Plant Circular RNA Database

Detail information of Os08g0270200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0270200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036556
					
						Alias
						Os08circ05832/Os_ciR3174
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 10332230-10332771  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os08g0270200						
					
						Parent gene annotation
						
							Exosome-associated family protein. (Os08t0270200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/4/5
					
						Tissues
						panicle/root/shoot, root, 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  
						
							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
						Os08t0270200-01:3

General Information
CircRNA Name	Os08g0270200_circ_g.1
ID in PlantcircBase	osa_circ_036556
Alias	Os08circ05832/Os_ciR3174
Organism	Oryza sativa
Position	chr8: 10332230-10332771 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os08g0270200
Parent gene annotation	Exosome-associated family protein. (Os08t0270200-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/4/5
Tissues	panicle/root/shoot, root, 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	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	Os08t0270200-01:3

			
						 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  
						
							GAGCTTAGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATG
AGGACTAAGATTGTGTATTGTTGGTTTTATCCAGAGgagaggttaagcttgtgggaggaaaagt
taaatcgatttgaggactgggacaagggtacttgacaactcattaactattggtggaaatatca
tatctatg

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 222
Transcript exons: 10332230-10332380,10332701-10332771
GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGGTACTTGAC
AACTCATTAACTATTGGTGGAAATATCATATCTATGCACACGTATACCAAATTACTGCTTGTGT
TCTGAATTGCAGCACCATTGCGCGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATGAGGACT
AAGATTGTGTATTGTTGGTTTTATCCAGAG
Transcript length: 376
Transcript exons: 10332230-10332284,10332370-10332450,10332532-10332771
GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGCACCATTGC
GCCCAACCACTACAGTGAATACACAGGCAGCAGCAAGGTTCATTGGTCACTCATTGCCCCATTT
GACAACTGATCAGAAGAGGAGCATGCAGGCAATCAGTAGAGGAGAAGGAGGGAGTTACTCTGGG
AACAAGAGAAAACCACAACCACCGCGGCCAAATAAGAAGTCTGTTCGTGCTGCCACGGAAGAAT
TCCTTGCAAAAGCAGCTCTGGAGCTTAGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAG
GCTCCTCTCTGATGAAGATGAGGACTAAGATTGTGTATTGTTGGTTTTATCCAGAG
						
						Genomic sequence
						
							GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGGTACTTGAC
AACTCATTAACTATTGGTGGAAATATCATATCTATGCACACGTATACCAAATTACTGCTTGTGT
TCTGAATTGCAGCACCATTGCGCCCAACCACTACAGTGAATACACAGGCAGCAGCAAGGTTCAT
TGGTCACTCATTGCCCCATTTGACAACTGGTACATAATTGTTTATTGAAAAGTTTTACGAACGG
TTTGGTTTTTTATGGTGTAGTGTTGAGGTTTCATTTGCTATTTCAGATCAGAAGAGGAGCATGC
AGGCAATCAGTAGAGGAGAAGGAGGGAGTTACTCTGGGAACAAGAGAAAACCACAACCACCGCG
GCCAAATAAGAAGTCTGTTCGTGCTGCCACGGAAGAATTCCTTGCAAAAGCAGCTCTGGAGCTT
AGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATGAGGACT
AAGATTGTGTATTGTTGGTTTTATCCAGAG

Sequences
Splice junction sequence	GAGCTTAGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATG AGGACTAAGATTGTGTATTGTTGGTTTTATCCAGAGgagaggttaagcttgtgggaggaaaagt taaatcgatttgaggactgggacaagggtacttgacaactcattaactattggtggaaatatca tatctatg
Assembled circRNA sequence	Yes 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	Transcript length: 222 Transcript exons: 10332230-10332380,10332701-10332771 GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGGTACTTGAC AACTCATTAACTATTGGTGGAAATATCATATCTATGCACACGTATACCAAATTACTGCTTGTGT TCTGAATTGCAGCACCATTGCGCGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATGAGGACT AAGATTGTGTATTGTTGGTTTTATCCAGAG Transcript length: 376 Transcript exons: 10332230-10332284,10332370-10332450,10332532-10332771 GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGCACCATTGC GCCCAACCACTACAGTGAATACACAGGCAGCAGCAAGGTTCATTGGTCACTCATTGCCCCATTT GACAACTGATCAGAAGAGGAGCATGCAGGCAATCAGTAGAGGAGAAGGAGGGAGTTACTCTGGG AACAAGAGAAAACCACAACCACCGCGGCCAAATAAGAAGTCTGTTCGTGCTGCCACGGAAGAAT TCCTTGCAAAAGCAGCTCTGGAGCTTAGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAG GCTCCTCTCTGATGAAGATGAGGACTAAGATTGTGTATTGTTGGTTTTATCCAGAG
Genomic sequence	GAGAGGTTAAGCTTGTGGGAGGAAAAGTTAAATCGATTTGAGGACTGGGACAAGGGTACTTGAC AACTCATTAACTATTGGTGGAAATATCATATCTATGCACACGTATACCAAATTACTGCTTGTGT TCTGAATTGCAGCACCATTGCGCCCAACCACTACAGTGAATACACAGGCAGCAGCAAGGTTCAT TGGTCACTCATTGCCCCATTTGACAACTGGTACATAATTGTTTATTGAAAAGTTTTACGAACGG TTTGGTTTTTTATGGTGTAGTGTTGAGGTTTCATTTGCTATTTCAGATCAGAAGAGGAGCATGC AGGCAATCAGTAGAGGAGAAGGAGGGAGTTACTCTGGGAACAAGAGAAAACCACAACCACCGCG GCCAAATAAGAAGTCTGTTCGTGCTGCCACGGAAGAATTCCTTGCAAAAGCAGCTCTGGAGCTT AGTGGGCATAATGATAGCAAGGTGAAGGGCCCTATTAGGCTCCTCTCTGATGAAGATGAGGACT AAGATTGTGTATTGTTGGTTTTATCCAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007635* osi_circ_017721 						
					
						PMCS
						0.374055796

Conservation Information
Conserved circRNAs	osi_circ_007635* osi_circ_017721
PMCS	0.374055796

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10332728-10332740(+)
10332377-10332742(-)
10332423-10332764(-)
						
						Potential amino acid sequence
						
							MKMRTKIVYCWFYPEERLSLWEEKLNRFEDWDKAPLRPTTTVNTQAAARFIGHSLPHLTTDQKR
SMQAISRGEGGSYSGNKRKPQPPRPNKKSVRAATEEFLAKAALELSGHNDSKVKGPIRLLSDED
ED*(+)
MVPCPSPQIDLTFPPTSLTSPLDKTNNTQS*(-)
MNLAAACVFTVVVGRNGALSQSSNRFNFSSHKLNLSSG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10332728-10332740(+) 10332377-10332742(-) 10332423-10332764(-)
Potential amino acid sequence	MKMRTKIVYCWFYPEERLSLWEEKLNRFEDWDKAPLRPTTTVNTQAAARFIGHSLPHLTTDQKR SMQAISRGEGGSYSGNKRKPQPPRPNKKSVRAATEEFLAKAALELSGHNDSKVKGPIRLLSDED ED(+) MVPCPSPQIDLTFPPTSLTSPLDKTNNTQS(-) MNLAAACVFTVVVGRNGALSQSSNRFNFSSHKLNLSSG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os08g0270200_circ_g.1

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