Plant Circular RNA Database

Detail information of BGIOSGA028006_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA028006_circ_g.1
					
						ID in PlantcircBase
						osi_circ_007535
					
						Alias
						8:3258432|3260716
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr8: 3258432-3260716  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA028006						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA028006_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  
						
							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
						BGIOSGA028006-TA:9

General Information
CircRNA Name	BGIOSGA028006_circ_g.1
ID in PlantcircBase	osi_circ_007535
Alias	8:3258432\|3260716
Organism	Oryza sativa ssp. indica
Position	chr8: 3258432-3260716 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA028006
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA028006_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	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	BGIOSGA028006-TA:9

			
						 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  
						
							CGATACAACCAGGCTAAATGCTCATCTAAAGGACTTGATGCCTGGGCTTACCGCAAAAGTGTTC
CGTACATATAATGCTTCAATCACCTTGGATGATATTgttgccaccatgtttgctgtgatgaaag
acactgattatgcatccaagcaaacattcattgacaacttcttcactgattggagaaaaattct
tggtaaaa

									
								

					

						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
						
							GTTGCCACCATGTTTGCTGTGATGAAAGACACTGATTATGCATCCAAGCAAACATTCATTGACA
ACTTCTTCACTGATTGGAGAAAAATTCTTGGTAAAAACCATGTCATCAAGAAATTTGAGCTTTG
TGATTTCACCCCGATCTATGAATGGCACCTAAGAGAGAAGGAGAAGAAGAAGCAGATGACATCT
GAGGTACTGCATGTTTTGTTTTGACTTATTCAGCAGAATGAATTTAGTTTTTGTGCTGGTAATC
TATAAAAAGTTGTCTACGGAAGTGATCAATCTTTAAAATTCTTCTTCTGCAGGAGAAGAAAGCA
TTGAAGGAAGAGAAATTGAAACAAGAGGAGAAGTACATGTGGGCTATTGTAGATGGTGTTAAAG
AGAAGGTATTTTTCTTTGTGCTGCAAAAATGTAGTTACAGAAAGTTATGGCTAGTAATTGTAGA
TATTTCTCTTGTTCCCCATTCTTCTGTTATTGTTAGGTAAATGTTTTTTTTATTATAATCTAGC
AATTGTTTTGTTTTACCCTATTGTTCAATTTTGTGAATAATTTTGCACCAGATGTCAACAATGC
ATACCATGTGTTATACTTAGTTTGCTTCATGACATGTAATGTTGCCTCGATGTTCTTATTTTTT
TTTAACATACATGACAGCTGTGTCATCTTCTATCTGCTGTGCATACTAGGTTCATTTCGCATAA
AATTACTCTGGGTTAAAGTACTTTGTTCCTTTCAGGTTGGCAATTTCAGAGTAGAACCACCTGG
CTTGTTCAGGGGGCGCGGAGAGCATCCGAAGGTATATATATGGATACATATACTCGTCGTGCTG
TTTTAAGTAAGCGACATCATTTTGATGCTTTTTTATTACATCGTTTTAGATGGGAAAACTGAAG
CGCCGCATTAAACCAAGCGATATTACAATAAATATCGGAAAAGGGGCTCCGATCCCCGAATGTC
CCATACCTGGAGAAAGGTACGCTGGAAATTTTCCCATTACCTTTGATGTGTAATTTATATTTGT
GAAGGGGTTGCTAGTATGTGCTCACTCTTTATTTGGTCATGTGTACTGCAGTTGGAAAGAAGTC
AAACACGACAACACAGTTACATGGTTGGCCTTTTGGAATGATCCAATAAGCCAAAAAGATTTCA
AGTATGTTTTCTTGGCAGCAAGCAGTGCATTAAAGGGCCAAAGTGACAAAGAGAAGTATGAGAA
GTCTCGAAAATTGAAGGTGAGAGGGTTCATTGTTTGTGTCATGGAGTTGTTGAGTTTGCATGTA
CAAATAATTTTTTTCTGCTTGGTCATTGCAGCATCACGTACACAAAATTCGTGACACTTACACA
AAGGATTTCAGAAGCAAAGATAAGACAAAGAAACAAATTGCAGTGGCAACATACCTTATAGATA
AGTTAGCCCTTAGGGCAGGCAATGAGAAGGTACTTTCTAACCTGAGCTCTCTGACTGACATTTA
TGAATTGGGATATATTTCTTCTGCTATCGGTGCAGATTGCACAGTAATCTCCCCCGCAACCAAC
CAATAACAAAAAAAAAAAAGGAATATGTGCCTTCTGTTCCGACATCTCTTCTGAATGGATATTT
ACACTATGCAACATAGCGTTTTGGTTCAAGACTGTATCTAGGATTAGCTGTGTGGCTGCTCATC
ATAATTTTGCATAATGGTCAACATAATGCGCATAGATTTTTGTTAGAATACAATCTTCAACAAT
GACATACATATAGTTTATTAAATAGCTTTGAATTACAGTGACATACATAGTTTGTATACTTAGC
CACTACTTCAAATTCTTTTCAGGATGAAGATGAGGCTGAAACTGTTGGTTGCTGTACACTGAAG
GTTGATAATGTTACTTGTGTTCCTCCAAATAAACTGCAGGTATTGGTCTTCATTATTAATAAAT
TCTGCATGTGTAACTTGATTTAGATGATATCTGATGTTCCATAACCTTTACAGTTCGACTTCCT
TGGTAAAGATTCTATAAGATACTTCAATACTGTAGAGGTTGAACTGCTTGTATACAAGGCAATT
GAGGAATTCCGTGCTGGTAACTCTGCCCTGCAACTCTTTCTTTCCCTCCGATCCTCACCTTGCA
CTAGTGGAATCACTTCTGTTTTCTTAATCTTTATTCTAGGCAAGAAACCAGGACAAGATCTCTT
TGACAAACTCGATACAACCAGGCTAAATGCTCATCTAAAGGACTTGATGCCTGGGCTTACCGCA
AAAGTGTTCCGTACATATAATGCTTCAATCACCTTGGATGATATT
						
