Plant Circular RNA Database

Detail information of Os01g0110700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0110700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000119
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 564310-566928  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0110700						
					
						Parent gene annotation
						
							Similar to Phosphoenolpyruvate carboxylase (EC 4.1.1.31). (Os01t
0110700-01);Similar to Phosphoenolpyruvate carboxylase. (Os01t01
10700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						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
						Os01t0110700-02:5
Os01t0110700-01:5

General Information
CircRNA Name	Os01g0110700_circ_g.1
ID in PlantcircBase	osa_circ_000119
Alias	NA
Organism	Oryza sativa
Position	chr1: 564310-566928 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0110700
Parent gene annotation	Similar to Phosphoenolpyruvate carboxylase (EC 4.1.1.31). (Os01t 0110700-01);Similar to Phosphoenolpyruvate carboxylase. (Os01t01 10700-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
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	Os01t0110700-02:5 Os01t0110700-01:5

			
						 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  
						
							TCTTCCTTAGTTGACCTCCACTTGGAGTTCGACCCATCGGGCGATGACTAGGAGACGGCAATGG
ACTGTCTTCACGTTTTTCTGTTATGTTTAGAGCCAAatttgaggccattgaaatcacatatgct
ccaagtgcatcgcttcctaactctgcagcaacacggaatgtatcaagaacttcttgcacatcag
cagtaacc

									
								

					

