Plant Circular RNA Database

Detail information of HORVU3Hr1G061870_circ_ig.1

			
						 General Information
					
						CircRNA Name
						HORVU3Hr1G061870_circ_ig.1
					
						ID in PlantcircBase
						hvu_circ_000016
					
						Alias
						NA
					
						Organism
						
							Hordeum vulgare						
					
						Position
						
							chrchr3H: 471566375-471567438  JBrowse»						
					
						Reference genome
						
							Hv_IBSC_PGSB_v2.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						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  
						
							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
						NA

General Information
CircRNA Name	HORVU3Hr1G061870_circ_ig.1
ID in PlantcircBase	hvu_circ_000016
Alias	NA
Organism	Hordeum vulgare
Position	chrchr3H: 471566375-471567438 JBrowse»
Reference genome	Hv_IBSC_PGSB_v2.38
Type	ig-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
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	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	NA

			
						 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: CAAATGTAATATTGTTTCTTGGGGCAT
 R: TGAGATCCTGCTCCAGAAATACTTTGA 
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: CAAATGTAATATTGTTTCTTGGGGCAT R: TGAGATCCTGCTCCAGAAATACTTTGA 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  
						
							ACAAAAGAATGGGAGAGGTTTATTTCAAAACACATGCATCAAGTCGACAATAGTAAATTTGCGT
GAGGAAGTTCAAGATGACTTGCCTATTCCAACCCGTgtaccatgcatgccccaagaaacaatat
tactacagaacagaaaacaaaagttcgtttaagagccctgtacctaacatatggcagttgaggt
ctagagtg

						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
						
							GTACCATGCATGCCCCAAGAAACAATATTACTACAGAACAGAAAACAAAAGTTCGTTTAAGAGC
CCTGTACCTAACATATGGCAGTTGAGGTCTAGAGTGGAGATACTGAGATTGTAGTTTCATACAA
TAATTTGCATTTGTCAAAATGAACTCTTACCATTTGGATGCCGCAGCCGGCTGAAAAGGAATAG
TAAAATTATTAATGCATTCATGCAGATAATGAAAAACAGAGATTGTCCACATTAGTGAATTAAG
AGTGGCTCGGGTACCTCAGGATGTATATCTCATTGCAAAAATCTTCCATGTTTTCAGTCGTGAG
ATCCTGCTCCAGAAATACTTTGATGGCAACATCAGTGCCATTCCATATACCACGGAAAACCTCT
CCAAAGAATCCTGGTGAGACATTTCGAAAAAGGTGAGCTCTGAACTTTTGCCAGGCTAAAAAAA
TGCCGACAAATAGAAACACAAAGAAAAACAGACCATTTCAAGCTAGAGCTTTCAATATGAAACA
GAAGACTGCACTATGATGACTATCAAATGGTCTAAACAAGTCTCCATGTTTATTAGCATGTCTA
CTCTCATTGTTTCTAACTATCAGAGCAGAATAGACGCCATTTAATGCCCTCAATAAAGATAGCA
TGAACAAAATGGTAACATCGTTAAATTCTTAGAAAATAACGCCGTTCAGTTACACAGTTCTACC
TGAATATTTGATTTATTTCAATAAATTTTCAGTAAAGAATAATAAGATTTTATGAATAGCTTTG
CCGAAGTTGTGTAAGACTTAGGATACAATTGAATCTGATTCATTCGATTGTCAAAAGCACTGGT
GATAGGTACGAGTAGATAAGACATAAAAAATCACTTTTTGTCGATCGTTTGATTCTGAATGCAT
ACTACAAACATATCATACCATGATAAAAGCAGCAGACACTTATCATTGCAAAGAACACAAGCAT
AACAACAAAAGAATGGGAGAGGTTTATTTCAAAACACATGCATCAAGTCGACAATAGTAAATTT
GCGTGAGGAAGTTCAAGATGACTTGCCTATTCCAACCCGT

Sequences
Splice junction sequence	ACAAAAGAATGGGAGAGGTTTATTTCAAAACACATGCATCAAGTCGACAATAGTAAATTTGCGT GAGGAAGTTCAAGATGACTTGCCTATTCCAACCCGTgtaccatgcatgccccaagaaacaatat tactacagaacagaaaacaaaagttcgtttaagagccctgtacctaacatatggcagttgaggt ctagagtg
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	GTACCATGCATGCCCCAAGAAACAATATTACTACAGAACAGAAAACAAAAGTTCGTTTAAGAGC CCTGTACCTAACATATGGCAGTTGAGGTCTAGAGTGGAGATACTGAGATTGTAGTTTCATACAA TAATTTGCATTTGTCAAAATGAACTCTTACCATTTGGATGCCGCAGCCGGCTGAAAAGGAATAG TAAAATTATTAATGCATTCATGCAGATAATGAAAAACAGAGATTGTCCACATTAGTGAATTAAG AGTGGCTCGGGTACCTCAGGATGTATATCTCATTGCAAAAATCTTCCATGTTTTCAGTCGTGAG ATCCTGCTCCAGAAATACTTTGATGGCAACATCAGTGCCATTCCATATACCACGGAAAACCTCT CCAAAGAATCCTGGTGAGACATTTCGAAAAAGGTGAGCTCTGAACTTTTGCCAGGCTAAAAAAA TGCCGACAAATAGAAACACAAAGAAAAACAGACCATTTCAAGCTAGAGCTTTCAATATGAAACA GAAGACTGCACTATGATGACTATCAAATGGTCTAAACAAGTCTCCATGTTTATTAGCATGTCTA CTCTCATTGTTTCTAACTATCAGAGCAGAATAGACGCCATTTAATGCCCTCAATAAAGATAGCA TGAACAAAATGGTAACATCGTTAAATTCTTAGAAAATAACGCCGTTCAGTTACACAGTTCTACC TGAATATTTGATTTATTTCAATAAATTTTCAGTAAAGAATAATAAGATTTTATGAATAGCTTTG CCGAAGTTGTGTAAGACTTAGGATACAATTGAATCTGATTCATTCGATTGTCAAAAGCACTGGT GATAGGTACGAGTAGATAAGACATAAAAAATCACTTTTTGTCGATCGTTTGATTCTGAATGCAT ACTACAAACATATCATACCATGATAAAAGCAGCAGACACTTATCATTGCAAAGAACACAAGCAT AACAACAAAAGAATGGGAGAGGTTTATTTCAAAACACATGCATCAAGTCGACAATAGTAAATTT GCGTGAGGAAGTTCAAGATGACTTGCCTATTCCAACCCGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.201960957

Conservation Information
Conserved circRNAs	NA
PMCS	0.201960957

			
						 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 HORVU3Hr1G061870_circ_ig.1

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