Plant Circular RNA Database

Detail information of Os10g0181333_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os10g0181333_circ_g.4
					
						ID in PlantcircBase
						osa_circ_006325
					
						Alias
						Os10circ01513
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 5579932-5585549  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os10g0181333						
					
						Parent gene annotation
						
							Hypothetical protein. (Os10t0181333-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0181333_circ_g.3 Os10g0181333_circ_g.5 Os10g0181333_circ_g.6 Os10g0181333_circ_g.7 Os10g0181333_circ_g.8 Os10g0181333_circ_g.9 Os10g0181333_circ_g.10 Os10g0181333_circ_g.11 Os10g0181333_circ_g.12 Os10g0181333_circ_g.13 Os10g0181333_circ_g.14 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						Os10t0181200-01:16
Os10t0181200-02:5
Os10t0181200-01:16
Os10t0181200-02:5
Os10t0181333-00:15

General Information
CircRNA Name	Os10g0181333_circ_g.4
ID in PlantcircBase	osa_circ_006325
Alias	Os10circ01513
Organism	Oryza sativa
Position	chr10: 5579932-5585549 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ie-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os10g0181333
Parent gene annotation	Hypothetical protein. (Os10t0181333-00)
Parent gene strand	+
Alternative splicing	Os10g0181333_circ_g.3 Os10g0181333_circ_g.5 Os10g0181333_circ_g.6 Os10g0181333_circ_g.7 Os10g0181333_circ_g.8 Os10g0181333_circ_g.9 Os10g0181333_circ_g.10 Os10g0181333_circ_g.11 Os10g0181333_circ_g.12 Os10g0181333_circ_g.13 Os10g0181333_circ_g.14
Support reads	2
Tissues	leaf
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	Os10t0181200-01:16 Os10t0181200-02:5 Os10t0181200-01:16 Os10t0181200-02:5 Os10t0181333-00:15

			
						 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  
						
							CATGAGTTCTTCGAGATGAATAGCTACTGTCATCTAACAAGTCTGTCGATGTGCCAAGGGCCTT
ATTATTTACGATTCTTTTGTCATGTTCATGTGAAACctgcagctagtcgatgctttaaagacct
caatgttgtaagaactgaaacctgtcaaaaaaaaaaaggaagtatatacgcatgtaatatgtta
taaggaaa

									
								

					

