Plant Circular RNA Database

Detail information of Os06g0183100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0183100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_029915
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 4140662-4141882  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0183100						
					
						Parent gene annotation
						
							B-type response regulator, Cytokinin signaling (Os06t0183100-01)
;B-type response regulator, Cytokinin signaling (Os06t0183100-02
)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os06t0183100-02:1
Os06t0183100-01:1

General Information
CircRNA Name	Os06g0183100_circ_g.1
ID in PlantcircBase	osa_circ_029915
Alias	NA
Organism	Oryza sativa
Position	chr6: 4140662-4141882 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0183100
Parent gene annotation	B-type response regulator, Cytokinin signaling (Os06t0183100-01) ;B-type response regulator, Cytokinin signaling (Os06t0183100-02 )
Parent gene strand	+
Alternative splicing	NA
Support reads	1
Tissues	shoot
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	Os06t0183100-02:1 Os06t0183100-01:1

			
						 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  
						
							GCAGAAGAATACATATGACTTGGGTAGTTCAAAGCTGCAGGGTGGATTTAATTCTAGTGGCTGC
AATTTTGATGGCCTTCTCAATTCCATAATCAAAGTGaagtacaggctttacctcaagagactag
gtgctgtagcatcacaacaagccagcattgttgctgcctttggaggcagagatccctccttctt
gcatattg

									
								

					

						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: 1221
Transcript exons: 4140662-4141882
AAGTACAGGCTTTACCTCAAGAGACTAGGTGCTGTAGCATCACAACAAGCCAGCATTGTTGCTG
CCTTTGGAGGCAGAGATCCCTCCTTCTTGCATATTGGAGCATTTGAAGGACTCCAGAGCTATCA
ACCTTTTGCACCTTCTGCTGCTCTTCCATCTTTCAATCCACATGGCCTGCTAACCCGAACTAGC
GCCGCCGCGGCTTTCGGACTTCAGGAGCTTGCTGCCCCCTCCAGCACAATTCAGACTTCTACAG
GAAATGTCACAGTTGGCCATTGCTTGGAAGAAAACCAGCAGGCAAATCTAGCACAAGGCTTGAC
CGCGGCGATCGGGCAACCTCAGCTTCAACAGAACTGGATTCATCAAGAAGGTAATGGTCTGTCT
GATGTTTTTTCTGGGAGTTCTCTGACCAACACTTTGTCCAGCACACTCCAAAGAGTTCCAAGCA
GTTCATTGCCACCACAAGAACTCTTGGAGTGCAAACAAGCCAAAGTTAGCATGCCGCCATCGAT
ACGGATACCGCCTTCTAGTTCAGCACTTCTTGAGAGGACTCTTGGGGTTTCCACCAATTTGGGA
GATTCTAGTATATCCCAGCAGGGTGCTCTTCCAATAGATGGTGGATTTTCTGCTGACAGGTTAC
CATTGCACAGTTCATTTGATGGCGCTGTTGCAACAAAGCTAGATACTAGTTTGGCAGCTTCACA
GAGAGAGATTGGCCAGCAGGGGAAATTTTCAGTTAGCATGCTTGTCTCCCCTTCTGACAATCTT
GCATTAGCCAAAAATGCCAAAACTGGAGCTAGTTCTTCTGGCAGTACTATAATTCTCCCTCTTG
ATACTGCAAGACATTCAGACTACTTGCAGTTCGGAGGTGCAAGCAATTCTTTGCAGAAAATGGA
TGGACAGAAACAAGATCATATACAGAGCTCAAACATTATATGGAGTTCAATGCCAAGCACTCAA
CTGCCAAGTGATACCCAAATTCATAATACTCAAAACCAAAGATTGGACAGCGGAAGTTTTAACC
ATAATATTGGTGCCCATTTGGCTGACCAAACAAATGCAAGTGCGTCAATACTTCCGCAAATGAA
GTTTGACACAAGAATATCAGAAGAGAAAATGAAGCAGAAGAATACATATGACTTGGGTAGTTCA
AAGCTGCAGGGTGGATTTAATTCTAGTGGCTGCAATTTTGATGGCCTTCTCAATTCCATAATCA
AAGTG
						
					