					

			
		

Sequences
Splice junction sequence	CGATACAACCAGGCTAAATGCTCATCTAAAGGACTTGATGCCTGGGCTTACCGCAAAAGTGTTC CGTACATATAATGCTTCAATCACCTTGGATGATATTgttgccaccatgtttgctgtgatgaaag acactgattatgcatccaagcaaacattcattgacaacttcttcactgattggagaaaaattct tggtaaaa
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	GTTGCCACCATGTTTGCTGTGATGAAAGACACTGATTATGCATCCAAGCAAACATTCATTGACA ACTTCTTCACTGATTGGAGAAAAATTCTTGGTAAAAACCATGTCATCAAGAAATTTGAGCTTTG TGATTTCACCCCGATCTATGAATGGCACCTAAGAGAGAAGGAGAAGAAGAAGCAGATGACATCT GAGGTACTGCATGTTTTGTTTTGACTTATTCAGCAGAATGAATTTAGTTTTTGTGCTGGTAATC TATAAAAAGTTGTCTACGGAAGTGATCAATCTTTAAAATTCTTCTTCTGCAGGAGAAGAAAGCA TTGAAGGAAGAGAAATTGAAACAAGAGGAGAAGTACATGTGGGCTATTGTAGATGGTGTTAAAG AGAAGGTATTTTTCTTTGTGCTGCAAAAATGTAGTTACAGAAAGTTATGGCTAGTAATTGTAGA TATTTCTCTTGTTCCCCATTCTTCTGTTATTGTTAGGTAAATGTTTTTTTTATTATAATCTAGC AATTGTTTTGTTTTACCCTATTGTTCAATTTTGTGAATAATTTTGCACCAGATGTCAACAATGC ATACCATGTGTTATACTTAGTTTGCTTCATGACATGTAATGTTGCCTCGATGTTCTTATTTTTT TTTAACATACATGACAGCTGTGTCATCTTCTATCTGCTGTGCATACTAGGTTCATTTCGCATAA AATTACTCTGGGTTAAAGTACTTTGTTCCTTTCAGGTTGGCAATTTCAGAGTAGAACCACCTGG CTTGTTCAGGGGGCGCGGAGAGCATCCGAAGGTATATATATGGATACATATACTCGTCGTGCTG TTTTAAGTAAGCGACATCATTTTGATGCTTTTTTATTACATCGTTTTAGATGGGAAAACTGAAG CGCCGCATTAAACCAAGCGATATTACAATAAATATCGGAAAAGGGGCTCCGATCCCCGAATGTC CCATACCTGGAGAAAGGTACGCTGGAAATTTTCCCATTACCTTTGATGTGTAATTTATATTTGT GAAGGGGTTGCTAGTATGTGCTCACTCTTTATTTGGTCATGTGTACTGCAGTTGGAAAGAAGTC AAACACGACAACACAGTTACATGGTTGGCCTTTTGGAATGATCCAATAAGCCAAAAAGATTTCA AGTATGTTTTCTTGGCAGCAAGCAGTGCATTAAAGGGCCAAAGTGACAAAGAGAAGTATGAGAA GTCTCGAAAATTGAAGGTGAGAGGGTTCATTGTTTGTGTCATGGAGTTGTTGAGTTTGCATGTA CAAATAATTTTTTTCTGCTTGGTCATTGCAGCATCACGTACACAAAATTCGTGACACTTACACA AAGGATTTCAGAAGCAAAGATAAGACAAAGAAACAAATTGCAGTGGCAACATACCTTATAGATA AGTTAGCCCTTAGGGCAGGCAATGAGAAGGTACTTTCTAACCTGAGCTCTCTGACTGACATTTA TGAATTGGGATATATTTCTTCTGCTATCGGTGCAGATTGCACAGTAATCTCCCCCGCAACCAAC CAATAACAAAAAAAAAAAAGGAATATGTGCCTTCTGTTCCGACATCTCTTCTGAATGGATATTT ACACTATGCAACATAGCGTTTTGGTTCAAGACTGTATCTAGGATTAGCTGTGTGGCTGCTCATC ATAATTTTGCATAATGGTCAACATAATGCGCATAGATTTTTGTTAGAATACAATCTTCAACAAT GACATACATATAGTTTATTAAATAGCTTTGAATTACAGTGACATACATAGTTTGTATACTTAGC CACTACTTCAAATTCTTTTCAGGATGAAGATGAGGCTGAAACTGTTGGTTGCTGTACACTGAAG GTTGATAATGTTACTTGTGTTCCTCCAAATAAACTGCAGGTATTGGTCTTCATTATTAATAAAT TCTGCATGTGTAACTTGATTTAGATGATATCTGATGTTCCATAACCTTTACAGTTCGACTTCCT TGGTAAAGATTCTATAAGATACTTCAATACTGTAGAGGTTGAACTGCTTGTATACAAGGCAATT GAGGAATTCCGTGCTGGTAACTCTGCCCTGCAACTCTTTCTTTCCCTCCGATCCTCACCTTGCA CTAGTGGAATCACTTCTGTTTTCTTAATCTTTATTCTAGGCAAGAAACCAGGACAAGATCTCTT TGACAAACTCGATACAACCAGGCTAAATGCTCATCTAAAGGACTTGATGCCTGGGCTTACCGCA AAAGTGTTCCGTACATATAATGCTTCAATCACCTTGGATGATATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							3258538-3260698(-)
3258444-3260640(-)
3258488-3260702(-)
3258442-3260713(+)
						