						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: 2602
Transcript exons: 5579932-5579980,5580534-5580626,5580709-5580940,5581721-
5581811,5581998-5582089,5582167-5582275,5582636-5582735,
5582919-5583059,5583151-5583315,5583393-5583584,5583714-
5583842,5583924-5584039,5584126-5584270,5584344-5584407,
5584546-5584768,5584889-5585549
CTGCAGCTAGTCGATGCTTTAAAGACCTCAATGTTGTAAGAACTGAAACCTCCGCAGTGTAGAT
CTTTGACTTTCGGGCATCAACAAGAATACGGGTATCTTTCATGGAAATACTTTCAACTGCTCCT
AACGAAGCAGCTTCCTCCAGTATTGAAAAGGCACGAATGTCGTATTCACCAAAACCTTCCAACA
GTGAATTCACATTGGGATGATGTGGAATATCACAACTTATTCCCATATTTTCAATGAAAGTATT
TGTTAATGTATTATCATGAGGAAACCTTAAACATCCCAACACTTGAGACAAAACATCACTTGAG
GGTAATAGTCCTGTGGAAATTGCCTCACGGTAGACCTTAATTGCTGAGGAGGTCCATTTGTTCT
CAATCTGTGGTTTCCCTAAGTTGAATGTGACAACGATATTGCCCAGTGAAAGATCATTGTCGAA
CATTTGTAGACACAAGCCAGTAAGACAACCAACGATTGTGGGATTGAGGTCAATACTGTCTATT
TTTAATTGTTCAAATAGATCCAAACCCAGTTGTGCTTCAGCATTCCTTTCACAAGCCACAAATA
ACACCGAATAGGTTATCATATTTGGACAGACTCCTAATCTCTTCATCTCACTAAGGACCTCAAA
AGACTTCAAAACTTGATCACCATCACACAATGCGGTGATCAGAGCATTCATCATTGAAACGGTT
GGCATTAATTTGATTGACTTGATCTCCTCAAATAGCTGCAATGCCTTTTTCCAGTCCTTGGCAT
TGCAGCAAGCACCCATTAATGAACTGTATGCAATGGTTCCAACTTGATATCCCTTTGCTCTTGC
ATCTTTCATTATCTCAAAGGCAGCATCAGCCCTCCTAGCATGGCCAGCAACATCAACTAGAGCA
CTCAGAAACATCTCATCAGGTTGTACTCCAATCTTGTTCATATCTTCATAGATCTTCAGAGCAA
ATCCTAAATCACCAGTCAAGCTACAGCTTCTCAATGCTATTGTGTAAACTTCTGGAGTACCCTT
TATATTGTACTCCTGAAGCATTTTGTATACCTCACGAGCTCGATCAGCCTGGCCAGCCTGAATA
CATGTCTTCATCAGAGCTCCAACTGTGACATGATCAGGAAGAATCGGTTTGGATCCTTTAGATT
CAGAGGCTTCTGCTGTCATTTCTGATAGAACATCAAAAGCTCGAGCAACCGCTCCAGATTCACC
GCATGCACTGATCAAAGCATTAAAGACAACTCGATCTGGCTTCACCTTCTTTGAACTCATGATA
CCATAAGCACCAAATGCTTTTGCTACTTGACCAGCTTTTGCACAGCCATCAATCAGTGCACTAT
ATGTGTTAACATTTGGCTCTATTCCAGCACTGACCATCTCATGGAAGACCTCAAACATAGCATC
AACTTTTCCACACTTGGCACAAGTCGATATAAGTGTTGTGTAAAGTTTACAATCAGGTTTTAGC
CCAGCTTCCTTTAGGAGCACCATAACTTGGAGAGCCCCATCAAAATCTTGCGAATTAGCGCACA
CAGATAAAAGCATATTGAAGGTACTCATTTTTGGGTTATTGATCAACTTGCAAAAACGAACAGC
TTCCGGAACAGCCCTTTGCTTCTTACAGGCATTCAGAAAGCTAGCATGGTGGATCTTATTCATA
TCAAGCAATCCCTTTTGCTCCATGCTTTCCAATAGATCCACAGAGTCTTTCAATCTTCCATCAA
TTAACAAACTATTGTATCTCCTCAAGTAATCTGGCACGTCCTTTGTTCCCCTCAATCCAGCTCT
ATTTGCTGAAGTAGAGTTTTCTGGATTCTCCTTGCTCAGTAAATTAGAAATACTCCAGCCAATT
AACTTTGCATCATCATGGTCATTCATTGCTTTCTTTTGTTTACTCACAGGACCATCCCTTAAGC
ATGCAACTGGAACCAATCGCCCTGCTCTCAAATATGAGCCCCCTGCATAAGAATTTGTGAACTC
GGATGCTTTTCTTGGTTCAAACAGATTGCTGGCATGGGCTTCAGGAATAAAATTCAGTGGATGC
TCGTTGATTCTTTTGAAGGATGAAAGAGACGTAAAATCAACATAGTCTCCTTGATCACTTTGAT
GGCATCCAAGTAAATTGGCACCCTCACTATCTGTTTTATTATCAGGAGGACCTTGGCCATTTTT
AGTCTGCTCGTTCTGTTTTGAAAGTGATAAAAACTGATGAGGCAGTCCACCTAGCTGAGCCCTT
CTGTTAGCAAAATGTCTGCTTTGATGTTGTCCATCAGACACAGAACGCGATTGTGGGAGAATAT
CTTGGACCTTTTCTATGGAACTTGTGTTTGCTGGTCCATAAACACCTTCAAATGTGTCTAACGA
CCTGTAAGTACTAATTACAGAACCAACCTGTGTTGTATTATTTACAGTATCTACACCAGAAAAA
ACATCAGTTTGGCAATCCGTTCTATCCACAGTCATTCTTCCAGAAACAGATGGCTCTGAAAAGA
CATTTTCATGAGTTCTTCGAGATGAATAGCTACTGTCATCTAACAAGTCTGTCGATGTGCCAAG
GGCCTTATTATTTACGATTCTTTTGTCATGTTCATGTGAAAC
						
