Plant Circular RNA Database

Detail information of BGIOSGA002194_circ_g.9

			
						 General Information
					
						CircRNA Name
						BGIOSGA002194_circ_g.9
					
						ID in PlantcircBase
						osi_circ_001875
					
						Alias
						1:5692937|5695896
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr1: 5692937-5695896  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA002194						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA002194_circ_igg.1 BGIOSGA002194_circ_g.1 BGIOSGA002194_circ_igg.2 BGIOSGA002194_circ_ag.1 BGIOSGA002194_circ_g.2 BGIOSGA002194_circ_g.3 BGIOSGA002194_circ_igg.4 BGIOSGA002194_circ_ag.5 BGIOSGA002194_circ_ag.6 BGIOSGA002194_circ_g.7 BGIOSGA002194_circ_ag.8 BGIOSGA002194_circ_ag.10 BGIOSGA002194_circ_g.11 BGIOSGA002194_circ_g.12 BGIOSGA002194_circ_ag.13 BGIOSGA002193_circ_igg.1 BGIOSGA002193_circ_igg.2 BGIOSGA002193_circ_igg.3 BGIOSGA002193_circ_igg.4 BGIOSGA002193_circ_igg.5 BGIOSGA002193_circ_g.1 BGIOSGA002193_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA002194-TA:5

General Information
CircRNA Name	BGIOSGA002194_circ_g.9
ID in PlantcircBase	osi_circ_001875
Alias	1:5692937\|5695896
Organism	Oryza sativa ssp. indica
Position	chr1: 5692937-5695896 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA002194
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA002194_circ_igg.1 BGIOSGA002194_circ_g.1 BGIOSGA002194_circ_igg.2 BGIOSGA002194_circ_ag.1 BGIOSGA002194_circ_g.2 BGIOSGA002194_circ_g.3 BGIOSGA002194_circ_igg.4 BGIOSGA002194_circ_ag.5 BGIOSGA002194_circ_ag.6 BGIOSGA002194_circ_g.7 BGIOSGA002194_circ_ag.8 BGIOSGA002194_circ_ag.10 BGIOSGA002194_circ_g.11 BGIOSGA002194_circ_g.12 BGIOSGA002194_circ_ag.13 BGIOSGA002193_circ_igg.1 BGIOSGA002193_circ_igg.2 BGIOSGA002193_circ_igg.3 BGIOSGA002193_circ_igg.4 BGIOSGA002193_circ_igg.5 BGIOSGA002193_circ_g.1 BGIOSGA002193_circ_g.2
Support reads	NA
Tissues	leaf
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	BGIOSGA002194-TA:5

			
						 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  
						
							GGAGGGAATTACCATGCAAGGTTCATCTTTAATCCGTCTGACATAAACTGCTGATAGATCAGCA
TCCAATGTGATAGTTTTGGAGAGTATCAAAGCAAACcttgtagagactatttcaaaagaattca
cggactgaacaccagataaacttttcttggcatttcgtgcagagactatttccgatgagttgac
agaccgga

									
								

					