						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
						
							ATTTGAGGCCATTGAAATCACATATGCTCCAAGTGCATCGCTTCCTAACTCTGCAGCAACACGG
AATGTATCAAGAACTTCTTGCACATCAGCAGTAACCTGAAAGGAATACAAAGGAAATGCAAATG
TAAGTCTTTCCACTTCAAGGTGAATCTCCATTCCCTTTTTCTCTTCTACAATGAAGTATGCAAC
CATAAAGTTGCCATTCAAATATTCTTATGTACCAACACTGCAATCCCTTTTCCTATATCTTTCT
TGTAAAAGAAAATACTCCATCCCAAAATATAAGGGATTTTGGTTGGATGTCCAAAAGAGGCGCG
GCTTTGACACCATCATTATTCTGGTCGCCTGGTCAATTTGGAAGGAACGGAATAGCCAGGCTTT
CAACAACCAACGCCGATCCTGGGGAGAAGTGGCAAACTTGGCTGCTGAAGAAGCAAGCCTATGG
CGCGCGGGGGTGCCGATCTAAGCCTCCTCGTCTAGGTTTCAGTCGCACAATTGGTTAATTGCGA
AATAACACCCTCTGCTGTGCTTTCTTTCTTTCTTTTTTTTTCTTTTCCTGGTGTTCTTGTTTTT
GCTTCCTTTATCGGTTGCGTTTGTAAGTCCACCCCTCAATCTTAATAAAAAGATATGTAAGTCT
TATGCGTATTCCCAAAAAAACTAAAATCCATGTTGAATGAACAGTGATGTTATATCTGATGCCT
CATCAAATTCTGTATAAAACATTGCTTATTCATCAGAAGTTAGCATAGTATTAACCATTTTGGC
GTTGGCGGAGGTGATACCAATCTTACCACAAAATGACTATATGGAAAGGAACTATATCTGTTTC
TGAAGGATTCTATCATACTGTTCTACACATTGAAACTCAATTGGCACTTCCTGTTTCCATGTAA
ACAAACATTCATCACAAACTAAAAAATGCTACCAATCTTACCACAAAATGATTGTGTAGTATAA
GTTTCAATTTGTGGTAAGATTGGTAGCATTTTTTAGTTTGTGATAAATGTTTGTTTGCATGGAA
GGATTTATATTGTACTGTTCCACACGATGAAACTCAATTGACACTTCTGGTTTCCATGTAAACG
AACATTTATCACAACTAAAATATAAGTTATCATTAGCCACTAGGATAGGAAATTTGATGTCTAC
ATTCAACAACTGACCTGTATGTATGGGGGGACAAGAGGGCGCTTCCCTTTCAGCTCTCTAGTCA
AGAAATCCAGTTTCTTTTGTTCATCCCACTCACTATAAACACCAAGATCCAGGTAAGATGTGAT
GGCATCAAGTGTTTCCGTATGCCGGCCTGATTCCTACAGTAATATAACGCCATTCTATTCATTA
ATGGACTACTGGACTTCGCTTGAAGCTATTCTGAAGTTACATCAGGAAAATTTAAGTGTGAGTA
AGCATAAAAACAGTAGTGATCAATGTGCCCACCTGCCGTACATCAAGCTTCATTAACACCATAC
CAAAGGTTGCAACCCGTCGAATCAAATCTGCTAACCGGCCATCCGCAAGCACACTAGATCCACA
TGATTGCTTCATAAAATAGTTGAAGATGTGAACACAGTCAGTACAAAAAGGAAATTATGTGATG
AAAAGAAACCTCCACCCACTCCATCATCAACGATTGTTCTCACAAGTCACGACTAATCAAAGCC
TAGCCAGTAAGAATGTGGAGATGGTAAAGGGCAATTTTGAAGAATGCTGAGAATGTTTGTGTCA
AATGTTTTTTTTTCTAGCACACACACAGACACACTTGCACGGATAGAATATAGTTGATCATGGT
AGTACAGCACTAAAGGGATGAGTGATCGACCCTACATCAGCTAATTAGACTAACCAGTGATTGA
TAACACAAAAGCAAGGGCTCCAAAAGTTTATCCGATGTATCATAATATTCTGAAGTATCACGAT
CACATGGTAGATCCTCAAGAAGAAGCTCGAGTCGTCTCCGTGTGTTCATCAGCTGAAAACAGAG
TGGTAAGCACAATCAAAAGGAAAAAATTTTGCCATGTTAAAAAAAATATAACAGGTCAAGAAAA
ATATAACAGATGGGTACTGTTTATACATAGCATAATCTCTTCTTGTTCTCATTGAGGTTTGTCT
TCCTACCAAAGATTGAGAGTACCTATGTCCAACTATTTGGGTATCTTTGGCATATATGTTTTTA
ATAGTAAAATGCCACATAAAATTTATCCCAAACTTTATTGCCAAAGAACAGGAGTAGAGTCTCT
GGGAATTTATTAGTGAGATTAATTTAATCCTAAAGAATATTGTACAAATTTGGTAATCAAGCAT
CCCTTAATCCAACCTCTATTAGTAGACTAGGCAATTGTTTGCCTACTTCCGGAGAAGAAAACAT
GAGACGTATAATAAATGATAAAGTATGGCTCTAACCTTTTCTTTCACATCACCAAGGACAACTC
TATAAGGAGTACTCCCTGGTCTCTCTGATATGCTTGGTTCTAGAAGTTTCCGGAAGCTCGATCG
ACCAATTTGGGATTCTGTGAACATCTTCCTTAGTTGACCTCCACTTGGAGTTCGACCCATCGGG
CGATGACTAGGAGACGGCAATGGACTGTCTTCACGTTTTTCTGTTATGTTTAGAGCCAA
						
					

			
		