						Genomic sequence
						
							AAGTACAGGCTTTACCTCAAGAGACTAGGTGCTGTAGCATCACAACAAGCCAGCATTGTTGCTG
CCTTTGGAGGCAGAGATCCCTCCTTCTTGCATATTGGAGCATTTGAAGGACTCCAGAGCTATCA
ACCTTTTGCACCTTCTGCTGCTCTTCCATCTTTCAATCCACATGGCCTGCTAACCCGAACTAGC
GCCGCCGCGGCTTTCGGACTTCAGGAGCTTGCTGCCCCCTCCAGCACAATTCAGACTTCTACAG
GAAATGTCACAGTTGGCCATTGCTTGGAAGAAAACCAGCAGGCAAATCTAGCACAAGGCTTGAC
CGCGGCGATCGGGCAACCTCAGCTTCAACAGAACTGGATTCATCAAGAAGGTAATGGTCTGTCT
GATGTTTTTTCTGGGAGTTCTCTGACCAACACTTTGTCCAGCACACTCCAAAGAGTTCCAAGCA
GTTCATTGCCACCACAAGAACTCTTGGAGTGCAAACAAGCCAAAGTTAGCATGCCGCCATCGAT
ACGGATACCGCCTTCTAGTTCAGCACTTCTTGAGAGGACTCTTGGGGTTTCCACCAATTTGGGA
GATTCTAGTATATCCCAGCAGGGTGCTCTTCCAATAGATGGTGGATTTTCTGCTGACAGGTTAC
CATTGCACAGTTCATTTGATGGCGCTGTTGCAACAAAGCTAGATACTAGTTTGGCAGCTTCACA
GAGAGAGATTGGCCAGCAGGGGAAATTTTCAGTTAGCATGCTTGTCTCCCCTTCTGACAATCTT
GCATTAGCCAAAAATGCCAAAACTGGAGCTAGTTCTTCTGGCAGTACTATAATTCTCCCTCTTG
ATACTGCAAGACATTCAGACTACTTGCAGTTCGGAGGTGCAAGCAATTCTTTGCAGAAAATGGA
TGGACAGAAACAAGATCATATACAGAGCTCAAACATTATATGGAGTTCAATGCCAAGCACTCAA
CTGCCAAGTGATACCCAAATTCATAATACTCAAAACCAAAGATTGGACAGCGGAAGTTTTAACC
ATAATATTGGTGCCCATTTGGCTGACCAAACAAATGCAAGTGCGTCAATACTTCCGCAAATGAA
GTTTGACACAAGAATATCAGAAGAGAAAATGAAGCAGAAGAATACATATGACTTGGGTAGTTCA
AAGCTGCAGGGTGGATTTAATTCTAGTGGCTGCAATTTTGATGGCCTTCTCAATTCCATAATCA
AAGTG
						
					

			
		

