Plant Circular RNA Database

Detail information of BGIOSGA029226_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA029226_circ_g.1
					
						ID in PlantcircBase
						osi_circ_008255
					
						Alias
						9:21720212|21721794
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr9: 21720212-21721794  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA029226						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						BGIOSGA029226-TA:5

General Information
CircRNA Name	BGIOSGA029226_circ_g.1
ID in PlantcircBase	osi_circ_008255
Alias	9:21720212\|21721794
Organism	Oryza sativa ssp. indica
Position	chr9: 21720212-21721794 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA029226
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
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	BGIOSGA029226-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  
						
							CTACTGTTTGTCAGGGCAGGCAAGTTCAATCTTACATCAAGAGCGTTTGTTCCCTTGTCCATCA
AGTCCAACTTTGTCAACACACCGAATGTCCTCTCACcgcatcgactgtagcttcagctggtccc
ttgaaatacgcaaggccggcttcaacaagacgacggtaaccttgttcaggagcaataagatgag
gctgatag

									
								

					

						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
						
							CGCATCGACTGTAGCTTCAGCTGGTCCCTTGAAATACGCAAGGCCGGCTTCAACAAGACGACGG
TAACCTTGTTCAGGAGCAATAAGATGAGGCTGATAGCCATCTGCTTCTGATACCACCTTCTTCA
CATTTTGCACGGATAGATAACGATCAAAAGGCAGCTTCCTAAAAGCGGCAGGGAGCTTATGATC
AAACACGCCATAAATTTTATCACCACCTGATCTCCTGCAACAGTTAGGCACCCAAACAGTTAAA
GGAGTAAAATGAACGTTATAATATTGTAATTGGACAAGATCTCATCATATTAAATGACAACTAA
TTAAAAAAAATCTAGGTATTGGTGTCGTATAAAACTTATGAACACTTTATAAATTCTGTTTACA
CATTATTTTTTTTTGACTAAATCCGTTTACACATTATGAAGTATGCACTTCCATCTTCTGAAAA
GATAGGCATGTTCTGTAAATTCTTTTCATGTTCACATGAAAGATACAATATAAGTCCCGGGAAC
TCAACATAAACAGGTGCACTTTCAGCATGTATTATCCTGAGACGAGTGATGTTGATACGCCATG
CAACTACCTATGGTTCATAAGCAACATTTATGCAACAAGTCAAAATATTATGATAACGATAAGT
ATTTCTAAAATGAAAACCTAGAACTGAACCTAAAGCGCTTTACATAATTAGAAGAGAGATACAA
GAAGCCATTAAGATGATGACAGATAATTAATTACCCACCCTCCGTCCAGATGTTCCTTGAAAAC
ACGGTCAAAAGCACGACAGAGCTCCAATATAGTGTAGAGTTGAGCCTGGCACAACATTATGGAA
GCGGTGAATATAAAATTGAACAAGACAAATGCTCCTGTAACTACTTTTAGTACAGACCCGGCAA
AAACTACTTTTAGTACAAAATATATATGAATGACTGACCCCTGGATCAGCAGCCACTTCTTTCC
CAATGGTATCCAGCTCCGATTCAAGTTCATCTATAGTTTTGTTGATTAATGATGTGATGCTAGG
AATGCGTGCTTTAATAACGGCTTCAAGATGCTGAAAATGTTATAAAGCAATTATGCAAGTCCTA
AGCCTTGCTCATATACCAACTCAAAGAAACGAGAAATTTCAAGTTTGAGGTACCTGAGAAAGAA
GCTTAGCTAGATACACAGAACCCATCTTACTGGCTAGGTGTGCATAATCAGGACTATTTTCAAA
ATACTCTCTTTCCTTTTCTCTTGCAACAATCATATCAACTTTCCTGTTAATATCTGCTTGTGAG
CGGTTGACAATTCCAACCCACGGATACTGAAGACGATAGGCTCTTCCCTCAAGAACCTTTGGGG
GAAATGAAAATAGTCGAGGTAGTCCAGATAGAACAAGGTTAAATTTACAGATAAATGACAGGTC
AGAGGTATGATATGAACATTAAGAACAAAAAAAGGCTGCATGTAGATATTCTGAAACTGACAAT
GTGCAGACAGACTACTGTTTGTCAGGGCAGGCAAGTTCAATCTTACATCAAGAGCGTTTGTTCC
CTTGTCCATCAAGTCCAACTTTGTCAACACACCGAATGTCCTCTCAC
						
					

			
		