Sequences
Splice junction sequence	TCTTCCTTAGTTGACCTCCACTTGGAGTTCGACCCATCGGGCGATGACTAGGAGACGGCAATGG ACTGTCTTCACGTTTTTCTGTTATGTTTAGAGCCAAatttgaggccattgaaatcacatatgct ccaagtgcatcgcttcctaactctgcagcaacacggaatgtatcaagaacttcttgcacatcag cagtaacc
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	ATTTGAGGCCATTGAAATCACATATGCTCCAAGTGCATCGCTTCCTAACTCTGCAGCAACACGG AATGTATCAAGAACTTCTTGCACATCAGCAGTAACCTGAAAGGAATACAAAGGAAATGCAAATG TAAGTCTTTCCACTTCAAGGTGAATCTCCATTCCCTTTTTCTCTTCTACAATGAAGTATGCAAC CATAAAGTTGCCATTCAAATATTCTTATGTACCAACACTGCAATCCCTTTTCCTATATCTTTCT TGTAAAAGAAAATACTCCATCCCAAAATATAAGGGATTTTGGTTGGATGTCCAAAAGAGGCGCG GCTTTGACACCATCATTATTCTGGTCGCCTGGTCAATTTGGAAGGAACGGAATAGCCAGGCTTT CAACAACCAACGCCGATCCTGGGGAGAAGTGGCAAACTTGGCTGCTGAAGAAGCAAGCCTATGG CGCGCGGGGGTGCCGATCTAAGCCTCCTCGTCTAGGTTTCAGTCGCACAATTGGTTAATTGCGA AATAACACCCTCTGCTGTGCTTTCTTTCTTTCTTTTTTTTTCTTTTCCTGGTGTTCTTGTTTTT GCTTCCTTTATCGGTTGCGTTTGTAAGTCCACCCCTCAATCTTAATAAAAAGATATGTAAGTCT TATGCGTATTCCCAAAAAAACTAAAATCCATGTTGAATGAACAGTGATGTTATATCTGATGCCT CATCAAATTCTGTATAAAACATTGCTTATTCATCAGAAGTTAGCATAGTATTAACCATTTTGGC GTTGGCGGAGGTGATACCAATCTTACCACAAAATGACTATATGGAAAGGAACTATATCTGTTTC TGAAGGATTCTATCATACTGTTCTACACATTGAAACTCAATTGGCACTTCCTGTTTCCATGTAA ACAAACATTCATCACAAACTAAAAAATGCTACCAATCTTACCACAAAATGATTGTGTAGTATAA GTTTCAATTTGTGGTAAGATTGGTAGCATTTTTTAGTTTGTGATAAATGTTTGTTTGCATGGAA GGATTTATATTGTACTGTTCCACACGATGAAACTCAATTGACACTTCTGGTTTCCATGTAAACG AACATTTATCACAACTAAAATATAAGTTATCATTAGCCACTAGGATAGGAAATTTGATGTCTAC ATTCAACAACTGACCTGTATGTATGGGGGGACAAGAGGGCGCTTCCCTTTCAGCTCTCTAGTCA AGAAATCCAGTTTCTTTTGTTCATCCCACTCACTATAAACACCAAGATCCAGGTAAGATGTGAT GGCATCAAGTGTTTCCGTATGCCGGCCTGATTCCTACAGTAATATAACGCCATTCTATTCATTA ATGGACTACTGGACTTCGCTTGAAGCTATTCTGAAGTTACATCAGGAAAATTTAAGTGTGAGTA AGCATAAAAACAGTAGTGATCAATGTGCCCACCTGCCGTACATCAAGCTTCATTAACACCATAC CAAAGGTTGCAACCCGTCGAATCAAATCTGCTAACCGGCCATCCGCAAGCACACTAGATCCACA TGATTGCTTCATAAAATAGTTGAAGATGTGAACACAGTCAGTACAAAAAGGAAATTATGTGATG AAAAGAAACCTCCACCCACTCCATCATCAACGATTGTTCTCACAAGTCACGACTAATCAAAGCC TAGCCAGTAAGAATGTGGAGATGGTAAAGGGCAATTTTGAAGAATGCTGAGAATGTTTGTGTCA AATGTTTTTTTTTCTAGCACACACACAGACACACTTGCACGGATAGAATATAGTTGATCATGGT AGTACAGCACTAAAGGGATGAGTGATCGACCCTACATCAGCTAATTAGACTAACCAGTGATTGA TAACACAAAAGCAAGGGCTCCAAAAGTTTATCCGATGTATCATAATATTCTGAAGTATCACGAT CACATGGTAGATCCTCAAGAAGAAGCTCGAGTCGTCTCCGTGTGTTCATCAGCTGAAAACAGAG TGGTAAGCACAATCAAAAGGAAAAAATTTTGCCATGTTAAAAAAAATATAACAGGTCAAGAAAA ATATAACAGATGGGTACTGTTTATACATAGCATAATCTCTTCTTGTTCTCATTGAGGTTTGTCT TCCTACCAAAGATTGAGAGTACCTATGTCCAACTATTTGGGTATCTTTGGCATATATGTTTTTA ATAGTAAAATGCCACATAAAATTTATCCCAAACTTTATTGCCAAAGAACAGGAGTAGAGTCTCT GGGAATTTATTAGTGAGATTAATTTAATCCTAAAGAATATTGTACAAATTTGGTAATCAAGCAT CCCTTAATCCAACCTCTATTAGTAGACTAGGCAATTGTTTGCCTACTTCCGGAGAAGAAAACAT GAGACGTATAATAAATGATAAAGTATGGCTCTAACCTTTTCTTTCACATCACCAAGGACAACTC TATAAGGAGTACTCCCTGGTCTCTCTGATATGCTTGGTTCTAGAAGTTTCCGGAAGCTCGATCG ACCAATTTGGGATTCTGTGAACATCTTCCTTAGTTGACCTCCACTTGGAGTTCGACCCATCGGG CGATGACTAGGAGACGGCAATGGACTGTCTTCACGTTTTTCTGTTATGTTTAGAGCCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.109445208

