Plant Circular RNA Database

Detail information of BGIOSGA010346_circ_g.3

			
						 General Information
					
						CircRNA Name
						BGIOSGA010346_circ_g.3
					
						ID in PlantcircBase
						osi_circ_004932
					
						Alias
						3:24545793|24551141
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 24545793-24551141  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA010346						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA010346_circ_igg.1 BGIOSGA010346_circ_igg.2 BGIOSGA010346_circ_igg.3 BGIOSGA010346_circ_igg.4 BGIOSGA010346_circ_g.1 BGIOSGA010346_circ_g.2 BGIOSGA010346_circ_g.4 BGIOSGA010346_circ_g.5 BGIOSGA010346_circ_g.6 						
					
						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
						BGIOSGA010346-TA:8

General Information
CircRNA Name	BGIOSGA010346_circ_g.3
ID in PlantcircBase	osi_circ_004932
Alias	3:24545793\|24551141
Organism	Oryza sativa ssp. indica
Position	chr3: 24545793-24551141 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA010346
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA010346_circ_igg.1 BGIOSGA010346_circ_igg.2 BGIOSGA010346_circ_igg.3 BGIOSGA010346_circ_igg.4 BGIOSGA010346_circ_g.1 BGIOSGA010346_circ_g.2 BGIOSGA010346_circ_g.4 BGIOSGA010346_circ_g.5 BGIOSGA010346_circ_g.6
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	BGIOSGA010346-TA:8

			
						 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  
						
							CATCTCATGAGGGCGTCCATCAGCATATTCAACAATTTTTGCAAGAGAGGGTTTCGAACTTGAA
TAACCAAGAGCGCCCATTGGATCTCTCCTCAACAGCctcaaagctttagtgcccatatccatta
gatatgaccatgtctcatcatcatcaagtgaacaatcttgcagtgcctttctgtaatgcataat
atcctccc

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	CATCTCATGAGGGCGTCCATCAGCATATTCAACAATTTTTGCAAGAGAGGGTTTCGAACTTGAA TAACCAAGAGCGCCCATTGGATCTCTCCTCAACAGCctcaaagctttagtgcccatatccatta gatatgaccatgtctcatcatcatcaagtgaacaatcttgcagtgcctttctgtaatgcataat atcctccc
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							24551124-24545795(-)
						
					