Sequences
Splice junction sequence	GCAGAAGAATACATATGACTTGGGTAGTTCAAAGCTGCAGGGTGGATTTAATTCTAGTGGCTGC AATTTTGATGGCCTTCTCAATTCCATAATCAAAGTGaagtacaggctttacctcaagagactag gtgctgtagcatcacaacaagccagcattgttgctgcctttggaggcagagatccctccttctt gcatattg
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: 1221 Transcript exons: 4140662-4141882 AAGTACAGGCTTTACCTCAAGAGACTAGGTGCTGTAGCATCACAACAAGCCAGCATTGTTGCTG CCTTTGGAGGCAGAGATCCCTCCTTCTTGCATATTGGAGCATTTGAAGGACTCCAGAGCTATCA ACCTTTTGCACCTTCTGCTGCTCTTCCATCTTTCAATCCACATGGCCTGCTAACCCGAACTAGC GCCGCCGCGGCTTTCGGACTTCAGGAGCTTGCTGCCCCCTCCAGCACAATTCAGACTTCTACAG GAAATGTCACAGTTGGCCATTGCTTGGAAGAAAACCAGCAGGCAAATCTAGCACAAGGCTTGAC CGCGGCGATCGGGCAACCTCAGCTTCAACAGAACTGGATTCATCAAGAAGGTAATGGTCTGTCT GATGTTTTTTCTGGGAGTTCTCTGACCAACACTTTGTCCAGCACACTCCAAAGAGTTCCAAGCA GTTCATTGCCACCACAAGAACTCTTGGAGTGCAAACAAGCCAAAGTTAGCATGCCGCCATCGAT ACGGATACCGCCTTCTAGTTCAGCACTTCTTGAGAGGACTCTTGGGGTTTCCACCAATTTGGGA GATTCTAGTATATCCCAGCAGGGTGCTCTTCCAATAGATGGTGGATTTTCTGCTGACAGGTTAC CATTGCACAGTTCATTTGATGGCGCTGTTGCAACAAAGCTAGATACTAGTTTGGCAGCTTCACA GAGAGAGATTGGCCAGCAGGGGAAATTTTCAGTTAGCATGCTTGTCTCCCCTTCTGACAATCTT GCATTAGCCAAAAATGCCAAAACTGGAGCTAGTTCTTCTGGCAGTACTATAATTCTCCCTCTTG ATACTGCAAGACATTCAGACTACTTGCAGTTCGGAGGTGCAAGCAATTCTTTGCAGAAAATGGA TGGACAGAAACAAGATCATATACAGAGCTCAAACATTATATGGAGTTCAATGCCAAGCACTCAA CTGCCAAGTGATACCCAAATTCATAATACTCAAAACCAAAGATTGGACAGCGGAAGTTTTAACC ATAATATTGGTGCCCATTTGGCTGACCAAACAAATGCAAGTGCGTCAATACTTCCGCAAATGAA GTTTGACACAAGAATATCAGAAGAGAAAATGAAGCAGAAGAATACATATGACTTGGGTAGTTCA AAGCTGCAGGGTGGATTTAATTCTAGTGGCTGCAATTTTGATGGCCTTCTCAATTCCATAATCA AAGTG
Genomic sequence	AAGTACAGGCTTTACCTCAAGAGACTAGGTGCTGTAGCATCACAACAAGCCAGCATTGTTGCTG CCTTTGGAGGCAGAGATCCCTCCTTCTTGCATATTGGAGCATTTGAAGGACTCCAGAGCTATCA ACCTTTTGCACCTTCTGCTGCTCTTCCATCTTTCAATCCACATGGCCTGCTAACCCGAACTAGC GCCGCCGCGGCTTTCGGACTTCAGGAGCTTGCTGCCCCCTCCAGCACAATTCAGACTTCTACAG GAAATGTCACAGTTGGCCATTGCTTGGAAGAAAACCAGCAGGCAAATCTAGCACAAGGCTTGAC CGCGGCGATCGGGCAACCTCAGCTTCAACAGAACTGGATTCATCAAGAAGGTAATGGTCTGTCT GATGTTTTTTCTGGGAGTTCTCTGACCAACACTTTGTCCAGCACACTCCAAAGAGTTCCAAGCA GTTCATTGCCACCACAAGAACTCTTGGAGTGCAAACAAGCCAAAGTTAGCATGCCGCCATCGAT ACGGATACCGCCTTCTAGTTCAGCACTTCTTGAGAGGACTCTTGGGGTTTCCACCAATTTGGGA GATTCTAGTATATCCCAGCAGGGTGCTCTTCCAATAGATGGTGGATTTTCTGCTGACAGGTTAC CATTGCACAGTTCATTTGATGGCGCTGTTGCAACAAAGCTAGATACTAGTTTGGCAGCTTCACA GAGAGAGATTGGCCAGCAGGGGAAATTTTCAGTTAGCATGCTTGTCTCCCCTTCTGACAATCTT GCATTAGCCAAAAATGCCAAAACTGGAGCTAGTTCTTCTGGCAGTACTATAATTCTCCCTCTTG ATACTGCAAGACATTCAGACTACTTGCAGTTCGGAGGTGCAAGCAATTCTTTGCAGAAAATGGA TGGACAGAAACAAGATCATATACAGAGCTCAAACATTATATGGAGTTCAATGCCAAGCACTCAA CTGCCAAGTGATACCCAAATTCATAATACTCAAAACCAAAGATTGGACAGCGGAAGTTTTAACC ATAATATTGGTGCCCATTTGGCTGACCAAACAAATGCAAGTGCGTCAATACTTCCGCAAATGAA GTTTGACACAAGAATATCAGAAGAGAAAATGAAGCAGAAGAATACATATGACTTGGGTAGTTCA AAGCTGCAGGGTGGATTTAATTCTAGTGGCTGCAATTTTGATGGCCTTCTCAATTCCATAATCA AAGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.210093004

Conservation Information
Conserved circRNAs	NA
PMCS	0.210093004

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							4141161-4141879(+)
						
					

