Plant Circular RNA Database

Detail information of HORVU3Hr1G084750_circ_g.1

			
						 General Information
					
						CircRNA Name
						HORVU3Hr1G084750_circ_g.1
					
						ID in PlantcircBase
						hvu_circ_000018
					
						Alias
						NA
					
						Organism
						
							Hordeum vulgare						
					
						Position
						
							chrchr3H: 608940947-608941412  JBrowse»						
					
						Reference genome
						
							Hv_IBSC_PGSB_v2.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							HORVU3Hr1G084750						
					
						Parent gene annotation
						
							Predicted protein [Source:UniProtKB/TrEMBL%3BAcc:F2E0B2]
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaves, seeds
					
						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
						HORVU3Hr1G084750.7:1
HORVU3Hr1G084750.6:1
HORVU3Hr1G084750.2:1
HORVU3Hr1G084750.3:1
HORVU3Hr1G084750.1:1
HORVU3Hr1G084750.4:1
HORVU3Hr1G084750.5:1

General Information
CircRNA Name	HORVU3Hr1G084750_circ_g.1
ID in PlantcircBase	hvu_circ_000018
Alias	NA
Organism	Hordeum vulgare
Position	chrchr3H: 608940947-608941412 JBrowse»
Reference genome	Hv_IBSC_PGSB_v2.38
Type	e-circRNA
Identification method	CIRI
Parent gene	HORVU3Hr1G084750
Parent gene annotation	Predicted protein [Source:UniProtKB/TrEMBL%3BAcc:F2E0B2]
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaves, seeds
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	HORVU3Hr1G084750.7:1 HORVU3Hr1G084750.6:1 HORVU3Hr1G084750.2:1 HORVU3Hr1G084750.3:1 HORVU3Hr1G084750.1:1 HORVU3Hr1G084750.4:1 HORVU3Hr1G084750.5:1

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CCTCACCTACCGATCCGCAT
 R: CCACATCGCGTGCATGATCT 
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	Yes 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	F: CCTCACCTACCGATCCGCAT R: CCACATCGCGTGCATGATCT 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  
						
							GGCCGACGCCGACGGCAGCGTCAGCGTGAACACGTACAGCGTCGCCAGCAGGTAGATGTACTTG
AACTTGGCCGGCTTCCACATCGCGTGCATGATCTCCggcgcgtgcggatgcggatcggtaggtg
aggatgtgggcgagggcggggatgatgtagacggtgaagctgacgaggagggcgccgacggcgg
agttgatg

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							GGCGCGTGCGGATGCGGATCGGTAGGTGAGGATGTGGGCGAGGGCGGGGATGATGTAGACGGTG
AAGCTGACGAGGAGGGCGCCGACGGCGGAGTTGATGGGGCCGAAGAAGGGGAAGATGATGGCGA
GGAACCAGATGGGGACGACGATGGGGAGCCTGGCGAGGGCGCGGAGGCAGACGCTCTTGGTGTC
GTGCATGCCGATCACCTTCTCCCACACGAAGTAGAGCGGCGTGCAGGCGAAGCCGAAGGTGATG
AACTGGTGGATGAGCATGAGGATCACGGCGGCGTCCCGCCACGCCGTCTTGGGCAGCAGCGAGA
AGGCGTTGGCGTGCGCCAGCAGCTCGTCCCCGTACGCCCAGTACATGGCCGACGCCGACGGCAG
CGTCAGCGTGAACACGTACAGCGTCGCCAGCAGGTAGATGTACTTGAACTTGGCCGGCTTCCAC
ATCGCGTGCATGATCTCC

Sequences
Splice junction sequence	GGCCGACGCCGACGGCAGCGTCAGCGTGAACACGTACAGCGTCGCCAGCAGGTAGATGTACTTG AACTTGGCCGGCTTCCACATCGCGTGCATGATCTCCggcgcgtgcggatgcggatcggtaggtg aggatgtgggcgagggcggggatgatgtagacggtgaagctgacgaggagggcgccgacggcgg agttgatg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GGCGCGTGCGGATGCGGATCGGTAGGTGAGGATGTGGGCGAGGGCGGGGATGATGTAGACGGTG AAGCTGACGAGGAGGGCGCCGACGGCGGAGTTGATGGGGCCGAAGAAGGGGAAGATGATGGCGA GGAACCAGATGGGGACGACGATGGGGAGCCTGGCGAGGGCGCGGAGGCAGACGCTCTTGGTGTC GTGCATGCCGATCACCTTCTCCCACACGAAGTAGAGCGGCGTGCAGGCGAAGCCGAAGGTGATG AACTGGTGGATGAGCATGAGGATCACGGCGGCGTCCCGCCACGCCGTCTTGGGCAGCAGCGAGA AGGCGTTGGCGTGCGCCAGCAGCTCGTCCCCGTACGCCCAGTACATGGCCGACGCCGACGGCAG CGTCAGCGTGAACACGTACAGCGTCGCCAGCAGGTAGATGTACTTGAACTTGGCCGGCTTCCAC ATCGCGTGCATGATCTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_004870 osa_circ_004869 osa_circ_028081* zma_circ_001454 
osa_circ_006214* osa_circ_006213 						
					
						PMCS
						0.731231031

Conservation Information
Conserved circRNAs	osa_circ_004870 osa_circ_004869 osa_circ_028081* zma_circ_001454 osa_circ_006214* osa_circ_006213
PMCS	0.731231031

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Darbani et al., 2016

circRNA

Detail information of HORVU3Hr1G084750_circ_g.1

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