						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
						
							CTTGTAGAGACTATTTCAAAAGAATTCACGGACTGAACACCAGATAAACTTTTCTTGGCATTTC
GTGCAGAGACTATTTCCGATGAGTTGACAGACCGGACACCAGATAATTCTGGATGAGTTTCTAT
TTTTACCATTGATGGTCGGATGAGTATAGTTGCAGGAGGAAGCTGCAACAGAAAGAGATCTATT
CTTATTCTTACAAAATACACTTGAATGCTAGGGATAGTAGCTAAGATAAGATAGCAAAAGAAAA
TTATCTGTACACAAAATTGTGTAAAAATTGAATAGATTGAAAAAGACAGTGCATGATGTACAAC
AAGAGGATATCTGAAAAGATGACAATACCAGCATTGAACAAAATGAATTAATGATCAACAATTA
TTAGAAAACAGTGACCTTGTATGAGATAACATGTCTATCCTGAAAGTATATAAATCATGCAATG
ATATTCTGAATATTGCTTGAATTTACACAATCATATAGTATTAGTTAAATTGCCAGATCCGTAA
TAGAAGATCCGATTGTATTGCTATCAGGATACAAGGAAGGCACGATTGCATAGATGCTTAAGAA
ACAAAATAACACAAGAGGTGATAACACAAGAGCAAACAAATAACACAAAACTACCAAATTTCAA
TGTATAAGTAATATCATGTCAAAAACTCAGTACATACCCGCCTGTCAACTAGGACTGTTCCCTT
TACAGCAGATCCATTATAGAACAGACGGAACTGCATAAGAAGAGGCTAGGAAAATAGAATAGAC
AAGAACAGCAAACTCATTAGTTGAAAACACAGCAAAGTCAGAAAAGAGTAGATCGGAACAACAA
GGCAATAGTTAATACAGTACATGTTCAGCGGTGAGAGATCGATGCCTCTTCAAACTGTTAGGCC
TCATCACTGTTTCACTTTCATCACAAGTTGCAATGCCCTGAACAAGGCATAATAAAAAAAAAAA
GTATATCAGCTAGCTACAAGCATGGACCAAAACATCACCATTAAGTTTGAGAAGCATGATTGTC
CAGAAAGGAAAACATAACTAAAATATAACATAATAGGGTGGTGATGTCATGTATAACACACAGT
AACGGAACTTAATGTTGGTTGATGTTGATTACTGGATTTTCGAATTCTGAGTCAGTAGCAACAA
CTTTTCAGTCCACCCTTACTCAATGCAGTGGACAGTAGGAAAAATTCCTACCAGGCAATTGTTA
CAGCAGTGAGCAGGCCATTGCAGTTACTTAGCACTTTAGCAGGTACCAAATTAGGAATAAGTCA
AATAAAGTACTCCCTCCGTCCCAAAATATAACAACTTTTAGCCCTTAAGGTTTGTCCCAAAATA
TAACAACTTCTTCATCAACATTCTCTTCTTAACCAATCACAACCCTCCACCATTCAATTTTCTC
ACCTACCTCCAGTTCTTAACCAATCACAACCTTCTATTTAATTTTACCTACTTTCTTAATACCC
ATGTCCAACCCTAAAAATTGTAGAGAATAGAATAGATGTCTCACCAATGTGGGGGAGGTGATCT
CTCATATATATAGCTGAATTACAATGAATGCTAGTGCTGAGATACAATCAATACTAGTGAGTTA
CATAAGACCAAAGGTCTAGAAGAGTAACTATCTAGGAGAGTAAAGGTCTAGGAGATAAACAGGC
AAACAGCCTATAGATTAATAAATAATCCTAATAAAAATCCTTATATTCTGGGACGGAGGGAGTA
GGAGATTATCTCCTAACAAGGAGGTTTGTTATATTAGAGATCGAGAGAGAGAGAGAGGATTGGT
TTAATATTTGATATTAGTTCCATGGAAATAAATCTCTATCTCTAAGCCAAAACAGGATCAGTAA
ATTCCTAGTGAGTGATGAAATGAATCAACACTAGTATAAGGTAAATTAATATAAGAGGTATTTT
GGTTAGGAACAGGAAAGAAAGTCACACAGCAGTAAACTGGTATTGCAATACAATGTGCCAACAA
TTAACTGTTCACCCATGAAGGACACCAAGTATGGCCGTATATATCCGGTTGGATTTAGAGGCCG
GTTAAAAAATACCCTTCTCTAAAAAAATGAAGGACACCAAGTATCAATTTAATTAATAAGAAGG
ATAAGACTTAAATTCGAGCTTTAGAGGACCCAAACTTGGGTGGTGAGGGTGTACATCCACACCT
CCTACCAACTAAGCTCGATTCCTGGTCTGCTTTTCTCTGCCCGCATGTTTGAAACTTTATCTAA
AAATTTGTAATTATGTTGCATAGTATCTTTATGAGCAACTCCACAAATTCTGCTTTCTGCACAT
TCATGAGATGTGTTTGTCAAACTTTATTGTTGGTTTGCATCTGTTCACATTATAAACAATCAAG
TAATCCGAATTTGCTTATTAGTATGTAATAACGCCTTCACAAAACCATAACCATCAGGGGAACA
CAAACATAGAATGTCTGAAAGGTTAATGTATATATTTTAGATAATGGACTTTTCATTAATCCGG
CCTCTATATCCATCAAGGAAATACACAGCCACAACATACGCGAGTTCTTGGAGTCCAACCCACA
CGCAGAGGAAAACACATAAACACACAAAAAAAGAAGCTTGAAGACTTAGCTTAAGGGAACAGAA
GTCTTAGATTATTCATTCAAGGTGTATGGAGTGAGGAGAAAGCGCACCTGTGGTTTCAAAAATT
TTCCCTTGAAGATACTCGTGGGGCAATTGAGAGCCAAATCCACAGATACAAGGCCAGTCCCATC
AGTATGGATCAACAGCTCCTGATCTTTGTGAACAACATTGCCATGTCTGTCCTGAAATGTTACA
ATAAAGAAAAATGTGATTCCAGAAGCAAAAACAAGTATTGGAGAGGAGGGAATTACCATGCAAG
GTTCATCTTTAATCCGTCTGACATAAACTGCTGATAGATCAGCATCCAATGTGATAGTTTTGGA
GAGTATCAAAGCAAAC
						
