Plant Circular RNA Database

Detail information of Os08g0484600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0484600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037410
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 23945654-23946427  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0484633						
					
						Parent gene annotation
						
							Hypothetical protein. (Os08t0484633-00)
							
						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
						Os08t0484600-01:4
Os08t0484633-00:2
Os08t0484600-01:4

General Information
CircRNA Name	Os08g0484600_circ_g.3
ID in PlantcircBase	osa_circ_037410
Alias	NA
Organism	Oryza sativa
Position	chr8: 23945654-23946427 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ei-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0484633
Parent gene annotation	Hypothetical protein. (Os08t0484633-00)
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	Os08t0484600-01:4 Os08t0484633-00:2 Os08t0484600-01:4

			
						 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  
						
							TATGTTAGATGTCAACCACAGCTTTGTTGATGACTCAATTATAATGGATAATGGCGATGTAAAC
GGGAGGTTACCTGCTGTGATCAAGTTTGAAATCCAGattgatgaagatacccttcaagacgttg
taaacttgggttatgaaaaggaccatgtgtgtgaatctctgcgcaatagactgcaaaatgaggt
atatgcaa

						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: 546
Transcript exons: 23945654-23945743,23945813-23945896,23945977-23946117,23
946197-23946427
ATTGATGAAGATACCCTTCAAGACGTTGTAAACTTGGGTTATGAAAAGGACCATGTGTGTGAAT
CTCTGCGCAATAGACTGCAAAATGAGGCAACTGTTGCATATTATTTGCTATTGGACAATCGATT
CCGAGCTACCAGTGGCTATCTGGGAGCAGACTATCAAGAATCATTGGAGAGGAATCTTAATCGC
TTTGCTTCATCAGAATCAGCAAGTTCAAATACAAGGCATTATCTCCCAGGAAGCAGTGATCCTC
ATGCCAGTGGTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGTCTCG
AGCTCAGCCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTGAAGACTTAAATGTCTGCTGG
AAGAAGAATGGACAGTACAACATGAAGTGCAGATGGAGCGTTGGGTATCCTCAGGCCACTGATA
TGTTAGATGTCAACCACAGCTTTGTTGATGACTCAATTATAATGGATAATGGCGATGTAAACGG
GAGGTTACCTGCTGTGATCAAGTTTGAAATCCAG
						
						Genomic sequence
						
							ATTGATGAAGATACCCTTCAAGACGTTGTAAACTTGGGTTATGAAAAGGACCATGTGTGTGAAT
CTCTGCGCAATAGACTGCAAAATGAGGTATATGCAAGCAAATGAACTGTTCATCCTTTTTAATT
ATCATATTGCTGATTTTAGACCATTTTCCAGGCAACTGTTGCATATTATTTGCTATTGGACAAT
CGATTCCGAGCTACCAGTGGCTATCTGGGAGCAGACTATCAAGAATCATTGGTTAGTTCAAATT
TACACCATTTTTGTCTGACATAATTTGCAAAATGTTTAATTAACTGTCTGACCTTACGGTTCAT
TAGGAGAGGAATCTTAATCGCTTTGCTTCATCAGAATCAGCAAGTTCAAATACAAGGCATTATC
TCCCAGGAAGCAGTGATCCTCATGCCAGTGGTTTGCGCCCACATTATCCTGTTGAAAGAAAATG
GGCTCTTGGACTTCAGGTCTTGCATGATGTTCTCTTTTACTACTACTTTTGTGACACACTGAAA
TTTGTGCTGACGTATATCACTTATCCAACAGTCTCGAGCTCAGCCTCGCGAGATAATGATTGAG
GTCCTAAAGGCACTTGAAGACTTAAATGTCTGCTGGAAGAAGAATGGACAGTACAACATGAAGT
GCAGATGGAGCGTTGGGTATCCTCAGGCCACTGATATGTTAGATGTCAACCACAGCTTTGTTGA
TGACTCAATTATAATGGATAATGGCGATGTAAACGGGAGGTTACCTGCTGTGATCAAGTTTGAA
ATCCAG

