Plant Circular RNA Database

Detail information of HORVU7Hr1G020010_circ_g.1

			
						 General Information
					
						CircRNA Name
						HORVU7Hr1G020010_circ_g.1
					
						ID in PlantcircBase
						hvu_circ_000001
					
						Alias
						NA
					
						Organism
						
							Hordeum vulgare						
					
						Position
						
							chrchr7H: 27281205-27282944  JBrowse»						
					
						Reference genome
						
							Hv_IBSC_PGSB_v2.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							HORVU7Hr1G020010						
					
						Parent gene annotation
						
							Cytochrome c oxidase subunit 1 [Source:UniProtKB/TrEMBL; Acc:M0V
T18]
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaves, seeds
					
						Exon boundary  
						
							No-No							"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  
						
							AG-GA							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
						HORVU7Hr1G020010.1:1

General Information
CircRNA Name	HORVU7Hr1G020010_circ_g.1
ID in PlantcircBase	hvu_circ_000001
Alias	NA
Organism	Hordeum vulgare
Position	chrchr7H: 27281205-27282944 JBrowse»
Reference genome	Hv_IBSC_PGSB_v2.38
Type	ue-circRNA
Identification method	CIRI
Parent gene	HORVU7Hr1G020010
Parent gene annotation	Cytochrome c oxidase subunit 1 [Source:UniProtKB/TrEMBL; Acc:M0V T18]
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaves, seeds
Exon boundary	No-No "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	AG-GA 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	HORVU7Hr1G020010.1:1

			
						 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: CACTGGGTGGACAGTATTGGGA
 R: CCTATCAGAATCGGAACAAACCA
F: GACCTTCTTTCCCATGCATTTCT
 R: GGAGCTTTCCGCCACTACGA
F: AAGCAGTGGAAAGAACAAAAAATGT
 R: CTTCCCACCGGATCCTCTGTT
F: GCCATTCTGGAGGAGCAGATATT
 R: TAAGGCTGAGCTTAATAGGAGCAA
F: GCATAGATTACCAGGCTCACGCTT
 R: CTGAGCTTAATAGGAGCAAGAGACTT 
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: CACTGGGTGGACAGTATTGGGA R: CCTATCAGAATCGGAACAAACCA F: GACCTTCTTTCCCATGCATTTCT R: GGAGCTTTCCGCCACTACGA F: AAGCAGTGGAAAGAACAAAAAATGT R: CTTCCCACCGGATCCTCTGTT F: GCCATTCTGGAGGAGCAGATATT R: TAAGGCTGAGCTTAATAGGAGCAA F: GCATAGATTACCAGGCTCACGCTT R: CTGAGCTTAATAGGAGCAAGAGACTT 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  
						
							GAGCAGTTTCGGTTCTTATATATCCGTAGTTGGGATTCGTCGTTTCTTCGTAGTTGTCGCAATC
ACTTCAAGCAGTGGAAAGAACAAAAAATGTGCGGAAggcggaaagctccgcaaggaggtgcctg
gaagtggaacagaggatccggtgggaagaaatccccaagagcaaggcaagtctcgaaaaggcgg
agcacgag

									
								

					