					

			
		

Sequences
Splice junction sequence	GGAGGGAATTACCATGCAAGGTTCATCTTTAATCCGTCTGACATAAACTGCTGATAGATCAGCA TCCAATGTGATAGTTTTGGAGAGTATCAAAGCAAACcttgtagagactatttcaaaagaattca cggactgaacaccagataaacttttcttggcatttcgtgcagagactatttccgatgagttgac agaccgga
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	CTTGTAGAGACTATTTCAAAAGAATTCACGGACTGAACACCAGATAAACTTTTCTTGGCATTTC GTGCAGAGACTATTTCCGATGAGTTGACAGACCGGACACCAGATAATTCTGGATGAGTTTCTAT TTTTACCATTGATGGTCGGATGAGTATAGTTGCAGGAGGAAGCTGCAACAGAAAGAGATCTATT CTTATTCTTACAAAATACACTTGAATGCTAGGGATAGTAGCTAAGATAAGATAGCAAAAGAAAA TTATCTGTACACAAAATTGTGTAAAAATTGAATAGATTGAAAAAGACAGTGCATGATGTACAAC AAGAGGATATCTGAAAAGATGACAATACCAGCATTGAACAAAATGAATTAATGATCAACAATTA TTAGAAAACAGTGACCTTGTATGAGATAACATGTCTATCCTGAAAGTATATAAATCATGCAATG ATATTCTGAATATTGCTTGAATTTACACAATCATATAGTATTAGTTAAATTGCCAGATCCGTAA TAGAAGATCCGATTGTATTGCTATCAGGATACAAGGAAGGCACGATTGCATAGATGCTTAAGAA ACAAAATAACACAAGAGGTGATAACACAAGAGCAAACAAATAACACAAAACTACCAAATTTCAA TGTATAAGTAATATCATGTCAAAAACTCAGTACATACCCGCCTGTCAACTAGGACTGTTCCCTT TACAGCAGATCCATTATAGAACAGACGGAACTGCATAAGAAGAGGCTAGGAAAATAGAATAGAC AAGAACAGCAAACTCATTAGTTGAAAACACAGCAAAGTCAGAAAAGAGTAGATCGGAACAACAA GGCAATAGTTAATACAGTACATGTTCAGCGGTGAGAGATCGATGCCTCTTCAAACTGTTAGGCC TCATCACTGTTTCACTTTCATCACAAGTTGCAATGCCCTGAACAAGGCATAATAAAAAAAAAAA GTATATCAGCTAGCTACAAGCATGGACCAAAACATCACCATTAAGTTTGAGAAGCATGATTGTC CAGAAAGGAAAACATAACTAAAATATAACATAATAGGGTGGTGATGTCATGTATAACACACAGT AACGGAACTTAATGTTGGTTGATGTTGATTACTGGATTTTCGAATTCTGAGTCAGTAGCAACAA CTTTTCAGTCCACCCTTACTCAATGCAGTGGACAGTAGGAAAAATTCCTACCAGGCAATTGTTA CAGCAGTGAGCAGGCCATTGCAGTTACTTAGCACTTTAGCAGGTACCAAATTAGGAATAAGTCA AATAAAGTACTCCCTCCGTCCCAAAATATAACAACTTTTAGCCCTTAAGGTTTGTCCCAAAATA TAACAACTTCTTCATCAACATTCTCTTCTTAACCAATCACAACCCTCCACCATTCAATTTTCTC ACCTACCTCCAGTTCTTAACCAATCACAACCTTCTATTTAATTTTACCTACTTTCTTAATACCC ATGTCCAACCCTAAAAATTGTAGAGAATAGAATAGATGTCTCACCAATGTGGGGGAGGTGATCT CTCATATATATAGCTGAATTACAATGAATGCTAGTGCTGAGATACAATCAATACTAGTGAGTTA CATAAGACCAAAGGTCTAGAAGAGTAACTATCTAGGAGAGTAAAGGTCTAGGAGATAAACAGGC AAACAGCCTATAGATTAATAAATAATCCTAATAAAAATCCTTATATTCTGGGACGGAGGGAGTA GGAGATTATCTCCTAACAAGGAGGTTTGTTATATTAGAGATCGAGAGAGAGAGAGAGGATTGGT TTAATATTTGATATTAGTTCCATGGAAATAAATCTCTATCTCTAAGCCAAAACAGGATCAGTAA ATTCCTAGTGAGTGATGAAATGAATCAACACTAGTATAAGGTAAATTAATATAAGAGGTATTTT GGTTAGGAACAGGAAAGAAAGTCACACAGCAGTAAACTGGTATTGCAATACAATGTGCCAACAA TTAACTGTTCACCCATGAAGGACACCAAGTATGGCCGTATATATCCGGTTGGATTTAGAGGCCG GTTAAAAAATACCCTTCTCTAAAAAAATGAAGGACACCAAGTATCAATTTAATTAATAAGAAGG ATAAGACTTAAATTCGAGCTTTAGAGGACCCAAACTTGGGTGGTGAGGGTGTACATCCACACCT CCTACCAACTAAGCTCGATTCCTGGTCTGCTTTTCTCTGCCCGCATGTTTGAAACTTTATCTAA AAATTTGTAATTATGTTGCATAGTATCTTTATGAGCAACTCCACAAATTCTGCTTTCTGCACAT TCATGAGATGTGTTTGTCAAACTTTATTGTTGGTTTGCATCTGTTCACATTATAAACAATCAAG TAATCCGAATTTGCTTATTAGTATGTAATAACGCCTTCACAAAACCATAACCATCAGGGGAACA CAAACATAGAATGTCTGAAAGGTTAATGTATATATTTTAGATAATGGACTTTTCATTAATCCGG CCTCTATATCCATCAAGGAAATACACAGCCACAACATACGCGAGTTCTTGGAGTCCAACCCACA CGCAGAGGAAAACACATAAACACACAAAAAAAGAAGCTTGAAGACTTAGCTTAAGGGAACAGAA GTCTTAGATTATTCATTCAAGGTGTATGGAGTGAGGAGAAAGCGCACCTGTGGTTTCAAAAATT TTCCCTTGAAGATACTCGTGGGGCAATTGAGAGCCAAATCCACAGATACAAGGCCAGTCCCATC AGTATGGATCAACAGCTCCTGATCTTTGTGAACAACATTGCCATGTCTGTCCTGAAATGTTACA ATAAAGAAAAATGTGATTCCAGAAGCAAAAACAAGTATTGGAGAGGAGGGAATTACCATGCAAG GTTCATCTTTAATCCGTCTGACATAAACTGCTGATAGATCAGCATCCAATGTGATAGTTTTGGA GAGTATCAAAGCAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_000728* 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_000728*
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5695813-5692939(-)
						
