Plant Circular RNA Database

Detail information of Os04g0507500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0507500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_024511
					
						Alias
						Os_ciR9452
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 25351101-25352477  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0507500						
					
						Parent gene annotation
						
							Armadillo-like helical domain containing protein. (Os04t0507500-
01);Similar to OSIGBa0157A06.7 protein. (Os04t0507500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0507500_circ_g.1 Os04g0507500_circ_g.3 Os04g0507500_circ_g.4 Os04g0507500_circ_g.5 Os04g0507500_circ_g.6 Os04g0507500_circ_g.7 Os04g0507500_circ_g.8 Os04g0507500_circ_g.9 Os04g0507500_circ_g.10 Os04g0507500_circ_g.11 						
					
						Support reads
						2/2
					
						Tissues
						root/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
						Os04t0507500-02:1
Os04t0507500-01:5

General Information
CircRNA Name	Os04g0507500_circ_g.2
ID in PlantcircBase	osa_circ_024511
Alias	Os_ciR9452
Organism	Oryza sativa
Position	chr4: 25351101-25352477 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0507500
Parent gene annotation	Armadillo-like helical domain containing protein. (Os04t0507500- 01);Similar to OSIGBa0157A06.7 protein. (Os04t0507500-02)
Parent gene strand	-
Alternative splicing	Os04g0507500_circ_g.1 Os04g0507500_circ_g.3 Os04g0507500_circ_g.4 Os04g0507500_circ_g.5 Os04g0507500_circ_g.6 Os04g0507500_circ_g.7 Os04g0507500_circ_g.8 Os04g0507500_circ_g.9 Os04g0507500_circ_g.10 Os04g0507500_circ_g.11
Support reads	2/2
Tissues	root/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	Os04t0507500-02:1 Os04t0507500-01:5

			
						 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  
						
							TGTTGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAG
CACCTCAAGCACAGCCGTTAAGATTTGATTGAAATActttcgaacatcagggctttggttacta
aaagcatcaaacagtgctggcaaaaatgtgggcaactgattcatcaattcctcctcggaaagcc
gtccaaca

									
								

					

						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: 420
Transcript exons: 25351101-25351202,25351882-25351950,25352057-25352125,25
352214-25352288,25352373-25352477
CTTTCGAACATCAGGGCTTTGGTTACTAAAAGCATCAAACAGTGCTGGCAAAAATGTGGGCAAC
TGATTCATCAATTCCTCCTCGGAAAGCCGTCCAACAAGCTTTGTCAAGGAGTTGATACACACAA
CAAGTGTCTTTTCATCATCACTGACCAATAGAGGCACCACAACAGCAAGACATCTGAAAGGATC
ATATTTTGCTAACAGAACATTTAAGCACTGGTTTGCCTCATTTGAAATCTTTGCCACCATGTCT
TTGGTAACATGCAGAAGTTTCTCCAGAACAATTTCAATAGATTCTTCCATAGCACCACTCTGAT
TGTTGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAG
CACCTCAAGCACAGCCGTTAAGATTTGATTGAAATA
						
					