						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
						
							GGCGGAAAGCTCCGCAAGGAGGTGCCTGGAAGTGGAACAGAGGATCCGGTGGGAAGAAATCCCC
AAGAGCAAGGCAAGTCTCGAAAAGGCGGAGCACGAGCATGCTCTCGACTTGTTTAAGTCGGAGG
ATCTTAGAAGGGAATTAGAAAAAAAAAGAGCGGGGTAGCTCAGTAATTCTGATTCTTTTCTCTT
CCAGCGTTTACTATTCTCTTTCTTCTCTTCCAGCCCCCCGGCCCCTCTTTGATAAGGAAAGTTT
TCATTTCTAAAAAACAGCAAATGACAAATCTGGTTCGATGGCTCTTCTCTACTAACCACAAGGA
TATTGGGACTCTCTATTTCATCTTCGGTGCCATTGCAGGAGTGATGGGCACATGCTTCTCCGTA
CTGATTCGTATGGAATTAGCCCGACCCGGCGATCAAATTCTTGGTGGGAATCATCAACTTTATA
ATGTTTTAATAACGGCTCACGCTTTTTTAATGATCTTTTTTATGGTTATGCCGGCGATGATAGG
TGGATTTGGTAATTGGTTTGTTCCGATTCTGATAGGTGCACCTGACATGGCATTTCCACGATTA
AATAATATATCATTCTGGTTGTTGCCACCAAGTCTCTTGCTCCTATTAAGCTCAGCCTTAGTAG
AAGTGGGCAGCGGCACTGGGTGGACAGTCTATCCGCCCTTAAGTGGTATTACCAGCCATTCTGG
AGGAGCAGTTGATTTAGCAATTTTTAGTCTTCATCTATCAGGTATTTCATCAATTTTAGGTTCT
ATCAATTTTATAACAACTATCTTCAACATGCGTGGACCTGGAATGACTATGCATAGATTACCAC
TTTTTGTGTGGTCCGTTCTAGTGACAGCATTCCTACTTTTATTATCACTTCCGGTACTGGCGGG
GGCAATTACAATGTTATTAACCGATCGAAACTTTAATACAACCTTTTTTGATCCTGCAGGAGGG
GGAGACCCAATATTATACCAGCATCTCTTTTGGTTCTTCGGTCATCCAGAGGTGTATATTCTCA
TTCTGCCTGGATTTGGTATTATTAGTCATATCGTATCGACCTTTTCAAGAAAACCGGTCTTCGG
GTATCTAGGCATGGTTTATGCCATGATAAGTATAGGTGTTCTTGGATTTCTAGTTTGGGCTCAT
CATATGTTTACTGTGGGCTTAGACGTTGATACGCGTGCCTACTTCACCGCAGCTACCATGATCA
TAGCTGTGCCCACAGGAATCAAAATCTTTAGTTGGATCGCTACCATGTGGGGAGGTTCGATACA
ATACAAAACACCCATGTTATTTGCTGTAGGGTTCATCTTTTTGTTCACCATAGGAGGGCTCACT
GGAATAGTTCTAGCAAACTCTGGGCTAGACATTGCTCTACATGATACTTATTATGTGGTTGCAC
ATTTCCATTATGTACTTTCTATGGGAGCCGTTTTTGCTTTATTTGCTGGATTTTACTATTGGGT
GGGTAAAATCTTTGGTCGGACATATCCTGAAACTTTAGGCCAAATCCATTTTTGGATCACTTTT
TTCGGGGTTAATCTGACCTTCTTTCCCATGCATTTCTTAGGGCTTTCGGGTATGCCGCGTCGTA
TTCCAGATTATCCAGATGCTTACGCCGGATGGAATGCTCTGAGCAGTTTCGGTTCTTATATATC
CGTAGTTGGGATTCGTCGTTTCTTCGTAGTTGTCGCAATCACTTCAAGCAGTGGAAAGAACAAA
AAATGTGCGGAA
						
					

			
		

