Plant Circular RNA Database

Detail information of Os10g0432300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os10g0432300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_006877
					
						Alias
						Os_ciR675
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 15425628-15426347  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os10g0432300						
					
						Parent gene annotation
						
							Similar to Transcription factor IID, TFIID (Fragment). (Os10t043
2300-01);Non-protein coding transcript. (Os10t0432300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0432300_circ_g.1 Os10g0432300_circ_g.2 Os10g0432300_circ_g.3 Os10g0432300_circ_g.5 						
					
						Support reads
						36/4
					
						Tissues
						root/shoot, root, seed
					
						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
						Os10t0432300-01:4

General Information
CircRNA Name	Os10g0432300_circ_g.4
ID in PlantcircBase	osa_circ_006877
Alias	Os_ciR675
Organism	Oryza sativa
Position	chr10: 15425628-15426347 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os10g0432300
Parent gene annotation	Similar to Transcription factor IID, TFIID (Fragment). (Os10t043 2300-01);Non-protein coding transcript. (Os10t0432300-02)
Parent gene strand	-
Alternative splicing	Os10g0432300_circ_g.1 Os10g0432300_circ_g.2 Os10g0432300_circ_g.3 Os10g0432300_circ_g.5
Support reads	36/4
Tissues	root/shoot, root, seed
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	Os10t0432300-01:4

			
						 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  
						
							CTGAAGCTATACCTTTGGGTTGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCC
AACCTGCAGTCCAGATTTACTGTCGAAACAATGTTCactagagaatgcgccatgagaataagca
aggccctccaggcgaataggaaatttgacatcacatgaaccaacaatgttctggatcttgaaat
cctgcatc

						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: 349
Transcript exons: 15425628-15425720,15425804-15425848,15426001-15426123,15
426260-15426347
ACTAGAGAATGCGCCATGAGAATAAGCAAGGCCCTCCAGGCGAATAGGAAATTTGACATCACAT
GAACCAACAATGTTCTGGATCTTGAAATCCTTGAACTTTGCTGGGAAGCCAAGCTTTTGGACGA
TTCGCGCATACTTCCTCGCAGCAAGCTTTGAATGGTCTTCGCTCTTTGCTCCAGTGCAAACCAT
CTTTCCCGAAGCAAATATCAGGGCTGTTGTCTTTGGGTCCCTTATCCTCATGATAACTGCAGCA
AAACGCTTTGGGTTGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCCAACCTGC
AGTCCAGATTTACTGTCGAAACAATGTTC
						
						Genomic sequence
						
							ACTAGAGAATGCGCCATGAGAATAAGCAAGGCCCTCCAGGCGAATAGGAAATTTGACATCACAT
GAACCAACAATGTTCTGGATCTTGAAATCCTGCATCATGTTCCAATGCGTCAAGCTGATATAAG
CAAGGACAATCAATCTGAATGAATTGATGTGAGCTAGAGTGGCATTACCTTGAACTTTGCTGGG
AAGCCAAGCTTTTGGACGATTCGCGCATACTGCGCTAACAAATAATCAGATAAAAATTGTTATA
GAGCAATTCAGCAAAAGCCGAAAATAGGATCAGTGAACAATTTCTCCCTGCATGATGTAAACAA
CAAGCGTTCCTAAGCATAAATAGTGATGAAACAATATGACTATTGGCTATTACCTTCCTCGCAG
CAAGCTTTGAATGGTCTTCGCTCTTTGCTCCAGTGCAAACCATCTTTCCCGAAGCAAATATCAG
GGCTGTTGTCTTTGGGTCCCTTATCCTCATGATAACTGCAGCAAAACGCTGTCCGAGCACAAAT
GATACAGTTAGATTATAGACATGACACAAATGATACAGTTAGATTATAGACATGACATGTAATT
CCGTGTTTTGTTCCTGAAAGAAACTGAATAGAAAGCATCAGAAGCTGAAGCTATACCTTTGGGT
TGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCCAACCTGCAGTCCAGATTTAC
TGTCGAAACAATGTTC