						Potential amino acid sequence
						
							MDRHGNVVHKDQELLIHTDGTGLVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKR
HRSLTAEHPLLMQFRLFYNGSAVKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEI
VSARNAKKSLSGVQSVNSFEIVSTRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKD
QELLIHTDGTGLVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLL
MQFRLFYNGSAVKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLS
GVQSVNSFEIVSTRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKDQELLIHTDGTG
LVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLLMQFRLFYNGSA
VKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLSGVQSVNSFEIV
STRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKDQELLIHTDGTGLVSVDLALNCP
TSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLLMQFRLFYNGSAVKGTVLVDRRL
PPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLSGVQSVNSFEIVST(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5695813-5692939(-)
Potential amino acid sequence	MDRHGNVVHKDQELLIHTDGTGLVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKR HRSLTAEHPLLMQFRLFYNGSAVKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEI VSARNAKKSLSGVQSVNSFEIVSTRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKD QELLIHTDGTGLVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLL MQFRLFYNGSAVKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLS GVQSVNSFEIVSTRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKDQELLIHTDGTG LVSVDLALNCPTSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLLMQFRLFYNGSA VKGTVLVDRRLPPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLSGVQSVNSFEIV STRFALILSKTITLDADLSAVYVRRIKDEPCMDRHGNVVHKDQELLIHTDGTGLVSVDLALNCP TSIFKGKFLKPQGIATCDESETVMRPNSLKRHRSLTAEHPLLMQFRLFYNGSAVKGTVLVDRRL PPATILIRPSMVKIETHPELSGVRSVNSSEIVSARNAKKSLSGVQSVNSFEIVST(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA002194_circ_g.9

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