Sequences
Splice junction sequence	CTACTGTTTGTCAGGGCAGGCAAGTTCAATCTTACATCAAGAGCGTTTGTTCCCTTGTCCATCA AGTCCAACTTTGTCAACACACCGAATGTCCTCTCACcgcatcgactgtagcttcagctggtccc ttgaaatacgcaaggccggcttcaacaagacgacggtaaccttgttcaggagcaataagatgag gctgatag
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	CGCATCGACTGTAGCTTCAGCTGGTCCCTTGAAATACGCAAGGCCGGCTTCAACAAGACGACGG TAACCTTGTTCAGGAGCAATAAGATGAGGCTGATAGCCATCTGCTTCTGATACCACCTTCTTCA CATTTTGCACGGATAGATAACGATCAAAAGGCAGCTTCCTAAAAGCGGCAGGGAGCTTATGATC AAACACGCCATAAATTTTATCACCACCTGATCTCCTGCAACAGTTAGGCACCCAAACAGTTAAA GGAGTAAAATGAACGTTATAATATTGTAATTGGACAAGATCTCATCATATTAAATGACAACTAA TTAAAAAAAATCTAGGTATTGGTGTCGTATAAAACTTATGAACACTTTATAAATTCTGTTTACA CATTATTTTTTTTTGACTAAATCCGTTTACACATTATGAAGTATGCACTTCCATCTTCTGAAAA GATAGGCATGTTCTGTAAATTCTTTTCATGTTCACATGAAAGATACAATATAAGTCCCGGGAAC TCAACATAAACAGGTGCACTTTCAGCATGTATTATCCTGAGACGAGTGATGTTGATACGCCATG CAACTACCTATGGTTCATAAGCAACATTTATGCAACAAGTCAAAATATTATGATAACGATAAGT ATTTCTAAAATGAAAACCTAGAACTGAACCTAAAGCGCTTTACATAATTAGAAGAGAGATACAA GAAGCCATTAAGATGATGACAGATAATTAATTACCCACCCTCCGTCCAGATGTTCCTTGAAAAC ACGGTCAAAAGCACGACAGAGCTCCAATATAGTGTAGAGTTGAGCCTGGCACAACATTATGGAA GCGGTGAATATAAAATTGAACAAGACAAATGCTCCTGTAACTACTTTTAGTACAGACCCGGCAA AAACTACTTTTAGTACAAAATATATATGAATGACTGACCCCTGGATCAGCAGCCACTTCTTTCC CAATGGTATCCAGCTCCGATTCAAGTTCATCTATAGTTTTGTTGATTAATGATGTGATGCTAGG AATGCGTGCTTTAATAACGGCTTCAAGATGCTGAAAATGTTATAAAGCAATTATGCAAGTCCTA AGCCTTGCTCATATACCAACTCAAAGAAACGAGAAATTTCAAGTTTGAGGTACCTGAGAAAGAA GCTTAGCTAGATACACAGAACCCATCTTACTGGCTAGGTGTGCATAATCAGGACTATTTTCAAA ATACTCTCTTTCCTTTTCTCTTGCAACAATCATATCAACTTTCCTGTTAATATCTGCTTGTGAG CGGTTGACAATTCCAACCCACGGATACTGAAGACGATAGGCTCTTCCCTCAAGAACCTTTGGGG GAAATGAAAATAGTCGAGGTAGTCCAGATAGAACAAGGTTAAATTTACAGATAAATGACAGGTC AGAGGTATGATATGAACATTAAGAACAAAAAAAGGCTGCATGTAGATATTCTGAAACTGACAAT GTGCAGACAGACTACTGTTTGTCAGGGCAGGCAAGTTCAATCTTACATCAAGAGCGTTTGTTCC CTTGTCCATCAAGTCCAACTTTGTCAACACACCGAATGTCCTCTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21720317-21721793(-)
21721758-21721773(-)
21721784-21720322(+)
						
						Potential amino acid sequence
						
							MAISLILLLLNKVTVVLLKPALRISRDQLKLQSMR*(-)
MDKGTNALDVLEGRAYRLQYPWVGIVNRSQADINRKVDMIVAREKEREYFENSPDYAHLASKMG
SVYLAKLLSQHLEAVIKARIPSITSLINKTIDELESELDTIGKEVAADPGAQLYTILELCRAFD
RVFKEHLDGGRSGGDKIYGVFDHKLPAAFRKLPFDRYLSVQNVKKVVSEADGYQPHLIAPEQGY
RRLVEAGLAYFKGPAEATVDAVRGHSVC*(-)
MSSHRIDCSFSWSLEIRKAGFNKTTVTLFRSNKMRLIAICF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21720317-21721793(-) 21721758-21721773(-) 21721784-21720322(+)
Potential amino acid sequence	MAISLILLLLNKVTVVLLKPALRISRDQLKLQSMR(-) MDKGTNALDVLEGRAYRLQYPWVGIVNRSQADINRKVDMIVAREKEREYFENSPDYAHLASKMG SVYLAKLLSQHLEAVIKARIPSITSLINKTIDELESELDTIGKEVAADPGAQLYTILELCRAFD RVFKEHLDGGRSGGDKIYGVFDHKLPAAFRKLPFDRYLSVQNVKKVVSEADGYQPHLIAPEQGY RRLVEAGLAYFKGPAEATVDAVRGHSVC(-) MSSHRIDCSFSWSLEIRKAGFNKTTVTLFRSNKMRLIAICF*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA029226_circ_g.1

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