						Genomic sequence
						
							CTTTCGAACATCAGGGCTTTGGTTACTAAAAGCATCAAACAGTGCTGGCAAAAATGTGGGCAAC
TGATTCATCAATTCCTCCTCGGAAAGCCGTCCAACAAGCTGCAAGATTATCCAAACAGAACCAG
CAGTCAACAACACTTGCTAAAATTATATTTGGTTTACCGGTTTTTAATCAGTCGGAGACACAAT
GCCTAGATGCTAGAGGTGTGCCAATCCAATTGTTTTATTCAAATACATATGATTCATGTGTCCT
ATGCAGGGCATACATTTACGAACACACGATTAGTTTATTGGCCGCATTCTTCCGCACAAAGTAG
TAGAATGGCGTATATACTCAAACAACAGGTTGAAGAATTCAAGAAAGGGGCATCTACAAGACTA
CAACCCACTAAATTGTAACATTGAACGCTAAAGCAATTCAGATATGTTGCAATCTGACCACTTA
CCAGAGTACCCCCCCAAAAAAATCATAATATATACATGGAACTGAGAAAAAAGCACTTGCACAA
GAGATCAGGAAATCTAACCAAAGGATGTGTAATACGTTAGGTTTGGTGGAGCAAAATAACTGAT
AGGACAACTCAGCAGAGAGTAATTATATTATCAATTGATGCTATTTACAAAAGATCAGATATAT
AAAGAACATATGATATGAACTTATTCACTAAAGAACCATGGCACCATGAAGTTTATATGTTATA
TTGTTATTATGTGCCATTCAAACTTAAATGGGAAACGCTCAAACAGTAAACAGGGAAAAACTGC
AGGTACGAGACACCTTTGTCAAGGAGTTGATACACACAACAAGTGTCTTTTCATCATCACTGAC
CAATAGAGGCACCACAACCTGCAGTGGAAAAAAAATCATGAAAATTAAGATAAAGCCAACTACA
ATTAGTAGAACAGGAAGTAGCAGTGGTACATAAGACATAAGAGAAGTAGTTTGTACATACAGCA
AGACATCTGAAAGGATCATATTTTGCTAACAGAACATTTAAGCACTGGTTTGCCTCATTTGAAA
TCTGCAATGCCACAAAGAATCTTAACACATAGAAGACGCCAAGGAGAACAGTTCTAGAGTTATA
ATGTATATATCAAAGGCATGCATACCTTTGCCACCATGTCTTTGGTAACATGCAGAAGTTTCTC
CAGAACAATTTCAATAGATTCTTCCATAGCACCACTCTGACAGCACAATAGTCATCAGTAATTA
GAAGTATGAAGCAATTAACTAACTTAACCTGTTCATCAACACAAAATTCTGGATACCTGATTGT
TGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAGCAC
CTCAAGCACAGCCGTTAAGATTTGATTGAAATA
						
					

			
		

