Plant Circular RNA Database

Detail information of Os05g0594700_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os05g0594700_circ_g.6
					
						ID in PlantcircBase
						osa_circ_029224
					
						Alias
						Os_ciR2690
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29611423-29613639  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0594700						
					
						Parent gene annotation
						
							Similar to Hv711N16.16 (Fragment). (Os05t0594700-01);Similar to 
Hv711N16.16 (Fragment). (Os05t0594700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0594700_circ_g.3 Os05g0594700_circ_g.4 Os05g0594700_circ_g.5 Os05g0594700_circ_g.7 Os05g0594700_circ_g.8 Os05g0594700_circ_g.9 						
					
						Support reads
						5/2
					
						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  
						
							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
						Os05t0594700-02:5
Os05t0594700-01:5

General Information
CircRNA Name	Os05g0594700_circ_g.6
ID in PlantcircBase	osa_circ_029224
Alias	Os_ciR2690
Organism	Oryza sativa
Position	chr5: 29611423-29613639 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0594700
Parent gene annotation	Similar to Hv711N16.16 (Fragment). (Os05t0594700-01);Similar to Hv711N16.16 (Fragment). (Os05t0594700-02)
Parent gene strand	+
Alternative splicing	Os05g0594700_circ_g.3 Os05g0594700_circ_g.4 Os05g0594700_circ_g.5 Os05g0594700_circ_g.7 Os05g0594700_circ_g.8 Os05g0594700_circ_g.9
Support reads	5/2
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	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	Os05t0594700-02:5 Os05t0594700-01:5

			
						 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  
						
							AATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCATCGTTACAGGATCTGCTTTAGA
TCAGCTTAAGGCATACATTCATCAGTCGGCAAATGAgttcttgtgcggaatatacctccagatc
ctgatgaatcaattagtgagctcgtggagcatttcttccttgttaatcatcctgatcattatct
aagacacc

									
								

					

						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: 890
Transcript exons: 29611423-29611524,29612126-29612245,29612358-29612438,29
612903-29613243,29613394-29613639
GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTCGTGGAGCATTTCT
TCCTTGTTAATCATCCTGATCATTATCTAAGACACCAGGTGGTTTACAATGCAAATAAACTTGC
TGATCTGGTTGAGAAGAAGAAGAAACTGCAAAATTGGCTTGATTACTACCAGCTCAAGTATGAA
AGAAATCCATCAAAAAGGCCCACCACTAAGACTGGCTTTCTTGGCTGTTTTGGTTCCGAGGTGG
ATGCCATTGAATACTACAAAGCAGAGATTGAGAAGATTGGGAAAGAAGAAGCTGATGAGCGTCA
AAAGATCATGAAGGATCCCCAGTCAGCTGTTCCAGCAGCCTTTGTTTCATTTCGTTCACGGTGG
GGGGCTGCTGTTTGTGCTCAGACACAGCAAACCAGTAATCCAACAGTCTGGATAACTGAATGGG
CTCCAGAACCTCGTGATGTCTACTGGAATAATCTATCCATTCCATTTGTGTCCCTCACAGTTAG
GAGGCTGATAGTTGCTGTGGCATTCTTCTTCCTCAACTTTTTTTATGTCATTCCAATAGCATTC
GTGCAATCTCTTGCAAGCCTTGAAGGAATAGAAAAGGCGCTTCCATTTCTGAAACCCTTAATCA
AAATTGATGTCATCAAATCATTCATCCAAGGTTTTCTTCCAGGAATTGCTTTGAAGGTCTTCCT
TATATTGCTTCCAACTATACTGATGTTTATGTCTAAGTTTGAAGGATTAATATCACAGTCATCA
CTGGAGCGAAGATCTGCATCTAAATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCA
TCGTTACAGGATCTGCTTTAGATCAGCTTAAGGCATACATTCATCAGTCGGCAAATGA
						
					