					

						Potential amino acid sequence
						
							MVFTKNFSPISEEVVNECLLGCIISVFHHSKHGGNNIIQGD*(-)
MVATISSKVIEALYVRNTFAVSPGIKSFR*(-)
MFAWMHNQCLSSQQTWWQQYHPR*(-)
MFAVMKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEK
KALKEEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGK
GAPIPECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKL
KHHVHKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCV
PPNKLQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGL
TAKVFRTYNASITLDDIVATMFAVMKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTP
IYEWHLREKEKKKQMTSEEKKALKEEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHP
KMGKLKRRIKPSDITINIGKGAPIPECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLA
ASSALKGQSDKEKYEKSRKLKHHVHKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKD
EDEAETVGCCTLKVDNVTCVPPNKLQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDL
FDKLDTTRLNAHLKDLMPGLTAKVFRTYNASITLDDIVATMFAVMKDTDYASKQTFIDNFFTDW
RKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEKKALKEEKLKQEEKYMWAIVDGVKE
KVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGKGAPIPECPIPGESWKEVKHDNTVT
WLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKLKHHVHKIRDTYTKDFRSKDKTKKQ
IAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCVPPNKLQFDFLGKDSIRYFNTVEVE
LLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGLTAKVFRTYNASITLDDIVATMFAV
MKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEKKALK
EEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGKGAPI
PECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKLKHHV
HKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCVPPNK
LQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGLTAKV
FRTYNASITLDDI(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	3258538-3260698(-) 3258444-3260640(-) 3258488-3260702(-) 3258442-3260713(+)
Potential amino acid sequence	MVFTKNFSPISEEVVNECLLGCIISVFHHSKHGGNNIIQGD(-) MVATISSKVIEALYVRNTFAVSPGIKSFR(-) MFAWMHNQCLSSQQTWWQQYHPR*(-) MFAVMKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEK KALKEEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGK GAPIPECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKL KHHVHKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCV PPNKLQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGL TAKVFRTYNASITLDDIVATMFAVMKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTP IYEWHLREKEKKKQMTSEEKKALKEEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHP KMGKLKRRIKPSDITINIGKGAPIPECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLA ASSALKGQSDKEKYEKSRKLKHHVHKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKD EDEAETVGCCTLKVDNVTCVPPNKLQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDL FDKLDTTRLNAHLKDLMPGLTAKVFRTYNASITLDDIVATMFAVMKDTDYASKQTFIDNFFTDW RKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEKKALKEEKLKQEEKYMWAIVDGVKE KVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGKGAPIPECPIPGESWKEVKHDNTVT WLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKLKHHVHKIRDTYTKDFRSKDKTKKQ IAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCVPPNKLQFDFLGKDSIRYFNTVEVE LLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGLTAKVFRTYNASITLDDIVATMFAV MKDTDYASKQTFIDNFFTDWRKILGKNHVIKKFELCDFTPIYEWHLREKEKKKQMTSEEKKALK EEKLKQEEKYMWAIVDGVKEKVGNFRVEPPGLFRGRGEHPKMGKLKRRIKPSDITINIGKGAPI PECPIPGESWKEVKHDNTVTWLAFWNDPISQKDFKYVFLAASSALKGQSDKEKYEKSRKLKHHV HKIRDTYTKDFRSKDKTKKQIAVATYLIDKLALRAGNEKDEDEAETVGCCTLKVDNVTCVPPNK LQFDFLGKDSIRYFNTVEVELLVYKAIEEFRAGKKPGQDLFDKLDTTRLNAHLKDLMPGLTAKV FRTYNASITLDDI(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA028006_circ_g.1

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