Sequences
Splice junction sequence	CTGAAGCTATACCTTTGGGTTGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCC AACCTGCAGTCCAGATTTACTGTCGAAACAATGTTCactagagaatgcgccatgagaataagca aggccctccaggcgaataggaaatttgacatcacatgaaccaacaatgttctggatcttgaaat cctgcatc
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: 349 Transcript exons: 15425628-15425720,15425804-15425848,15426001-15426123,15 426260-15426347 ACTAGAGAATGCGCCATGAGAATAAGCAAGGCCCTCCAGGCGAATAGGAAATTTGACATCACAT GAACCAACAATGTTCTGGATCTTGAAATCCTTGAACTTTGCTGGGAAGCCAAGCTTTTGGACGA TTCGCGCATACTTCCTCGCAGCAAGCTTTGAATGGTCTTCGCTCTTTGCTCCAGTGCAAACCAT CTTTCCCGAAGCAAATATCAGGGCTGTTGTCTTTGGGTCCCTTATCCTCATGATAACTGCAGCA AAACGCTTTGGGTTGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCCAACCTGC AGTCCAGATTTACTGTCGAAACAATGTTC
Genomic sequence	ACTAGAGAATGCGCCATGAGAATAAGCAAGGCCCTCCAGGCGAATAGGAAATTTGACATCACAT GAACCAACAATGTTCTGGATCTTGAAATCCTGCATCATGTTCCAATGCGTCAAGCTGATATAAG CAAGGACAATCAATCTGAATGAATTGATGTGAGCTAGAGTGGCATTACCTTGAACTTTGCTGGG AAGCCAAGCTTTTGGACGATTCGCGCATACTGCGCTAACAAATAATCAGATAAAAATTGTTATA GAGCAATTCAGCAAAAGCCGAAAATAGGATCAGTGAACAATTTCTCCCTGCATGATGTAAACAA CAAGCGTTCCTAAGCATAAATAGTGATGAAACAATATGACTATTGGCTATTACCTTCCTCGCAG CAAGCTTTGAATGGTCTTCGCTCTTTGCTCCAGTGCAAACCATCTTTCCCGAAGCAAATATCAG GGCTGTTGTCTTTGGGTCCCTTATCCTCATGATAACTGCAGCAAAACGCTGTCCGAGCACAAAT GATACAGTTAGATTATAGACATGACACAAATGATACAGTTAGATTATAGACATGACATGTAATT CCGTGTTTTGTTCCTGAAAGAAACTGAATAGAAAGCATCAGAAGCTGAAGCTATACCTTTGGGT TGTACTCTGCATTACGAGCCTGTAGAGCGATTTTTTTCAGATCCAACCTGCAGTCCAGATTTAC TGTCGAAACAATGTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002822* osi_circ_008436 						
					
						PMCS
						0.334277986

Conservation Information
Conserved circRNAs	osi_circ_002822* osi_circ_008436
PMCS	0.334277986

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15425702-15425690(+)
15426107-15426281(-)
15425849-15426281(-)
						
						Potential amino acid sequence
						
							MFWILKSLNFAGKPSFWTIRAYFLAASFEWSSLFAPVQTIFPEANIRAVVFGSLILMITAAKRF
GLYSALRACRAIFFRSNLQSRFTVETMFTRECAMRISKALQANRKFDIT*(+)
MRIRDPKTTALIFASGKMVCTGAKSEDHSKLAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVK
FPIRLEGLAYSHGAFSSEHCFDSKSGLQVGSEKNRSTGS*(-)
MRESSKSLASQQSSRISRSRTLLVHVMSNFLFAWRALLILMAHSLVNIVSTVNLDCRLDLKKIA
LQARNAEYNPKRFAAVIMRIRDPKTTALIFASGKMVCTGAKSEDHSKLAARKYARIVQKLGFPA
KFKDFKIQNIVGSCDVKFPIRLEGLAYSHGAFSSEHCFDSKSGLQVGSEKNRSTGS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15425702-15425690(+) 15426107-15426281(-) 15425849-15426281(-)
Potential amino acid sequence	MFWILKSLNFAGKPSFWTIRAYFLAASFEWSSLFAPVQTIFPEANIRAVVFGSLILMITAAKRF GLYSALRACRAIFFRSNLQSRFTVETMFTRECAMRISKALQANRKFDIT(+) MRIRDPKTTALIFASGKMVCTGAKSEDHSKLAARKYARIVQKLGFPAKFKDFKIQNIVGSCDVK FPIRLEGLAYSHGAFSSEHCFDSKSGLQVGSEKNRSTGS(-) MRESSKSLASQQSSRISRSRTLLVHVMSNFLFAWRALLILMAHSLVNIVSTVNLDCRLDLKKIA LQARNAEYNPKRFAAVIMRIRDPKTTALIFASGKMVCTGAKSEDHSKLAARKYARIVQKLGFPA KFKDFKIQNIVGSCDVKFPIRLEGLAYSHGAFSSEHCFDSKSGLQVGSEKNRSTGS*(-)
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 Os10g0432300_circ_g.4

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