Plant Circular RNA Database

Detail information of Os08g0547500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os08g0547500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_037949
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27438418-27440085  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os08g0547550						
					
						Parent gene annotation
						
							Hypothetical protein. (Os08t0547550-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0547500_circ_g.3 Os08g0547500_circ_g.4 Os08g0547500_circ_g.5 Os08g0547500_circ_g.6 Os08g0547500_circ_g.7 						
					
						Support reads
						4
					
						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
						Os08t0547500-02:3
Os08t0547500-01:3
Os08t0547550-00:2
Os08t0547500-02:3
Os08t0547500-01:3

General Information
CircRNA Name	Os08g0547500_circ_g.2
ID in PlantcircBase	osa_circ_037949
Alias	NA
Organism	Oryza sativa
Position	chr8: 27438418-27440085 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ie-circRNA
Identification method	PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os08g0547550
Parent gene annotation	Hypothetical protein. (Os08t0547550-00)
Parent gene strand	+
Alternative splicing	Os08g0547500_circ_g.3 Os08g0547500_circ_g.4 Os08g0547500_circ_g.5 Os08g0547500_circ_g.6 Os08g0547500_circ_g.7
Support reads	4
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	Os08t0547500-02:3 Os08t0547500-01:3 Os08t0547550-00:2 Os08t0547500-02:3 Os08t0547500-01:3

			
						 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  
						
							TGTGCAGATAATAGCAGTTCTTGCATTGCCTCCCAAGGAAGACTGTAATATACGAGTCAGCTTT
GAATCTCTGTAGGGGATATGGCCATTTCTTCCCTTActgatcctgatactcatcaagttcatcc
tcatggtcactatcagtcttcttcaacttggtgagacaactgatgtcactggtgagagtttctt
gttctgcg

									
								

					

						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
						
							CTGATCCTGATACTCATCAAGTTCATCCTCATGGTCACTATCAGTCTTCTTCAACTTGGTGAGA
CAACTGATGTCACTGGTGAGAGTTTCTTGTTCTGCGTCGCTGGGGCACATGTCTTTGGCTACTT
CATCAATGGTGCTCATGTCCTTCACTACTTCATCAGAAGAAACTTCACCAGAAAACTCAGAACG
GTCTACTGAAGAAGGGTTATCATTTTCTGGATACAAGCTTCTCCTAACCTTGTCAAACCTTCTT
GGGGTATGCTTCAAGATTTCATTAGGTGGTGTCTGGCTGGTGTACTCGGAATCATCAAACCAAC
TATTTGGAATAATCATAAAGCTAGCCCTGCAGCTTTTACTTCTAGACAACGCCCTATCCTTGGA
GCTCAGTATACACCTTTTTACAGTCAGACATCCATTAGGGTAAGGTTTCTGAATGTCAAAAGAA
ATGTTAGAATCACATGTATATAGCTTGACATCATTGTCTGTGGTACCATTAGATTCACATGTAT
CTACGATCTCATCTTGTTGCTCCTCCTCGACAGGGCACATCCTGGTAGGATCTTCCATTCTGTT
TGTTATGCTCTCAAGTTCTTGGTCTTCATCAGGTTGAGGGACTGCTTCTTTGGAGATCTCTAAT
TCAGGTGTTTGGAACTCGGTGTCCTGGGGCAGCAAAAGGTCGAATTTGTGACTTGTGCTTCTTC
TATGCTCATGTATATCTATGCATTGGACTTCTCTACAATGCTCTTCAGAGACTTCTGATGCAGT
TCTGGAAGCCGCTTCTGTCATATGATATGACTCTATGCAATCAGAAGAACTATGGTGGCTGGGA
GGGTGCCAAGGTGACATAAATTTTTCATGCTTTGTTTCTTCAGGAAGATCCACTGTTTGAACAG
GGAATACAATATCATCACGGTCATCACTGAAGACATAGGATCCATTAAACACAGCATTATCTTG
ATCCTGGTAAGGAACACCAGAAGTATCTGAAACTGAAAATGCTTCTTCAGACGCATTCCGTGCA
AAAGACTCTGAGGATCGACTATGCTCATCCTATCAGAGGAAAGCCAGTTCATTAAGTTTTGCAC
AGAGCAATAGTTCTAATATTAAGTATGAAAGAAACAAATACCCATCGCTTCGCAACGCGGCCGT
CACTATGGTCATCACAATCGCTTTTAAGCAAGCAGTCAAGTTGAGACTTCACAGTATCTCTTTC
TTCCATCAATTCTTTTAGCTGTTTCTCCAGCTGAACACACATACACAAATGGGTATAAAGTTAC
AAGGTGCAAAAGATACAGAAGCATGGTATCTTATATGATAGGATAAAAAAATACCTTTTTAATT
TGTGCATCCTTCTCCCTCAATGCTTCAGCATGAGTAGTGCAGGAGGCTGGCGCCGGAAATTTAA
TCTCACTTTGTAATCTTTCAAGTTCTCTTTGTAGATGCTTCACGAGTGCCTTATCAGACATCAC
TACATTGACCTGTGCATTTGTAACTACCTCCTTTGCACAAGTAGCAAACAATAGTGTATTCCTG
GATTGCTCAATATGACTCCGTGCAGGGCTCATTGTGCAGATAATAGCAGTTCTTGCATTGCCTC
CCAAGGAAGACTGTAATATACGAGTCAGCTTTGAATCTCTGTAGGGGATATGGCCATTTCTTCC
CTTA
						