						Potential amino acid sequence
						
							MPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVATKLDTS
LAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFGGASNS
LQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTNASASI
LPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDGLLNSIIKVKYRLYLKRLGAVASQ
QASIVAAFGGRDPSFLHIGAFEGLQSYQPFAPSAALPSFNPHGLLTRTSAAAAFGLQELAAPSS
TIQTSTGNVTVGHCLEENQQANLAQGLTAAIGQPQLQQNWIHQEGNGLSDVFSGSSLTNTLSST
LQRVPSSSLPPQELLECKQAKVSMPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGG
FSADRLPLHSSFDGAVATKLDTSLAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGS
TIILPLDTARHSDYLQFGGASNSLQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRL
DSGSFNHNIGAHLADQTNASASILPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDG
LLNSIIKVKYRLYLKRLGAVASQQASIVAAFGGRDPSFLHIGAFEGLQSYQPFAPSAALPSFNP
HGLLTRTSAAAAFGLQELAAPSSTIQTSTGNVTVGHCLEENQQANLAQGLTAAIGQPQLQQNWI
HQEGNGLSDVFSGSSLTNTLSSTLQRVPSSSLPPQELLECKQAKVSMPPSIRIPPSSSALLERT
LGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVATKLDTSLAASQREIGQQGKFSVSM
LVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFGGASNSLQKMDGQKQDHIQSSNII
WSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTNASASILPQMKFDTRISEEKMKQK
NTYDLGSSKLQGGFNSSGCNFDGLLNSIIKVKYRLYLKRLGAVASQQASIVAAFGGRDPSFLHI
GAFEGLQSYQPFAPSAALPSFNPHGLLTRTSAAAAFGLQELAAPSSTIQTSTGNVTVGHCLEEN
QQANLAQGLTAAIGQPQLQQNWIHQEGNGLSDVFSGSSLTNTLSSTLQRVPSSSLPPQELLECK
QAKVSMPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVAT
KLDTSLAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFG
GASNSLQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTN
ASASILPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDGLLNSIIKV(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	4141161-4141879(+)
Potential amino acid sequence	MPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVATKLDTS LAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFGGASNS LQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTNASASI LPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDGLLNSIIKVKYRLYLKRLGAVASQ QASIVAAFGGRDPSFLHIGAFEGLQSYQPFAPSAALPSFNPHGLLTRTSAAAAFGLQELAAPSS TIQTSTGNVTVGHCLEENQQANLAQGLTAAIGQPQLQQNWIHQEGNGLSDVFSGSSLTNTLSST LQRVPSSSLPPQELLECKQAKVSMPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGG FSADRLPLHSSFDGAVATKLDTSLAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGS TIILPLDTARHSDYLQFGGASNSLQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRL DSGSFNHNIGAHLADQTNASASILPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDG LLNSIIKVKYRLYLKRLGAVASQQASIVAAFGGRDPSFLHIGAFEGLQSYQPFAPSAALPSFNP HGLLTRTSAAAAFGLQELAAPSSTIQTSTGNVTVGHCLEENQQANLAQGLTAAIGQPQLQQNWI HQEGNGLSDVFSGSSLTNTLSSTLQRVPSSSLPPQELLECKQAKVSMPPSIRIPPSSSALLERT LGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVATKLDTSLAASQREIGQQGKFSVSM LVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFGGASNSLQKMDGQKQDHIQSSNII WSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTNASASILPQMKFDTRISEEKMKQK NTYDLGSSKLQGGFNSSGCNFDGLLNSIIKVKYRLYLKRLGAVASQQASIVAAFGGRDPSFLHI GAFEGLQSYQPFAPSAALPSFNPHGLLTRTSAAAAFGLQELAAPSSTIQTSTGNVTVGHCLEEN QQANLAQGLTAAIGQPQLQQNWIHQEGNGLSDVFSGSSLTNTLSSTLQRVPSSSLPPQELLECK QAKVSMPPSIRIPPSSSALLERTLGVSTNLGDSSISQQGALPIDGGFSADRLPLHSSFDGAVAT KLDTSLAASQREIGQQGKFSVSMLVSPSDNLALAKNAKTGASSSGSTIILPLDTARHSDYLQFG GASNSLQKMDGQKQDHIQSSNIIWSSMPSTQLPSDTQIHNTQNQRLDSGSFNHNIGAHLADQTN ASASILPQMKFDTRISEEKMKQKNTYDLGSSKLQGGFNSSGCNFDGLLNSIIKV(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0183100_circ_g.1

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