						Genomic sequence
						
							GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTCGTGGAGCATTTCT
TCCTTGTTAATCATCCTGATCATTATCTAAGACACCAGGTAATCTTTGGTAAAAATTTGTGGAT
AACTAAGTCAGATGTAGTTCTGTTGCTTTTCTCTTCTGGGGGTTTCAACAGGTCATCATCTGCT
TAGGTAGGAGCTGTGTTTCTAGTTATGCTGATTGGCCTAATGCAAATAGATTTTTTTTCTACTC
AACAGAACCCCCTTCATATATTATCCTTTTCCCACAAATTATTGATGGTTTCAAATGAACCTAA
TATTAATGTTTGCTAGTTTCATGTTGAGATTTTTTCCCCCAGATTCTGAGAATAGTCCACATAA
TAGCCTACCCACAGATTATTTGGATATTAATACATAAATATTTTGGTTTTGCCAAGTAACAGGA
AAGTTATGATCTCTTGGTTATCTAGATTTTCATTTAAATAATCATATTCATATGTTAAAGGGTC
TAAAAACTGTCTCTCTGTGCTAACACTTCACAGTGCTAATTGCTGAATGAGATTTAGAAGGGTC
ATATCCAAATTTGTGTATCATATGCACTTGGGTTTTCTACCCTGACTTCATTGATTTTTTTATT
CTTCCTTATACTAATTACTGTATTTATTCCGTCCTTTTTCTGGCCGATTGTCTATATCTATAGG
TGGTTTACAATGCAAATAAACTTGCTGATCTGGTTGAGAAGAAGAAGAAACTGCAAAATTGGCT
TGATTACTACCAGCTCAAGTATGAAAGAAATCCATCAAAAAGGCCCACCACTAAGGTTAGTCTG
CCATATGGACCTTGATCAATTTATTTTTCATTTCAATTATAATATTACATTAGGATCTTTTTTC
TTTTTAATTCTCTGTCCCCCTGTTGGATTTTTGTTCCAGACTGGCTTTCTTGGCTGTTTTGGTT
CCGAGGTGGATGCCATTGAATACTACAAAGCAGAGATTGAGAAGATTGGGAAAGAAGTAAGTTG
TACTCCCTCCGTACCGTAATATAAGGGATTTTGACTTTTTGCTTGCACTGTTTGACCACTCGTC
TTATTCAAAAAATTTGTGCAAATATAAAAAACGAAAAGTTGTGCTTAAAGTACTTTGGATAATA
AAGCAAGTCACAAATAAAATAAATAATAATTCCAATTTTTTTTTAATAAGACGAGTGGCATTTT
TGTCTATTAATTCCAAATAAATAATAATCCCTTATATTACGGGACGGAGGGAGTAGTATTTTTG
TCTATATAATCATTGGACCATTCGGCATTGTCCATTTTTTCTGATTGAGTTGTATCATTCTATG
AACATGGGTTTGCACAATCGATTCTTTTTTAGGATTAGTATTATGTCTAAGCATCACACATTCA
CACCTTGTGGGAGTTTAATTTGTTTACAGCTAACAGTCAGATAACAATAAATTCATGTGTAACA
ACATGCAGGAAGCTGATGAGCGTCAAAAGATCATGAAGGATCCCCAGTCAGCTGTTCCAGCAGC
CTTTGTTTCATTTCGTTCACGGTGGGGGGCTGCTGTTTGTGCTCAGACACAGCAAACCAGTAAT
CCAACAGTCTGGATAACTGAATGGGCTCCAGAACCTCGTGATGTCTACTGGAATAATCTATCCA
TTCCATTTGTGTCCCTCACAGTTAGGAGGCTGATAGTTGCTGTGGCATTCTTCTTCCTCAACTT
TTTTTATGTCATTCCAATAGCATTCGTGCAATCTCTTGCAAGCCTTGAAGGAATAGAAAAGGCG
CTTCCATTTCTGAAACCCTTAATCAAAATGTAAGTGTTTCTTCATGTGTTGATTATTTATACTA
TTATTGCATTTCCATGATTTATTCAGCGTGTAATTAATTTGGGTACATTAGACATATGGTTATC
TTCTGCTATTCTTTTGAAATGCCCTGATAAATCTTGTTGACTATTGTGCAGTGATGTCATCAAA
TCATTCATCCAAGGTTTTCTTCCAGGAATTGCTTTGAAGGTCTTCCTTATATTGCTTCCAACTA
TACTGATGTTTATGTCTAAGTTTGAAGGATTAATATCACAGTCATCACTGGAGCGAAGATCTGC
ATCTAAATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCATCGTTACAGGATCTGCT
TTAGATCAGCTTAAGGCATACATTCATCAGTCGGCAAATGA
						