					

						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	CATGAGTTCTTCGAGATGAATAGCTACTGTCATCTAACAAGTCTGTCGATGTGCCAAGGGCCTT ATTATTTACGATTCTTTTGTCATGTTCATGTGAAACctgcagctagtcgatgctttaaagacct caatgttgtaagaactgaaacctgtcaaaaaaaaaaaggaagtatatacgcatgtaatatgtta taaggaaa
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: 2602 Transcript exons: 5579932-5579980,5580534-5580626,5580709-5580940,5581721- 5581811,5581998-5582089,5582167-5582275,5582636-5582735, 5582919-5583059,5583151-5583315,5583393-5583584,5583714- 5583842,5583924-5584039,5584126-5584270,5584344-5584407, 5584546-5584768,5584889-5585549 CTGCAGCTAGTCGATGCTTTAAAGACCTCAATGTTGTAAGAACTGAAACCTCCGCAGTGTAGAT CTTTGACTTTCGGGCATCAACAAGAATACGGGTATCTTTCATGGAAATACTTTCAACTGCTCCT AACGAAGCAGCTTCCTCCAGTATTGAAAAGGCACGAATGTCGTATTCACCAAAACCTTCCAACA GTGAATTCACATTGGGATGATGTGGAATATCACAACTTATTCCCATATTTTCAATGAAAGTATT TGTTAATGTATTATCATGAGGAAACCTTAAACATCCCAACACTTGAGACAAAACATCACTTGAG GGTAATAGTCCTGTGGAAATTGCCTCACGGTAGACCTTAATTGCTGAGGAGGTCCATTTGTTCT CAATCTGTGGTTTCCCTAAGTTGAATGTGACAACGATATTGCCCAGTGAAAGATCATTGTCGAA CATTTGTAGACACAAGCCAGTAAGACAACCAACGATTGTGGGATTGAGGTCAATACTGTCTATT TTTAATTGTTCAAATAGATCCAAACCCAGTTGTGCTTCAGCATTCCTTTCACAAGCCACAAATA ACACCGAATAGGTTATCATATTTGGACAGACTCCTAATCTCTTCATCTCACTAAGGACCTCAAA AGACTTCAAAACTTGATCACCATCACACAATGCGGTGATCAGAGCATTCATCATTGAAACGGTT GGCATTAATTTGATTGACTTGATCTCCTCAAATAGCTGCAATGCCTTTTTCCAGTCCTTGGCAT TGCAGCAAGCACCCATTAATGAACTGTATGCAATGGTTCCAACTTGATATCCCTTTGCTCTTGC ATCTTTCATTATCTCAAAGGCAGCATCAGCCCTCCTAGCATGGCCAGCAACATCAACTAGAGCA CTCAGAAACATCTCATCAGGTTGTACTCCAATCTTGTTCATATCTTCATAGATCTTCAGAGCAA ATCCTAAATCACCAGTCAAGCTACAGCTTCTCAATGCTATTGTGTAAACTTCTGGAGTACCCTT