Sequences
Splice junction sequence	TGTTGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAG CACCTCAAGCACAGCCGTTAAGATTTGATTGAAATActttcgaacatcagggctttggttacta aaagcatcaaacagtgctggcaaaaatgtgggcaactgattcatcaattcctcctcggaaagcc gtccaaca
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: 420 Transcript exons: 25351101-25351202,25351882-25351950,25352057-25352125,25 352214-25352288,25352373-25352477 CTTTCGAACATCAGGGCTTTGGTTACTAAAAGCATCAAACAGTGCTGGCAAAAATGTGGGCAAC TGATTCATCAATTCCTCCTCGGAAAGCCGTCCAACAAGCTTTGTCAAGGAGTTGATACACACAA CAAGTGTCTTTTCATCATCACTGACCAATAGAGGCACCACAACAGCAAGACATCTGAAAGGATC ATATTTTGCTAACAGAACATTTAAGCACTGGTTTGCCTCATTTGAAATCTTTGCCACCATGTCT TTGGTAACATGCAGAAGTTTCTCCAGAACAATTTCAATAGATTCTTCCATAGCACCACTCTGAT TGTTGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAG CACCTCAAGCACAGCCGTTAAGATTTGATTGAAATA
Genomic sequence	CTTTCGAACATCAGGGCTTTGGTTACTAAAAGCATCAAACAGTGCTGGCAAAAATGTGGGCAAC TGATTCATCAATTCCTCCTCGGAAAGCCGTCCAACAAGCTGCAAGATTATCCAAACAGAACCAG CAGTCAACAACACTTGCTAAAATTATATTTGGTTTACCGGTTTTTAATCAGTCGGAGACACAAT GCCTAGATGCTAGAGGTGTGCCAATCCAATTGTTTTATTCAAATACATATGATTCATGTGTCCT ATGCAGGGCATACATTTACGAACACACGATTAGTTTATTGGCCGCATTCTTCCGCACAAAGTAG TAGAATGGCGTATATACTCAAACAACAGGTTGAAGAATTCAAGAAAGGGGCATCTACAAGACTA CAACCCACTAAATTGTAACATTGAACGCTAAAGCAATTCAGATATGTTGCAATCTGACCACTTA CCAGAGTACCCCCCCAAAAAAATCATAATATATACATGGAACTGAGAAAAAAGCACTTGCACAA GAGATCAGGAAATCTAACCAAAGGATGTGTAATACGTTAGGTTTGGTGGAGCAAAATAACTGAT AGGACAACTCAGCAGAGAGTAATTATATTATCAATTGATGCTATTTACAAAAGATCAGATATAT AAAGAACATATGATATGAACTTATTCACTAAAGAACCATGGCACCATGAAGTTTATATGTTATA TTGTTATTATGTGCCATTCAAACTTAAATGGGAAACGCTCAAACAGTAAACAGGGAAAAACTGC AGGTACGAGACACCTTTGTCAAGGAGTTGATACACACAACAAGTGTCTTTTCATCATCACTGAC CAATAGAGGCACCACAACCTGCAGTGGAAAAAAAATCATGAAAATTAAGATAAAGCCAACTACA ATTAGTAGAACAGGAAGTAGCAGTGGTACATAAGACATAAGAGAAGTAGTTTGTACATACAGCA AGACATCTGAAAGGATCATATTTTGCTAACAGAACATTTAAGCACTGGTTTGCCTCATTTGAAA TCTGCAATGCCACAAAGAATCTTAACACATAGAAGACGCCAAGGAGAACAGTTCTAGAGTTATA ATGTATATATCAAAGGCATGCATACCTTTGCCACCATGTCTTTGGTAACATGCAGAAGTTTCTC CAGAACAATTTCAATAGATTCTTCCATAGCACCACTCTGACAGCACAATAGTCATCAGTAATTA GAAGTATGAAGCAATTAACTAACTTAACCTGTTCATCAACACAAAATTCTGGATACCTGATTGT TGAGCATCTCGGCAACTAAAGACAGAGCAATCTCCCTAGTAGATGAATCAGAATCATCCAGCAC CTCAAGCACAGCCGTTAAGATTTGATTGAAATA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144745643

Conservation Information
Conserved circRNAs	NA
PMCS	0.144745643

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25352389-25351103(-)
						
						Potential amino acid sequence
						
							MLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLNVLLAKYDPFRCLAVVVPLLVSDDE
KTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQSPDVRKYFNQILTAVLEVLDDSDS
STREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLNVLLAKYDPFRCL
AVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQSPDVRKYFNQIL
TAVLEVLDDSDSSTREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLN
VLLAKYDPFRCLAVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQ
SPDVRKYFNQILTAVLEVLDDSDSSTREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMV
AKISNEANQCLNVLLAKYDPFRCLAVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPT
FLPALFDAFSNQSPDVRK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25352389-25351103(-)
Potential amino acid sequence	MLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLNVLLAKYDPFRCLAVVVPLLVSDDE KTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQSPDVRKYFNQILTAVLEVLDDSDS STREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLNVLLAKYDPFRCL AVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQSPDVRKYFNQIL TAVLEVLDDSDSSTREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMVAKISNEANQCLN VLLAKYDPFRCLAVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPTFLPALFDAFSNQ SPDVRKYFNQILTAVLEVLDDSDSSTREIALSLVAEMLNNQSGAMEESIEIVLEKLLHVTKDMV AKISNEANQCLNVLLAKYDPFRCLAVVVPLLVSDDEKTLVVCINSLTKLVGRLSEEELMNQLPT FLPALFDAFSNQSPDVRK(-)
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 Os04g0507500_circ_g.2

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