Plant Circular RNA Database

Detail information of Os10g0506800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os10g0506800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_007597
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 19376211-19378726  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os10g0506800						
					
						Parent gene annotation
						
							SET domain containing protein. (Os10t0506800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0506800_circ_g.2 Os10g0506800_circ_g.4 						
					
						Support reads
						1
					
						Tissues
						seed
					
						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
						Os10t0506800-01:7

General Information
CircRNA Name	Os10g0506800_circ_g.3
ID in PlantcircBase	osa_circ_007597
Alias	NA
Organism	Oryza sativa
Position	chr10: 19376211-19378726 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os10g0506800
Parent gene annotation	SET domain containing protein. (Os10t0506800-01)
Parent gene strand	-
Alternative splicing	Os10g0506800_circ_g.2 Os10g0506800_circ_g.4
Support reads	1
Tissues	seed
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	Os10t0506800-01:7

			
						 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  
						
							ATGAAAGACTCACATGCATGGTAGAGGCACGGTTGACATATAATGTGGCTATCAAGCTTGCATC
CGTTCCATCAGGACTAATCGGGAAGTACCGTAACGCctgttccacactacacataacatcacca
ctaaatccagaaaacccctttgtcagcgccttgactccatccatggatttcatatgaacaattg
caattgag

									
								

					

						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
						
							CTGTTCCACACTACACATAACATCACCACTAAATCCAGAAAACCCCTTTGTCAGCGCCTTGACT
CCATCCATGGATTTCATATGAACAATTGCAATTGAGTTGACTTTAATTTGACATATCAAAAGAA
CCAACTGCAGATATAGTTACAAGAATTAGCTTCTTCTTCAGTAATTATAAATAAATATGAAAAT
AGTGTTCCATCAGTTCTCTACAATCTACATCCTAGGGGGCAGAAGTATATGGCAGAATTCTGAA
AGTTTAAGAAATACTCCCTCCATTCCAAATTGATCTACATATAGTATTTTTGAGGTTATTCCTA
AATGATCTACATATTTGTGTTCATTCATTAAGCCTATTCGTTATTTGTGCATTGGAGTAAATGG
ACATTGATGCATGCATCCATGCACACAAGTATAACCCACATGCAATATCTTGATTTGCTATTGG
CTAAGAAATAGTGGGGATAGTGCATGCATCAAGTTTGATGCTAGAGTAAATATAGTATGAGAGA
GTTATTAACTTTTCTTGGTCTTAGTGTACCTATGAAATATGTAGATCAATTTGGAATGGAGGGA
GTACTGAGCTAATATAAACAATAATGTCAAATCTGATATCCAGAACAATCCAAAAAATCTGACT
AAAGCAGCCATCAAGCTCAAGCCACAGTTGTAATGAAACAAGCAATTGAAAATGTAAACATACA
AAGGGAACTCTTGAGGACAAATGCCACATATACCTGTGATAAAGAATCCTCTGCCCACGAGACA
CCTGATTTATAATAGCTCTGGAGGCATAAGAACAGGACAGTTGCATATATATGTGACTCAAATT
TGCTAGCAGAAGAATCTTGATCATAGTGGTGAACGAGATCCTGCAACAGTTTAGTTCATTAGTT
CCTGATGTAACAGTACTTATGCTATAACATTTGAGTGCTTGCAGACATGAATTCTCTTATACCA
GATTTGGACCAGAGATGGTAGATCTCTTTCCGACCAGCAATTGTTTCTCTATGTACTGTGCCAT
TATCCGCCCAGCTAAAACTATATCAGCTGGCAAAACAGCTGCCCAACAGGCACCTCCACATTCA
TGCCTATGTTCAGCAATTTGTTTAGAGTCTGGAGTCTTGCTCTTTGTAGAAGTTACACTCAATT
TTGCAATATCCACCACATTATTGTTAGATTCTAGATGAGTATTTTGATTACAAGACATTTGTCC
TATAGCCTTCTCCTGGCACCTGTTTGAACAGTAAATGGGTATTGTACATGAAGGGCAGACTACG
ACATCTGCTGGAGCTTCACTAAAGCAATAGTGGCAGTGAGTATCCCGGCAAGATTTCATGATAA
TCTGCATACAACTGTACAAGTAAGAGGCATATAGAACTTCAGTTCAAGATTACAATAGTTGACT
GATTATTTAACAATGCTCATAGAGATAAGCTACTGCCCTGGCATAATAAAACAGTAAAAATATA
CTATAACTTATCAAATTTCATATTTGACTAGGACAAAGATCTAATGAAACTCAGTATAGCTTTA
GGTGGCACGTAAAAAACTCATTTGGCATAAACAATTGAGGAGATGATTCTTGATCATACCACAG
CAAGAGGATCCTCAGCATGAATCAGTGAGGCTGGAGAAATATCATTTGGAGACGACATTCCTCT
ACCTTTGTTGGGTGTAGAGGTACATTCTAGAATAACCTTAGGCTGTTGCTCTGCCATTTAGCCA
TATCGTTCACTTAGTATACATACGTACCTAACCTTTTTGAATACTAAATTGGTTGTCTACCATC
ATTACCGACCTGTATGTGGCATATCTGCATTGATGCAATTGCTGCTTGCTGTCCCAACTTCATT
CACATTTTGATGCTTTTGTAAAATCAACTTCAACTCTTGTTCTATGTTACTCTTTCCAGAAGAG
GTTACTTCCATGCTCAAAGCAACCTCCAAATCATGTATGGAAGATGAATAGTTCCTAAAAGATG
CATTTACCATCCCCCTTCTGTACCATGCCTGAAACCCATAAACAGAAACAGGTGAAATCATCAG
AGTAACTTAGTTTCCATTCTTTAGAGTGAAATCCTGCAAATAGAGACAGAACAAACAACCCAAG
CATATAAGATGCATTCAACAAAGTTCCCAAACCGTATTGCTACCTTAGCATAATTAGGTGAAAC
AGAAATGGCCCTGTCGCAATCTCGCAGACACTCTTCCAAAAGGCCCAATTTCTGTAAACTTCAG
AAACATGATCAGAACGCATGCACTATCCAGTAATGAGGTCAGATGGCAGGAAAAAAATCCTTAG
ATACATAAAAGGGAATAAGCTGAATATAACCTATTCACAATGCACTGTTTACCATGAAACACCA
CCAAGAACTAGAACATTACATCAATATGTCCAGAATGCAAACAGGTAAATGAAAGACTCACATG
CATGGTAGAGGCACGGTTGACATATAATGTGGCTATCAAGCTTGCATCCGTTCCATCAGGACTA
ATCGGGAAGTACCGTAACGC
						