TATATTGTACTCCTGAAGCATTTTGTATACCTCACGAGCTCGATCAGCCTGGCCAGCCTGAATA CATGTCTTCATCAGAGCTCCAACTGTGACATGATCAGGAAGAATCGGTTTGGATCCTTTAGATT CAGAGGCTTCTGCTGTCATTTCTGATAGAACATCAAAAGCTCGAGCAACCGCTCCAGATTCACC GCATGCACTGATCAAAGCATTAAAGACAACTCGATCTGGCTTCACCTTCTTTGAACTCATGATA CCATAAGCACCAAATGCTTTTGCTACTTGACCAGCTTTTGCACAGCCATCAATCAGTGCACTAT ATGTGTTAACATTTGGCTCTATTCCAGCACTGACCATCTCATGGAAGACCTCAAACATAGCATC AACTTTTCCACACTTGGCACAAGTCGATATAAGTGTTGTGTAAAGTTTACAATCAGGTTTTAGC CCAGCTTCCTTTAGGAGCACCATAACTTGGAGAGCCCCATCAAAATCTTGCGAATTAGCGCACA CAGATAAAAGCATATTGAAGGTACTCATTTTTGGGTTATTGATCAACTTGCAAAAACGAACAGC TTCCGGAACAGCCCTTTGCTTCTTACAGGCATTCAGAAAGCTAGCATGGTGGATCTTATTCATA TCAAGCAATCCCTTTTGCTCCATGCTTTCCAATAGATCCACAGAGTCTTTCAATCTTCCATCAA TTAACAAACTATTGTATCTCCTCAAGTAATCTGGCACGTCCTTTGTTCCCCTCAATCCAGCTCT ATTTGCTGAAGTAGAGTTTTCTGGATTCTCCTTGCTCAGTAAATTAGAAATACTCCAGCCAATT AACTTTGCATCATCATGGTCATTCATTGCTTTCTTTTGTTTACTCACAGGACCATCCCTTAAGC ATGCAACTGGAACCAATCGCCCTGCTCTCAAATATGAGCCCCCTGCATAAGAATTTGTGAACTC GGATGCTTTTCTTGGTTCAAACAGATTGCTGGCATGGGCTTCAGGAATAAAATTCAGTGGATGC TCGTTGATTCTTTTGAAGGATGAAAGAGACGTAAAATCAACATAGTCTCCTTGATCACTTTGAT GGCATCCAAGTAAATTGGCACCCTCACTATCTGTTTTATTATCAGGAGGACCTTGGCCATTTTT AGTCTGCTCGTTCTGTTTTGAAAGTGATAAAAACTGATGAGGCAGTCCACCTAGCTGAGCCCTT CTGTTAGCAAAATGTCTGCTTTGATGTTGTCCATCAGACACAGAACGCGATTGTGGGAGAATAT CTTGGACCTTTTCTATGGAACTTGTGTTTGCTGGTCCATAAACACCTTCAAATGTGTCTAACGA CCTGTAAGTACTAATTACAGAACCAACCTGTGTTGTATTATTTACAGTATCTACACCAGAAAAA ACATCAGTTTGGCAATCCGTTCTATCCACAGTCATTCTTCCAGAAACAGATGGCTCTGAAAAGA CATTTTCATGAGTTCTTCGAGATGAATAGCTACTGTCATCTAACAAGTCTGTCGATGTGCCAAG GGCCTTATTATTTACGATTCTTTTGTCATGTTCATGTGAAAC
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
						