						Potential amino acid sequence
						
							MGALGYSSSKPSLAKIVEYADGRPHEMDIVAAMRNGEVLGRQTVLKSDHCPGCHNLHLPERVEG
APNFREIPEFPVYGVANPTVDGIRAVIQRISTSKGGRPILWHNMREEPVIYINGKPFVLREVER
PYKNMLEYTGIDRDRVERMEARLKEDILREAERYSGAIMVIHETDNGEIFDAWENVNNEAVLTP
LEVYKLLESEGLPIKYARVPITDGKAPKSSDFDTITLNVAAAHKDTAFVFNCQMGRGRTTTGTV
IACLLRLRIDHGRPIRLPACEYNHEDPNELGYSSGEETTDHNGHLNSSSPRPHTVTEQHPRFGI
DDILVLRKITRLFDNGIECRQTLDNVIDKCSALQNIRQAVLQYTKVINQQHVEQRVKRVALNRG
AEYLERYLKLVAFSAYLWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSMKWSIRLRPGRFFTVND
ESKASFQPSQGDVMMEAIVKARNGSVLGKGSILKMYFFPGQKRSSTINFCGAPQVFKVDGYPVY
SMATPTVDGAKEVLSYLGSKDTGRSIPQKVVVTDLREEVVVYIKGTPFVLRELDQPVDTLKHVG
ISGPMVENIEARLKEDILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYS
VLRNQGYCIDYKRIPLTREREALASDVDAIQSSVDENARYYLFISHTGYGGVAYAMAITCLGLG
ADEKFIMEQTAETHFISTSLTKSVSIKTSADIALKQGDYRDILNLTRVLVHGPKCKEEVDTVID
RCVGAGHLREDIMHYRKALQDCSLDDDETWSYLMDMGTKALRLLRRDPMGALGYSSSKPSLAKI
VEYADGRPHEMDIVAAMRNGEVLGRQTVLKSDHCPGCHNLHLPERVEGAPNFREIPEFPVYGVA
NPTVDGIRAVIQRISTSKGGRPILWHNMREEPVIYINGKPFVLREVERPYKNMLEYTGIDRDRV
ERMEARLKEDILREAERYSGAIMVIHETDNGEIFDAWENVNNEAVLTPLEVYKLLESEGLPIKY
ARVPITDGKAPKSSDFDTITLNVAAAHKDTAFVFNCQMGRGRTTTGTVIACLLRLRIDHGRPIR
LPACEYNHEDPNELGYSSGEETTDHNGHLNSSSPRPHTVTEQHPRFGIDDILVLRKITRLFDNG
IECRQTLDNVIDKCSALQNIRQAVLQYTKVINQQHVEQRVKRVALNRGAEYLERYLKLVAFSAY
LWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSMKWSIRLRPGRFFTVNDESKASFQPSQGDVMME
AIVKARNGSVLGKGSILKMYFFPGQKRSSTINFCGAPQVFKVDGYPVYSMATPTVDGAKEVLSY
LGSKDTGRSIPQKVVVTDLREEVVVYIKGTPFVLRELDQPVDTLKHVGISGPMVENIEARLKED
ILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPL
TREREALASDVDAIQSSVDENARYYLFISHTGYGGVAYAMAITCLGLGADEKFIMEQTAETHFI
STSLTKSVSIKTSADIALKQGDYRDILNLTRVLVHGPKCKEEVDTVIDRCVGAGHLREDIMHYR
KALQDCSLDDDETWSYLMDMGTKALRLLRRDPMGALGYSSSKPSLAKIVEYADGRPHEMDIVAA
MRNGEVLGRQTVLKSDHCPGCHNLHLPERVEGAPNFREIPEFPVYGVANPTVDGIRAVIQRIST
SKGGRPILWHNMREEPVIYINGKPFVLREVERPYKNMLEYTGIDRDRVERMEARLKEDILREAE
RYSGAIMVIHETDNGEIFDAWENVNNEAVLTPLEVYKLLESEGLPIKYARVPITDGKAPKSSDF
DTITLNVAAAHKDTAFVFNCQMGRGRTTTGTVIACLLRLRIDHGRPIRLPACEYNHEDPNELGY
SSGEETTDHNGHLNSSSPRPHTVTEQHPRFGIDDILVLRKITRLFDNGIECRQTLDNVIDKCSA
LQNIRQAVLQYTKVINQQHVEQRVKRVALNRGAEYLERYLKLVAFSAYLWSEAFDGFCGQGEAK
MSFKAWIHQRPEIQSMKWSIRLRPGRFFTVNDESKASFQPSQGDVMMEAIVKARNGSVLGKGSI
LKMYFFPGQKRSSTINFCGAPQVFKVDGYPVYSMATPTVDGAKEVLSYLGSKDTGRSIPQKVVV
TDLREEVVVYIKGTPFVLRELDQPVDTLKHVGISGPMVENIEARLKEDILSEVKQQGGRLLLHQ
EEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPLTREREALASDVDAIQS
SVDENARYYLFISHTGYGGVAYAMAITCLGLGADEKFIMEQTAETHFISTSLTKSVSIKTSADI
ALKQGDYRDILNLTRVLVHGPKCKEEVDTVIDRCVGAGHLREDIMHYRKALQDCSLDDDETWSY
LMDMGTKALRLLRRDPMGALGYSSSKPSLAKIVEYADGRPHEMDIVAAMRNGEVLGRQTVLKSD
HCPGCHNLHLPERVEGAPNFREIPEFPVYGVANPTVDGIRAVIQRISTSKGGRPILWHNMREEP
VIYINGKPFVLREVERPYKNMLEYTGIDRDRVERMEARLKEDILREAERYSGAIMVIHETDNGE
IFDAWENVNNEAVLTPLEVYKLLESEGLPIKYARVPITDGKAPKSSDFDTITLNVAAAHKDTAF
VFNCQMGRGRTTTGTVIACLLRLRIDHGRPIRLPACEYNHEDPNELGYSSGEETTDHNGHLNSS
SPRPHTVTEQHPRFGIDDILVLRKITRLFDNGIECRQTLDNVIDKCSALQNIRQAVLQYTKVIN
QQHVEQRVKRVALNRGAEYLERYLKLVAFSAYLWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSM
KWSIRLRPGRFFTVNDESKASFQPSQGDVMMEAIVKARNGSVLGKGSILKMYFFPGQKRSSTIN
FCGAPQVFKVDGYPVYSMATPTVDGAKEVLSYLGSKDTGRSIPQKVVVTDLREEVVVYIKGTPF
VLRELDQPVDTLKHVGISGPMVENIEARLKEDILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFW
EHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPLTREREALASDVDAIQSSVDENARYYLFISHTG
YGGVAYAMAITCLGLGADEKFIMEQTAETHFISTSLTKSVSIKTSADIALKQGDYRDILNLTRV
LVHGPKCKEEVDTVIDRCVGAGHLREDIMHYRKALQDCSLDDDETWSYLMDMGTKAL(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	24551124-24545795(-)
Potential amino acid sequence	MGALGYSSSKPSLAKIVEYADGRPHEMDIVAAMRNGEVLGRQTVLKSDHCPGCHNLHLPERVEG APNFREIPEFPVYGVANPTVDGIRAVIQRISTSKGGRPILWHNMREEPVIYINGKPFVLREVER PYKNMLEYTGIDRDRVERMEARLKEDILREAERYSGAIMVIHETDNGEIFDAWENVNNEAVLTP LEVYKLLESEGLPIKYARVPITDGKAPKSSDFDTITLNVAAAHKDTAFVFNCQMGRGRTTTGTV IACLLRLRIDHGRPIRLPACEYNHEDPNELGYSSGEETTDHNGHLNSSSPRPHTVTEQHPRFGI DDILVLRKITRLFDNGIECRQTLDNVIDKCSALQNIRQAVLQYTKVINQQHVEQRVKRVALNRG AEYLERYLKLVAFSAYLWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSMKWSIRLRPGRFFTVND ESKASFQPSQGDVMMEAIVKARNGSVLGKGSILKMYFFPGQKRSSTINFCGAPQVFKVDGYPVY SMATPTVDGAKEVLSYLGSKDTGRSIPQKVVVTDLREEVVVYIKGTPFVLRELDQPVDTLKHVG ISGPMVENIEARLKEDILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYS VLRNQGYCIDYKRIPLTREREALASDVDAIQSSVDENARYYLFISHTGYGGVAYAMAITCLGLG ADEKFIMEQTAETHFISTSLTKSVSIKTSADIALKQGDYRDILNLTRVLVHGPKCKEEVDTVID RCVGAGHLREDIMHYRKALQDCSLDDDETWSYLMDMGTKALRLLRRDPMGALGYSSSKPSLAKI VEYADGRPHEMDIVAAMRNGEVLGRQTVLKSDHCPGCHNLHLPERVEGAPNFREIPEFPVYGVA NPTVDGIRAVIQRISTSKGGRPILWHNMREEPVIYINGKPFVLREVERPYKNMLEYTGIDRDRV ERMEARLKEDILREAERYSGAIMVIHETDNGEIFDAWENVNNEAVLTPLEVYKLLESEGLPIKY ARVPITDGKAPKSSDFDTITLNVAAAHKDTAFVFNCQMGRGRTTTGTVIACLLRLRIDHGRPIR