					

			
		

Sequences
Splice junction sequence	ATGAAAGACTCACATGCATGGTAGAGGCACGGTTGACATATAATGTGGCTATCAAGCTTGCATC CGTTCCATCAGGACTAATCGGGAAGTACCGTAACGCctgttccacactacacataacatcacca ctaaatccagaaaacccctttgtcagcgccttgactccatccatggatttcatatgaacaattg caattgag
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	CTGTTCCACACTACACATAACATCACCACTAAATCCAGAAAACCCCTTTGTCAGCGCCTTGACT CCATCCATGGATTTCATATGAACAATTGCAATTGAGTTGACTTTAATTTGACATATCAAAAGAA CCAACTGCAGATATAGTTACAAGAATTAGCTTCTTCTTCAGTAATTATAAATAAATATGAAAAT AGTGTTCCATCAGTTCTCTACAATCTACATCCTAGGGGGCAGAAGTATATGGCAGAATTCTGAA AGTTTAAGAAATACTCCCTCCATTCCAAATTGATCTACATATAGTATTTTTGAGGTTATTCCTA AATGATCTACATATTTGTGTTCATTCATTAAGCCTATTCGTTATTTGTGCATTGGAGTAAATGG ACATTGATGCATGCATCCATGCACACAAGTATAACCCACATGCAATATCTTGATTTGCTATTGG CTAAGAAATAGTGGGGATAGTGCATGCATCAAGTTTGATGCTAGAGTAAATATAGTATGAGAGA GTTATTAACTTTTCTTGGTCTTAGTGTACCTATGAAATATGTAGATCAATTTGGAATGGAGGGA GTACTGAGCTAATATAAACAATAATGTCAAATCTGATATCCAGAACAATCCAAAAAATCTGACT AAAGCAGCCATCAAGCTCAAGCCACAGTTGTAATGAAACAAGCAATTGAAAATGTAAACATACA AAGGGAACTCTTGAGGACAAATGCCACATATACCTGTGATAAAGAATCCTCTGCCCACGAGACA CCTGATTTATAATAGCTCTGGAGGCATAAGAACAGGACAGTTGCATATATATGTGACTCAAATT TGCTAGCAGAAGAATCTTGATCATAGTGGTGAACGAGATCCTGCAACAGTTTAGTTCATTAGTT CCTGATGTAACAGTACTTATGCTATAACATTTGAGTGCTTGCAGACATGAATTCTCTTATACCA GATTTGGACCAGAGATGGTAGATCTCTTTCCGACCAGCAATTGTTTCTCTATGTACTGTGCCAT TATCCGCCCAGCTAAAACTATATCAGCTGGCAAAACAGCTGCCCAACAGGCACCTCCACATTCA TGCCTATGTTCAGCAATTTGTTTAGAGTCTGGAGTCTTGCTCTTTGTAGAAGTTACACTCAATT TTGCAATATCCACCACATTATTGTTAGATTCTAGATGAGTATTTTGATTACAAGACATTTGTCC TATAGCCTTCTCCTGGCACCTGTTTGAACAGTAAATGGGTATTGTACATGAAGGGCAGACTACG ACATCTGCTGGAGCTTCACTAAAGCAATAGTGGCAGTGAGTATCCCGGCAAGATTTCATGATAA TCTGCATACAACTGTACAAGTAAGAGGCATATAGAACTTCAGTTCAAGATTACAATAGTTGACT GATTATTTAACAATGCTCATAGAGATAAGCTACTGCCCTGGCATAATAAAACAGTAAAAATATA CTATAACTTATCAAATTTCATATTTGACTAGGACAAAGATCTAATGAAACTCAGTATAGCTTTA GGTGGCACGTAAAAAACTCATTTGGCATAAACAATTGAGGAGATGATTCTTGATCATACCACAG CAAGAGGATCCTCAGCATGAATCAGTGAGGCTGGAGAAATATCATTTGGAGACGACATTCCTCT ACCTTTGTTGGGTGTAGAGGTACATTCTAGAATAACCTTAGGCTGTTGCTCTGCCATTTAGCCA TATCGTTCACTTAGTATACATACGTACCTAACCTTTTTGAATACTAAATTGGTTGTCTACCATC ATTACCGACCTGTATGTGGCATATCTGCATTGATGCAATTGCTGCTTGCTGTCCCAACTTCATT CACATTTTGATGCTTTTGTAAAATCAACTTCAACTCTTGTTCTATGTTACTCTTTCCAGAAGAG GTTACTTCCATGCTCAAAGCAACCTCCAAATCATGTATGGAAGATGAATAGTTCCTAAAAGATG CATTTACCATCCCCCTTCTGTACCATGCCTGAAACCCATAAACAGAAACAGGTGAAATCATCAG AGTAACTTAGTTTCCATTCTTTAGAGTGAAATCCTGCAAATAGAGACAGAACAAACAACCCAAG CATATAAGATGCATTCAACAAAGTTCCCAAACCGTATTGCTACCTTAGCATAATTAGGTGAAAC AGAAATGGCCCTGTCGCAATCTCGCAGACACTCTTCCAAAAGGCCCAATTTCTGTAAACTTCAG AAACATGATCAGAACGCATGCACTATCCAGTAATGAGGTCAGATGGCAGGAAAAAAATCCTTAG ATACATAAAAGGGAATAAGCTGAATATAACCTATTCACAATGCACTGTTTACCATGAAACACCA CCAAGAACTAGAACATTACATCAATATGTCCAGAATGCAAACAGGTAAATGAAAGACTCACATG CATGGTAGAGGCACGGTTGACATATAATGTGGCTATCAAGCTTGCATCCGTTCCATCAGGACTA ATCGGGAAGTACCGTAACGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.124138143