Conservation Information
Conserved circRNAs	NA
PMCS	0.109445208

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							566916-565560(+)
566890-564404(+)
566867-564312(-)
						
						Potential amino acid sequence
						
							MFRAKFEAIEITYAPSASLPNSAATRNVSRTSCTSAVTCMYGGTRGRFPFSSLVKKSSFFCSSH
SL*(+)
MDCLHVFLLCLEPNLRPLKSHMLQVHRFLTLQQHGMYQELLAHQQ*(+)
MGRTPSGGQLRKMFTESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLE
DLPCDRDTSEYYDTSDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQE
SGRHTETLDAITSYLDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAA
ELGSDALGAYVISMASNLALNITEKREDSPLPSPSHRPMGRTPSGGQLRKMFTESQIGRSSFRK
LLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLEDLPCDRDTSEYYDTSDKLLEPLLLCY
QSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQESGRHTETLDAITSYLDLGVYSEWDEQ
KKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAAELGSDALGAYVISMASNLALNITEKR
EDSPLPSPSHRPMGRTPSGGQLRKMFTESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKL
MNTRRRLELLLEDLPCDRDTSEYYDTSDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATF
GMVLMKLDVRQESGRHTETLDAITSYLDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTAD
VQEVLDTFRVAAELGSDALGAYVISMASNLALNITEKREDSPLPSPSHRPMGRTPSGGQLRKMF
TESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLEDLPCDRDTSEYYDT
SDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQESGRHTETLDAITSY
LDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAAELGSDALGAYVISM
ASN(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	566916-565560(+) 566890-564404(+) 566867-564312(-)
Potential amino acid sequence	MFRAKFEAIEITYAPSASLPNSAATRNVSRTSCTSAVTCMYGGTRGRFPFSSLVKKSSFFCSSH SL(+) MDCLHVFLLCLEPNLRPLKSHMLQVHRFLTLQQHGMYQELLAHQQ(+) MGRTPSGGQLRKMFTESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLE DLPCDRDTSEYYDTSDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQE SGRHTETLDAITSYLDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAA ELGSDALGAYVISMASNLALNITEKREDSPLPSPSHRPMGRTPSGGQLRKMFTESQIGRSSFRK LLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLEDLPCDRDTSEYYDTSDKLLEPLLLCY QSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQESGRHTETLDAITSYLDLGVYSEWDEQ KKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAAELGSDALGAYVISMASNLALNITEKR EDSPLPSPSHRPMGRTPSGGQLRKMFTESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKL MNTRRRLELLLEDLPCDRDTSEYYDTSDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATF GMVLMKLDVRQESGRHTETLDAITSYLDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTAD VQEVLDTFRVAAELGSDALGAYVISMASNLALNITEKREDSPLPSPSHRPMGRTPSGGQLRKMF TESQIGRSSFRKLLEPSISERPGSTPYRVVLGDVKEKLMNTRRRLELLLEDLPCDRDTSEYYDT SDKLLEPLLLCYQSLQSCGSSVLADGRLADLIRRVATFGMVLMKLDVRQESGRHTETLDAITSY LDLGVYSEWDEQKKLDFLTRELKGKRPLVPPYIQVTADVQEVLDTFRVAAELGSDALGAYVISM ASN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0110700_circ_g.1

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