					

			
		

Sequences
Splice junction sequence	TGTGCAGATAATAGCAGTTCTTGCATTGCCTCCCAAGGAAGACTGTAATATACGAGTCAGCTTT GAATCTCTGTAGGGGATATGGCCATTTCTTCCCTTActgatcctgatactcatcaagttcatcc tcatggtcactatcagtcttcttcaacttggtgagacaactgatgtcactggtgagagtttctt gttctgcg
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	CTGATCCTGATACTCATCAAGTTCATCCTCATGGTCACTATCAGTCTTCTTCAACTTGGTGAGA CAACTGATGTCACTGGTGAGAGTTTCTTGTTCTGCGTCGCTGGGGCACATGTCTTTGGCTACTT CATCAATGGTGCTCATGTCCTTCACTACTTCATCAGAAGAAACTTCACCAGAAAACTCAGAACG GTCTACTGAAGAAGGGTTATCATTTTCTGGATACAAGCTTCTCCTAACCTTGTCAAACCTTCTT GGGGTATGCTTCAAGATTTCATTAGGTGGTGTCTGGCTGGTGTACTCGGAATCATCAAACCAAC TATTTGGAATAATCATAAAGCTAGCCCTGCAGCTTTTACTTCTAGACAACGCCCTATCCTTGGA GCTCAGTATACACCTTTTTACAGTCAGACATCCATTAGGGTAAGGTTTCTGAATGTCAAAAGAA ATGTTAGAATCACATGTATATAGCTTGACATCATTGTCTGTGGTACCATTAGATTCACATGTAT CTACGATCTCATCTTGTTGCTCCTCCTCGACAGGGCACATCCTGGTAGGATCTTCCATTCTGTT TGTTATGCTCTCAAGTTCTTGGTCTTCATCAGGTTGAGGGACTGCTTCTTTGGAGATCTCTAAT TCAGGTGTTTGGAACTCGGTGTCCTGGGGCAGCAAAAGGTCGAATTTGTGACTTGTGCTTCTTC TATGCTCATGTATATCTATGCATTGGACTTCTCTACAATGCTCTTCAGAGACTTCTGATGCAGT TCTGGAAGCCGCTTCTGTCATATGATATGACTCTATGCAATCAGAAGAACTATGGTGGCTGGGA GGGTGCCAAGGTGACATAAATTTTTCATGCTTTGTTTCTTCAGGAAGATCCACTGTTTGAACAG GGAATACAATATCATCACGGTCATCACTGAAGACATAGGATCCATTAAACACAGCATTATCTTG ATCCTGGTAAGGAACACCAGAAGTATCTGAAACTGAAAATGCTTCTTCAGACGCATTCCGTGCA AAAGACTCTGAGGATCGACTATGCTCATCCTATCAGAGGAAAGCCAGTTCATTAAGTTTTGCAC AGAGCAATAGTTCTAATATTAAGTATGAAAGAAACAAATACCCATCGCTTCGCAACGCGGCCGT CACTATGGTCATCACAATCGCTTTTAAGCAAGCAGTCAAGTTGAGACTTCACAGTATCTCTTTC TTCCATCAATTCTTTTAGCTGTTTCTCCAGCTGAACACACATACACAAATGGGTATAAAGTTAC AAGGTGCAAAAGATACAGAAGCATGGTATCTTATATGATAGGATAAAAAAATACCTTTTTAATT TGTGCATCCTTCTCCCTCAATGCTTCAGCATGAGTAGTGCAGGAGGCTGGCGCCGGAAATTTAA TCTCACTTTGTAATCTTTCAAGTTCTCTTTGTAGATGCTTCACGAGTGCCTTATCAGACATCAC TACATTGACCTGTGCATTTGTAACTACCTCCTTTGCACAAGTAGCAAACAATAGTGTATTCCTG GATTGCTCAATATGACTCCGTGCAGGGCTCATTGTGCAGATAATAGCAGTTCTTGCATTGCCTC CCAAGGAAGACTGTAATATACGAGTCAGCTTTGAATCTCTGTAGGGGATATGGCCATTTCTTCC CTTA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.181362825