Sequences
Splice junction sequence	GAGCAGTTTCGGTTCTTATATATCCGTAGTTGGGATTCGTCGTTTCTTCGTAGTTGTCGCAATC ACTTCAAGCAGTGGAAAGAACAAAAAATGTGCGGAAggcggaaagctccgcaaggaggtgcctg gaagtggaacagaggatccggtgggaagaaatccccaagagcaaggcaagtctcgaaaaggcgg agcacgag
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	GGCGGAAAGCTCCGCAAGGAGGTGCCTGGAAGTGGAACAGAGGATCCGGTGGGAAGAAATCCCC AAGAGCAAGGCAAGTCTCGAAAAGGCGGAGCACGAGCATGCTCTCGACTTGTTTAAGTCGGAGG ATCTTAGAAGGGAATTAGAAAAAAAAAGAGCGGGGTAGCTCAGTAATTCTGATTCTTTTCTCTT CCAGCGTTTACTATTCTCTTTCTTCTCTTCCAGCCCCCCGGCCCCTCTTTGATAAGGAAAGTTT TCATTTCTAAAAAACAGCAAATGACAAATCTGGTTCGATGGCTCTTCTCTACTAACCACAAGGA TATTGGGACTCTCTATTTCATCTTCGGTGCCATTGCAGGAGTGATGGGCACATGCTTCTCCGTA CTGATTCGTATGGAATTAGCCCGACCCGGCGATCAAATTCTTGGTGGGAATCATCAACTTTATA ATGTTTTAATAACGGCTCACGCTTTTTTAATGATCTTTTTTATGGTTATGCCGGCGATGATAGG TGGATTTGGTAATTGGTTTGTTCCGATTCTGATAGGTGCACCTGACATGGCATTTCCACGATTA AATAATATATCATTCTGGTTGTTGCCACCAAGTCTCTTGCTCCTATTAAGCTCAGCCTTAGTAG AAGTGGGCAGCGGCACTGGGTGGACAGTCTATCCGCCCTTAAGTGGTATTACCAGCCATTCTGG AGGAGCAGTTGATTTAGCAATTTTTAGTCTTCATCTATCAGGTATTTCATCAATTTTAGGTTCT ATCAATTTTATAACAACTATCTTCAACATGCGTGGACCTGGAATGACTATGCATAGATTACCAC TTTTTGTGTGGTCCGTTCTAGTGACAGCATTCCTACTTTTATTATCACTTCCGGTACTGGCGGG GGCAATTACAATGTTATTAACCGATCGAAACTTTAATACAACCTTTTTTGATCCTGCAGGAGGG GGAGACCCAATATTATACCAGCATCTCTTTTGGTTCTTCGGTCATCCAGAGGTGTATATTCTCA TTCTGCCTGGATTTGGTATTATTAGTCATATCGTATCGACCTTTTCAAGAAAACCGGTCTTCGG GTATCTAGGCATGGTTTATGCCATGATAAGTATAGGTGTTCTTGGATTTCTAGTTTGGGCTCAT CATATGTTTACTGTGGGCTTAGACGTTGATACGCGTGCCTACTTCACCGCAGCTACCATGATCA TAGCTGTGCCCACAGGAATCAAAATCTTTAGTTGGATCGCTACCATGTGGGGAGGTTCGATACA ATACAAAACACCCATGTTATTTGCTGTAGGGTTCATCTTTTTGTTCACCATAGGAGGGCTCACT GGAATAGTTCTAGCAAACTCTGGGCTAGACATTGCTCTACATGATACTTATTATGTGGTTGCAC ATTTCCATTATGTACTTTCTATGGGAGCCGTTTTTGCTTTATTTGCTGGATTTTACTATTGGGT GGGTAAAATCTTTGGTCGGACATATCCTGAAACTTTAGGCCAAATCCATTTTTGGATCACTTTT TTCGGGGTTAATCTGACCTTCTTTCCCATGCATTTCTTAGGGCTTTCGGGTATGCCGCGTCGTA TTCCAGATTATCCAGATGCTTACGCCGGATGGAATGCTCTGAGCAGTTTCGGTTCTTATATATC CGTAGTTGGGATTCGTCGTTTCTTCGTAGTTGTCGCAATCACTTCAAGCAGTGGAAAGAACAAA AAATGTGCGGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.580737356

Conservation Information
Conserved circRNAs	NA
PMCS	0.580737356

			
						 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 HORVU7Hr1G020010_circ_g.1

Address

Any questions?

Supported by