Sequences
Splice junction sequence	TATGTTAGATGTCAACCACAGCTTTGTTGATGACTCAATTATAATGGATAATGGCGATGTAAAC GGGAGGTTACCTGCTGTGATCAAGTTTGAAATCCAGattgatgaagatacccttcaagacgttg taaacttgggttatgaaaaggaccatgtgtgtgaatctctgcgcaatagactgcaaaatgaggt atatgcaa
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: 546 Transcript exons: 23945654-23945743,23945813-23945896,23945977-23946117,23 946197-23946427 ATTGATGAAGATACCCTTCAAGACGTTGTAAACTTGGGTTATGAAAAGGACCATGTGTGTGAAT CTCTGCGCAATAGACTGCAAAATGAGGCAACTGTTGCATATTATTTGCTATTGGACAATCGATT CCGAGCTACCAGTGGCTATCTGGGAGCAGACTATCAAGAATCATTGGAGAGGAATCTTAATCGC TTTGCTTCATCAGAATCAGCAAGTTCAAATACAAGGCATTATCTCCCAGGAAGCAGTGATCCTC ATGCCAGTGGTTTGCGCCCACATTATCCTGTTGAAAGAAAATGGGCTCTTGGACTTCAGTCTCG AGCTCAGCCTCGCGAGATAATGATTGAGGTCCTAAAGGCACTTGAAGACTTAAATGTCTGCTGG AAGAAGAATGGACAGTACAACATGAAGTGCAGATGGAGCGTTGGGTATCCTCAGGCCACTGATA TGTTAGATGTCAACCACAGCTTTGTTGATGACTCAATTATAATGGATAATGGCGATGTAAACGG GAGGTTACCTGCTGTGATCAAGTTTGAAATCCAG
Genomic sequence	ATTGATGAAGATACCCTTCAAGACGTTGTAAACTTGGGTTATGAAAAGGACCATGTGTGTGAAT CTCTGCGCAATAGACTGCAAAATGAGGTATATGCAAGCAAATGAACTGTTCATCCTTTTTAATT ATCATATTGCTGATTTTAGACCATTTTCCAGGCAACTGTTGCATATTATTTGCTATTGGACAAT CGATTCCGAGCTACCAGTGGCTATCTGGGAGCAGACTATCAAGAATCATTGGTTAGTTCAAATT TACACCATTTTTGTCTGACATAATTTGCAAAATGTTTAATTAACTGTCTGACCTTACGGTTCAT TAGGAGAGGAATCTTAATCGCTTTGCTTCATCAGAATCAGCAAGTTCAAATACAAGGCATTATC TCCCAGGAAGCAGTGATCCTCATGCCAGTGGTTTGCGCCCACATTATCCTGTTGAAAGAAAATG GGCTCTTGGACTTCAGGTCTTGCATGATGTTCTCTTTTACTACTACTTTTGTGACACACTGAAA TTTGTGCTGACGTATATCACTTATCCAACAGTCTCGAGCTCAGCCTCGCGAGATAATGATTGAG GTCCTAAAGGCACTTGAAGACTTAAATGTCTGCTGGAAGAAGAATGGACAGTACAACATGAAGT GCAGATGGAGCGTTGGGTATCCTCAGGCCACTGATATGTTAGATGTCAACCACAGCTTTGTTGA TGACTCAATTATAATGGATAATGGCGATGTAAACGGGAGGTTACCTGCTGTGATCAAGTTTGAA ATCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007815* 						
					
						PMCS
						0.323948891

Conservation Information
Conserved circRNAs	osi_circ_007815*
PMCS	0.323948891

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23946222-23946424(+)
23945709-23946400(-)
23945827-23946413(-)
						
						Potential amino acid sequence
						
							MIEVLKALEDLNVCWKKNGQYNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVI
KFEIQIDEDTLQDVVNLGYEKDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLE
RNLNRFASSESASSNTRHYLPGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALED
LNVCWKKNGQYNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQIDEDT
LQDVVNLGYEKDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLERNLNRFASSE
SASSNTRHYLPGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALEDLNVCWKKNGQ
YNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQIDEDTLQDVVNLGYE
KDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLERNLNRFASSESASSNTRHYL
PGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALEDLNVCWKKNGQYNMKCRWSVG
YPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQ(+)
MVLFITQVYNVLKGIFINLDFKLDHSR*(-)
MQQLPHFAVYCAEIHTHGPFHNPSLQRLEGYLHQSGFQT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23946222-23946424(+) 23945709-23946400(-) 23945827-23946413(-)
Potential amino acid sequence	MIEVLKALEDLNVCWKKNGQYNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVI KFEIQIDEDTLQDVVNLGYEKDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLE RNLNRFASSESASSNTRHYLPGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALED LNVCWKKNGQYNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQIDEDT LQDVVNLGYEKDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLERNLNRFASSE SASSNTRHYLPGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALEDLNVCWKKNGQ YNMKCRWSVGYPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQIDEDTLQDVVNLGYE KDHVCESLRNRLQNEATVAYYLLLDNRFRATSGYLGADYQESLERNLNRFASSESASSNTRHYL PGSSDPHASGLRPHYPVERKWALGLQSRAQPREIMIEVLKALEDLNVCWKKNGQYNMKCRWSVG YPQATDMLDVNHSFVDDSIIMDNGDVNGRLPAVIKFEIQ(+) MVLFITQVYNVLKGIFINLDFKLDHSR(-) MQQLPHFAVYCAEIHTHGPFHNPSLQRLEGYLHQSGFQT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0484600_circ_g.3

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