LPACEYNHEDPNELGYSSGEETTDHNGHLNSSSPRPHTVTEQHPRFGIDDILVLRKITRLFDNG IECRQTLDNVIDKCSALQNIRQAVLQYTKVINQQHVEQRVKRVALNRGAEYLERYLKLVAFSAY LWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSMKWSIRLRPGRFFTVNDESKASFQPSQGDVMME AIVKARNGSVLGKGSILKMYFFPGQKRSSTINFCGAPQVFKVDGYPVYSMATPTVDGAKEVLSY LGSKDTGRSIPQKVVVTDLREEVVVYIKGTPFVLRELDQPVDTLKHVGISGPMVENIEARLKED ILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPL TREREALASDVDAIQSSVDENARYYLFISHTGYGGVAYAMAITCLGLGADEKFIMEQTAETHFI STSLTKSVSIKTSADIALKQGDYRDILNLTRVLVHGPKCKEEVDTVIDRCVGAGHLREDIMHYR KALQDCSLDDDETWSYLMDMGTKALRLLRRDPMGALGYSSSKPSLAKIVEYADGRPHEMDIVAA MRNGEVLGRQTVLKSDHCPGCHNLHLPERVEGAPNFREIPEFPVYGVANPTVDGIRAVIQRIST SKGGRPILWHNMREEPVIYINGKPFVLREVERPYKNMLEYTGIDRDRVERMEARLKEDILREAE RYSGAIMVIHETDNGEIFDAWENVNNEAVLTPLEVYKLLESEGLPIKYARVPITDGKAPKSSDF DTITLNVAAAHKDTAFVFNCQMGRGRTTTGTVIACLLRLRIDHGRPIRLPACEYNHEDPNELGY SSGEETTDHNGHLNSSSPRPHTVTEQHPRFGIDDILVLRKITRLFDNGIECRQTLDNVIDKCSA LQNIRQAVLQYTKVINQQHVEQRVKRVALNRGAEYLERYLKLVAFSAYLWSEAFDGFCGQGEAK MSFKAWIHQRPEIQSMKWSIRLRPGRFFTVNDESKASFQPSQGDVMMEAIVKARNGSVLGKGSI LKMYFFPGQKRSSTINFCGAPQVFKVDGYPVYSMATPTVDGAKEVLSYLGSKDTGRSIPQKVVV TDLREEVVVYIKGTPFVLRELDQPVDTLKHVGISGPMVENIEARLKEDILSEVKQQGGRLLLHQ EEFNSSTGQSSVVGFWEHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPLTREREALASDVDAIQS SVDENARYYLFISHTGYGGVAYAMAITCLGLGADEKFIMEQTAETHFISTSLTKSVSIKTSADI ALKQGDYRDILNLTRVLVHGPKCKEEVDTVIDRCVGAGHLREDIMHYRKALQDCSLDDDETWSY LMDMGTKALRLLRRDPMGALGYSSSKPSLAKIVEYADGRPHEMDIVAAMRNGEVLGRQTVLKSD HCPGCHNLHLPERVEGAPNFREIPEFPVYGVANPTVDGIRAVIQRISTSKGGRPILWHNMREEP VIYINGKPFVLREVERPYKNMLEYTGIDRDRVERMEARLKEDILREAERYSGAIMVIHETDNGE IFDAWENVNNEAVLTPLEVYKLLESEGLPIKYARVPITDGKAPKSSDFDTITLNVAAAHKDTAF VFNCQMGRGRTTTGTVIACLLRLRIDHGRPIRLPACEYNHEDPNELGYSSGEETTDHNGHLNSS SPRPHTVTEQHPRFGIDDILVLRKITRLFDNGIECRQTLDNVIDKCSALQNIRQAVLQYTKVIN QQHVEQRVKRVALNRGAEYLERYLKLVAFSAYLWSEAFDGFCGQGEAKMSFKAWIHQRPEIQSM KWSIRLRPGRFFTVNDESKASFQPSQGDVMMEAIVKARNGSVLGKGSILKMYFFPGQKRSSTIN FCGAPQVFKVDGYPVYSMATPTVDGAKEVLSYLGSKDTGRSIPQKVVVTDLREEVVVYIKGTPF VLRELDQPVDTLKHVGISGPMVENIEARLKEDILSEVKQQGGRLLLHQEEFNSSTGQSSVVGFW EHIGTEDVMTPAEVYSVLRNQGYCIDYKRIPLTREREALASDVDAIQSSVDENARYYLFISHTG YGGVAYAMAITCLGLGADEKFIMEQTAETHFISTSLTKSVSIKTSADIALKQGDYRDILNLTRV LVHGPKCKEEVDTVIDRCVGAGHLREDIMHYRKALQDCSLDDDETWSYLMDMGTKAL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA010346_circ_g.3

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