					

			
		

Sequences
Splice junction sequence	AATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCATCGTTACAGGATCTGCTTTAGA TCAGCTTAAGGCATACATTCATCAGTCGGCAAATGAgttcttgtgcggaatatacctccagatc ctgatgaatcaattagtgagctcgtggagcatttcttccttgttaatcatcctgatcattatct aagacacc
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: 890 Transcript exons: 29611423-29611524,29612126-29612245,29612358-29612438,29 612903-29613243,29613394-29613639 GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTCGTGGAGCATTTCT TCCTTGTTAATCATCCTGATCATTATCTAAGACACCAGGTGGTTTACAATGCAAATAAACTTGC TGATCTGGTTGAGAAGAAGAAGAAACTGCAAAATTGGCTTGATTACTACCAGCTCAAGTATGAA AGAAATCCATCAAAAAGGCCCACCACTAAGACTGGCTTTCTTGGCTGTTTTGGTTCCGAGGTGG ATGCCATTGAATACTACAAAGCAGAGATTGAGAAGATTGGGAAAGAAGAAGCTGATGAGCGTCA AAAGATCATGAAGGATCCCCAGTCAGCTGTTCCAGCAGCCTTTGTTTCATTTCGTTCACGGTGG GGGGCTGCTGTTTGTGCTCAGACACAGCAAACCAGTAATCCAACAGTCTGGATAACTGAATGGG CTCCAGAACCTCGTGATGTCTACTGGAATAATCTATCCATTCCATTTGTGTCCCTCACAGTTAG GAGGCTGATAGTTGCTGTGGCATTCTTCTTCCTCAACTTTTTTTATGTCATTCCAATAGCATTC GTGCAATCTCTTGCAAGCCTTGAAGGAATAGAAAAGGCGCTTCCATTTCTGAAACCCTTAATCA AAATTGATGTCATCAAATCATTCATCCAAGGTTTTCTTCCAGGAATTGCTTTGAAGGTCTTCCT TATATTGCTTCCAACTATACTGATGTTTATGTCTAAGTTTGAAGGATTAATATCACAGTCATCA CTGGAGCGAAGATCTGCATCTAAATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCA TCGTTACAGGATCTGCTTTAGATCAGCTTAAGGCATACATTCATCAGTCGGCAAATGA
Genomic sequence	GTTCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTCGTGGAGCATTTCT TCCTTGTTAATCATCCTGATCATTATCTAAGACACCAGGTAATCTTTGGTAAAAATTTGTGGAT AACTAAGTCAGATGTAGTTCTGTTGCTTTTCTCTTCTGGGGGTTTCAACAGGTCATCATCTGCT TAGGTAGGAGCTGTGTTTCTAGTTATGCTGATTGGCCTAATGCAAATAGATTTTTTTTCTACTC AACAGAACCCCCTTCATATATTATCCTTTTCCCACAAATTATTGATGGTTTCAAATGAACCTAA TATTAATGTTTGCTAGTTTCATGTTGAGATTTTTTCCCCCAGATTCTGAGAATAGTCCACATAA TAGCCTACCCACAGATTATTTGGATATTAATACATAAATATTTTGGTTTTGCCAAGTAACAGGA AAGTTATGATCTCTTGGTTATCTAGATTTTCATTTAAATAATCATATTCATATGTTAAAGGGTC TAAAAACTGTCTCTCTGTGCTAACACTTCACAGTGCTAATTGCTGAATGAGATTTAGAAGGGTC ATATCCAAATTTGTGTATCATATGCACTTGGGTTTTCTACCCTGACTTCATTGATTTTTTTATT CTTCCTTATACTAATTACTGTATTTATTCCGTCCTTTTTCTGGCCGATTGTCTATATCTATAGG TGGTTTACAATGCAAATAAACTTGCTGATCTGGTTGAGAAGAAGAAGAAACTGCAAAATTGGCT TGATTACTACCAGCTCAAGTATGAAAGAAATCCATCAAAAAGGCCCACCACTAAGGTTAGTCTG CCATATGGACCTTGATCAATTTATTTTTCATTTCAATTATAATATTACATTAGGATCTTTTTTC TTTTTAATTCTCTGTCCCCCTGTTGGATTTTTGTTCCAGACTGGCTTTCTTGGCTGTTTTGGTT CCGAGGTGGATGCCATTGAATACTACAAAGCAGAGATTGAGAAGATTGGGAAAGAAGTAAGTTG TACTCCCTCCGTACCGTAATATAAGGGATTTTGACTTTTTGCTTGCACTGTTTGACCACTCGTC TTATTCAAAAAATTTGTGCAAATATAAAAAACGAAAAGTTGTGCTTAAAGTACTTTGGATAATA AAGCAAGTCACAAATAAAATAAATAATAATTCCAATTTTTTTTTAATAAGACGAGTGGCATTTT TGTCTATTAATTCCAAATAAATAATAATCCCTTATATTACGGGACGGAGGGAGTAGTATTTTTG TCTATATAATCATTGGACCATTCGGCATTGTCCATTTTTTCTGATTGAGTTGTATCATTCTATG AACATGGGTTTGCACAATCGATTCTTTTTTAGGATTAGTATTATGTCTAAGCATCACACATTCA CACCTTGTGGGAGTTTAATTTGTTTACAGCTAACAGTCAGATAACAATAAATTCATGTGTAACA ACATGCAGGAAGCTGATGAGCGTCAAAAGATCATGAAGGATCCCCAGTCAGCTGTTCCAGCAGC CTTTGTTTCATTTCGTTCACGGTGGGGGGCTGCTGTTTGTGCTCAGACACAGCAAACCAGTAAT CCAACAGTCTGGATAACTGAATGGGCTCCAGAACCTCGTGATGTCTACTGGAATAATCTATCCA TTCCATTTGTGTCCCTCACAGTTAGGAGGCTGATAGTTGCTGTGGCATTCTTCTTCCTCAACTT TTTTTATGTCATTCCAATAGCATTCGTGCAATCTCTTGCAAGCCTTGAAGGAATAGAAAAGGCG CTTCCATTTCTGAAACCCTTAATCAAAATGTAAGTGTTTCTTCATGTGTTGATTATTTATACTA TTATTGCATTTCCATGATTTATTCAGCGTGTAATTAATTTGGGTACATTAGACATATGGTTATC TTCTGCTATTCTTTTGAAATGCCCTGATAAATCTTGTTGACTATTGTGCAGTGATGTCATCAAA TCATTCATCCAAGGTTTTCTTCCAGGAATTGCTTTGAAGGTCTTCCTTATATTGCTTCCAACTA TACTGATGTTTATGTCTAAGTTTGAAGGATTAATATCACAGTCATCACTGGAGCGAAGATCTGC ATCTAAATATTATATCTTCTTGTTCTTCAATGTATTTTTGGGAAGCATCGTTACAGGATCTGCT TTAGATCAGCTTAAGGCATACATTCATCAGTCGGCAAATGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.26253637

