGVSGFKECELPSIFNCMR TALRLSEVGNAAVVVNPSTMQIIAKATDQTLQHDSLKSNKCAELNSDSPFSSLEVTEKKGSRLF LSNSNVSKCNSLNMEASCLNPWGWMKPRPSEQKSLPCEGGFPWHPLRHAAIVAIENAAERDKVM FPSIISSTKPNSDGNMEYYSVNESAKRLKVDRNDDKKIAHEAICDDLSETRPYLCTGFDIYLVW EPCS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0128600_circ_g.1

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