							osi_circ_002758* osi_circ_008821 						
					
						PMCS
						0.124022062

Conservation Information
Conserved circRNAs	osi_circ_002758* osi_circ_008821
PMCS	0.124022062

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5585430-5580543(+)
5585416-5585541(-)
						
						Potential amino acid sequence
						
							MALKRHFHEFFEMNSYCHLTSLSMCQGPYYLRFFCHVHVKPAASRCFKDLNVVRTETSAV*(+)
MTVDRTDCQTDVFSGVDTVNNTTQVGSVISTYRSLDTFEGVYGPANTSSIEKVQDILPQSRSVS
DGQHQSRHFANRRAQLGGLPHQFLSLSKQNEQTKNGQGPPDNKTDSEGANLLGCHQSDQGDYVD
FTSLSSFKRINEHPLNFIPEAHASNLFEPRKASEFTNSYAGGSYLRAGRLVPVACLRDGPVSKQ
KKAMNDHDDAKLIGWSISNLLSKENPENSTSANRAGLRGTKDVPDYLRRYNSLLIDGRLKDSVD
LLESMEQKGLLDMNKIHHASFLNACKKQRAVPEAVRFCKLINNPKMSTFNMLLSVCANSQDFDG
ALQVMVLLKEAGLKPDCKLYTTLISTCAKCGKVDAMFEVFHEMVSAGIEPNVNTYSALIDGCAK
AGQVAKAFGAYGIMSSKKVKPDRVVFNALISACGESGAVARAFDVLSEMTAEASESKGSKPILP
DHVTVGALMKTCIQAGQADRAREVYKMLQEYNIKGTPEVYTIALRSCSLTGDLGFALKIYEDMN
KIGVQPDEMFLSALVDVAGHARRADAAFEIMKDARAKGYQVGTIAYSSLMGACCNAKDWKKALQ
LFEEIKSIKLMPTVSMMNALITALCDGDQVLKSFEVLSEMKRLGVCPNMITYSVLFVACERNAE
AQLGLDLFEQLKIDSIDLNPTIVGCLTGLCLQMFDNDLSLGNIVVTFNLGKPQIENKWTSSAIK
VYREAISTGLLPSSDVLSQVLGCLRFPHDNTLTNTFIENMGISCDIPHHPNVNSLLEGFGEYDI
RAFSILEEAASLGAVESISMKDTRILVDARKSKIYTAEVSVLTTLRSLKHRLAAGFT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5585430-5580543(+) 5585416-5585541(-)
Potential amino acid sequence	MALKRHFHEFFEMNSYCHLTSLSMCQGPYYLRFFCHVHVKPAASRCFKDLNVVRTETSAV(+) MTVDRTDCQTDVFSGVDTVNNTTQVGSVISTYRSLDTFEGVYGPANTSSIEKVQDILPQSRSVS DGQHQSRHFANRRAQLGGLPHQFLSLSKQNEQTKNGQGPPDNKTDSEGANLLGCHQSDQGDYVD FTSLSSFKRINEHPLNFIPEAHASNLFEPRKASEFTNSYAGGSYLRAGRLVPVACLRDGPVSKQ KKAMNDHDDAKLIGWSISNLLSKENPENSTSANRAGLRGTKDVPDYLRRYNSLLIDGRLKDSVD LLESMEQKGLLDMNKIHHASFLNACKKQRAVPEAVRFCKLINNPKMSTFNMLLSVCANSQDFDG ALQVMVLLKEAGLKPDCKLYTTLISTCAKCGKVDAMFEVFHEMVSAGIEPNVNTYSALIDGCAK AGQVAKAFGAYGIMSSKKVKPDRVVFNALISACGESGAVARAFDVLSEMTAEASESKGSKPILP DHVTVGALMKTCIQAGQADRAREVYKMLQEYNIKGTPEVYTIALRSCSLTGDLGFALKIYEDMN KIGVQPDEMFLSALVDVAGHARRADAAFEIMKDARAKGYQVGTIAYSSLMGACCNAKDWKKALQ LFEEIKSIKLMPTVSMMNALITALCDGDQVLKSFEVLSEMKRLGVCPNMITYSVLFVACERNAE AQLGLDLFEQLKIDSIDLNPTIVGCLTGLCLQMFDNDLSLGNIVVTFNLGKPQIENKWTSSAIK VYREAISTGLLPSSDVLSQVLGCLRFPHDNTLTNTFIENMGISCDIPHHPNVNSLLEGFGEYDI RAFSILEEAASLGAVESISMKDTRILVDARKSKIYTAEVSVLTTLRSLKHRLAAGFT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os10g0181333_circ_g.4

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