Conservation Information
Conserved circRNAs	NA
PMCS	0.124138143

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							19378392-19376292(+)
19378647-19376213(-)
19376235-19378680(-)
						
					

						Potential amino acid sequence
						
							MALSQSRRHSSKRPNLCMVEARLTYNVAIKLASVPSGLIGKYRNACSTLHITSPLNPENPFVSA
LTPSMDFI*(+)
MHKLGLLEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNI
EQELKLILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLI
HAEDPLAVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLES
NNNVVDIAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGK
RSTISGPNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKV
NSIAIVHMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHK
LGLLEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQE
LKLILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAE
DPLAVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNN
VVDIAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRST
ISGPNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSI
AIVHMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHKLGL
LEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQELKL
ILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAEDPL
AVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNNVVD
IAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRSTISG
PNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSIAIV
HMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHKLGLLEE
CLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQELKLILQ
KHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAEDPLAVI
IMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNNVVDIAK
LSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRSTISGPNL
DLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSIAIVHMK
SMDGVKALTKGFSGFSGDVMCSVEQ(-)
MLCVVWNRRYGTSRLVLMERMQA*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	19378392-19376292(+) 19378647-19376213(-) 19376235-19378680(-)
Potential amino acid sequence	MALSQSRRHSSKRPNLCMVEARLTYNVAIKLASVPSGLIGKYRNACSTLHITSPLNPENPFVSA LTPSMDFI(+) MHKLGLLEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNI EQELKLILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLI HAEDPLAVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLES NNNVVDIAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGK RSTISGPNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKV NSIAIVHMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHK LGLLEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQE LKLILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAE DPLAVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNN VVDIAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRST ISGPNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSI AIVHMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHKLGL LEECLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQELKL ILQKHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAEDPL AVIIMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNNVVD IAKLSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRSTISG PNLDLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSIAIV HMKSMDGVKALTKGFSGFSGDVMCSVEQALRYFPISPDGTDASLIATLYVNRASTMHKLGLLEE CLRDCDRAISVSPNYAKAWYRRGMVNASFRNYSSSIHDLEVALSMEVTSSGKSNIEQELKLILQ KHQNVNEVGTASSNCINADMPHTEQQPKVILECTSTPNKGRGMSSPNDISPASLIHAEDPLAVI IMKSCRDTHCHYCFSEAPADVVVCPSCTIPIYCSNRCQEKAIGQMSCNQNTHLESNNNVVDIAK LSVTSTKSKTPDSKQIAEHRHECGGACWAAVLPADIVLAGRIMAQYIEKQLLVGKRSTISGPNL DLVHHYDQDSSASKFESHIYATVLFLCLQSYYKSGVSWAEDSLSQLVLLICQIKVNSIAIVHMK SMDGVKALTKGFSGFSGDVMCSVEQ(-) MLCVVWNRRYGTSRLVLMERMQA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0506800_circ_g.3

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