Conservation Information
Conserved circRNAs	NA
PMCS	0.181362825

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27440068-27438476(+)
27438451-27440085(-)
						
						Potential amino acid sequence
						
							MAISSLTDPDTHQVHPHGHYQSSSTW*(+)
MRMNLMSIRISKGRNGHIPYRDSKLTRILQSSLGGNARTAIICTMSPARSHIEQSRNTLLFATC
AKEVVTNAQVNVVMSDKALVKHLQRELERLQSEIKFPAPASCTTHAEALREKDAQIKKLEKQLK
ELMEERDTVKSQLDCLLKSDCDDHSDGRVAKRWDEHSRSSESFARNASEEAFSVSDTSGVPYQD
QDNAVFNGSYVFSDDRDDIVFPVQTVDLPEETKHEKFMSPWHPPSHHSSSDCIESYHMTEAASR
TASEVSEEHCREVQCIDIHEHRRSTSHKFDLLLPQDTEFQTPELEISKEAVPQPDEDQELESIT
NRMEDPTRMCPVEEEQQDEIVDTCESNGTTDNDVKLYTCDSNISFDIQKPYPNGCLTVKRCILS
SKDRALSRSKSCRASFMIIPNSWFDDSEYTSQTPPNEILKHTPRRFDKVRRSLYPENDNPSSVD
RSEFSGEVSSDEVVKDMSTIDEVAKDMCPSDAEQETLTSDISCLTKLKKTDSDHEDELDEYQDQ
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27440068-27438476(+) 27438451-27440085(-)
Potential amino acid sequence	MAISSLTDPDTHQVHPHGHYQSSSTW(+) MRMNLMSIRISKGRNGHIPYRDSKLTRILQSSLGGNARTAIICTMSPARSHIEQSRNTLLFATC AKEVVTNAQVNVVMSDKALVKHLQRELERLQSEIKFPAPASCTTHAEALREKDAQIKKLEKQLK ELMEERDTVKSQLDCLLKSDCDDHSDGRVAKRWDEHSRSSESFARNASEEAFSVSDTSGVPYQD QDNAVFNGSYVFSDDRDDIVFPVQTVDLPEETKHEKFMSPWHPPSHHSSSDCIESYHMTEAASR TASEVSEEHCREVQCIDIHEHRRSTSHKFDLLLPQDTEFQTPELEISKEAVPQPDEDQELESIT NRMEDPTRMCPVEEEQQDEIVDTCESNGTTDNDVKLYTCDSNISFDIQKPYPNGCLTVKRCILS SKDRALSRSKSCRASFMIIPNSWFDDSEYTSQTPPNEILKHTPRRFDKVRRSLYPENDNPSSVD RSEFSGEVSSDEVVKDMSTIDEVAKDMCPSDAEQETLTSDISCLTKLKKTDSDHEDELDEYQDQ (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0547500_circ_g.2

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