Conservation Information
Conserved circRNAs	NA
PMCS	0.26253637

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29612928-29611513(+)
						
						Potential amino acid sequence
						
							MKDPQSAVPAAFVSFRSRWGAAVCAQTQQTSNPTVWITEWAPEPRDVYWNNLSIPFVSLTVRRL
IVAVAFFFLNFFYVIPIAFVQSLASLEGIEKALPFLKPLIKIDVIKSFIQGFLPGIALKVFLIL
LPTILMFMSKFEGLISQSSLERRSASKYYIFLFFNVFLGSIVTGSALDQLKAYIHQSANEFLCG
IYLQILMNQLVSSWSISSLLIILIII*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29612928-29611513(+)
Potential amino acid sequence	MKDPQSAVPAAFVSFRSRWGAAVCAQTQQTSNPTVWITEWAPEPRDVYWNNLSIPFVSLTVRRL IVAVAFFFLNFFYVIPIAFVQSLASLEGIEKALPFLKPLIKIDVIKSFIQGFLPGIALKVFLIL LPTILMFMSKFEGLISQSSLERRSASKYYIFLFFNVFLGSIVTGSALDQLKAYIHQSANEFLCG IYLQILMNQLVSSWSISSLLIILIII*(+)
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 Os05g0594700_circ_g.6

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