Plant Circular RNA Database

Detail information of Os07g0187700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0187700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_033063
					
						Alias
						Os07circ04013/Os_ciR880
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 4684319-4685745  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os07g0187700						
					
						Parent gene annotation
						
							WD40 protein, Regulation of the plasma membrane localization of 
phosphate transporters, Phosphate uptake and translocation (Os07
t0187700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0187700_circ_g.1 						
					
						Support reads
						2/37/2
					
						Tissues
						leaf and panicle/root/shoot, root
					
						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
						Os07t0187700-01:5

General Information
CircRNA Name	Os07g0187700_circ_g.2
ID in PlantcircBase	osa_circ_033063
Alias	Os07circ04013/Os_ciR880
Organism	Oryza sativa
Position	chr7: 4684319-4685745 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os07g0187700
Parent gene annotation	WD40 protein, Regulation of the plasma membrane localization of phosphate transporters, Phosphate uptake and translocation (Os07 t0187700-01)
Parent gene strand	+
Alternative splicing	Os07g0187700_circ_g.1
Support reads	2/37/2
Tissues	leaf and panicle/root/shoot, root
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	Os07t0187700-01:5

			
						 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  
						
							TCTGTGCTGTGGATGTAAAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTC
TCCGGTTTCCTCAATTGAATTTTGTCCTACTGAAAGgatgggcatctcagaatatttcattggc
cgagcatgaatgtgctcttagatgaacccaaggctcataagtccttccgggacatggatatcag
gttagggc

									
								

					

						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: 146
Transcript exons: 4684319-4684409,4685691-4685745
GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC
ATAAGTCCTTCCGGGACATGGATATCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTGA
ATTTTGTCCTACTGAAAG
Transcript length: 156
Transcript exons: 4684319-4684372,4685644-4685745
GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAATTTCTGTGCT
GTGGATGTAAAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTCTCCGGTTT
CCTCAATTGAATTTTGTCCTACTGAAAG
Transcript length: 506
Transcript exons: 4684319-4684410,4684705-4684804,4684892-4684964,4685046-
4685166,4685626-4685745
GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC
ATAAGTCCTTCCGGGACATGGATATCAGCTTAGATTCAGAATTTTTAGTTTCCACATCCACTGA
TGGTTCTGCAAGAATATGGAAGATAGATGAGGGGGTACCATTGGTCAATTTGACTCGATCTGCG
GATGAGAAGATTGAATGTTGCCGCTTTTCTAGGGATGGCATGAAACCATTCCTGTTTTGCACCG
TTGCAAAAGGTAACAAAGTTGTAACTGTTGTCTGGAACATAAGTGACTGGAGTCGAATTGGATA
CAAGAGACTTCTGGGAAAACCTATCTCCACACTTTCAGTTAGCATGGATGGGAAGTATCTGGCT
TTGGGGAGCCATGATGGTGATTTCTGTGCTGTGGATGTAAAGAAGATGGATGTTTCTCACTGGA
GCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTGAATTTTGTCCTACTGAAAG
						
					

						Genomic sequence
						
							GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC
ATAAGTCCTTCCGGGACATGGATATCAGGTTAGGGCAAGTGCAAGCATAATTATTTTCCTTTAT
TATTTGCAAAAGAATCCCAGGATATTCTCATCTGTTGAACAAGTGTTGTTGTAAATGGCGCAAT
CATGTAGCCGTTATCTTGAGAGAGTAACCAAGAACTTTGATAACGTAGCAGTAGTGTTGGTCCA
AACCTTAATGAAGCATTTTGGTCTTGGAAGACTCTTTTTTAGACCGAAGCGATTCTTTGAACCT
TTGGTTTTCGTCCCTGTGCTTTATTGTGAATTGACTTTTGCAATACTGCTGCTTTTCCTCTTGT
AGCTTAGATTCAGAATTTTTAGTTTCCACATCCACTGATGGTTCTGCAAGAATATGGAAGATAG
ATGAGGGGGTACCATTGGTCAATTTGACTCGATCTGCGGTATGATGCGATAAATTTGTGCAAGT
CATGTTCTCTTGTTGAGATACTGAAAGCCTTAACCATTTGGTGTTCTGGTTTTCTATGCAGGAT
GAGAAGATTGAATGTTGCCGCTTTTCTAGGGATGGCATGAAACCATTCCTGTTTTGCACCGTTG
CAAAAGGTATACTTTCTATTGTGGTCCAGAAATAGATTTATGCATATCAGATGATTTTTCTATA
TATGTGCTTTGTCATTGGAACAGGTAACAAAGTTGTAACTGTTGTCTGGAACATAAGTGACTGG
AGTCGAATTGGATACAAGAGACTTCTGGGAAAACCTATCTCCACACTTTCAGTTAGCATGGATG
GGAAGTATCTGGCTTTGTAAGTACATATAAATACTGTTGATCTTATCATACTGAACAAGTATAT
AACTCCATTGCATTTCTAGGAACATTTACAATGCCAAATTTCAAGACTAACATAAGCTACTTTC
TCCTAGTAACTTCACTATTTTGTCCTTTTTGAAGAGCTCAAAAACTTGCTTGCATTTTTTTGTT
ACATTCTCACATTGACATGTAATATATCAACAACTTGAAACAACTGTCACATAAATAATAACAA
AGAATTACTCTAGTTGACAAGGATGTTGCGTAGCTCTGAAAAAAATGGACGAAAAACATTAACA
TTATAAATTGTAATAGTGACAGTATCAGCTGGAGTAATGTTTTTTTCCTAATAAATATGCAGTG
CCCCAATACTAGCTAACATATTCTAAACTGAATTGCTTTTGATGTATTTAGTGCACCGACATGT
GAATGAATTCTGTATTTCTTCTTTCAGGGGGAGCCATGATGGTGATTTCTGTGCTGTGGATGTA
AAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTG
AATTTTGTCCTACTGAAAG
						
					

			
		

Sequences
Splice junction sequence	TCTGTGCTGTGGATGTAAAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTC TCCGGTTTCCTCAATTGAATTTTGTCCTACTGAAAGgatgggcatctcagaatatttcattggc cgagcatgaatgtgctcttagatgaacccaaggctcataagtccttccgggacatggatatcag gttagggc
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: 146 Transcript exons: 4684319-4684409,4685691-4685745 GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC ATAAGTCCTTCCGGGACATGGATATCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTGA ATTTTGTCCTACTGAAAG Transcript length: 156 Transcript exons: 4684319-4684372,4685644-4685745 GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAATTTCTGTGCT GTGGATGTAAAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTCTCCGGTTT CCTCAATTGAATTTTGTCCTACTGAAAG Transcript length: 506 Transcript exons: 4684319-4684410,4684705-4684804,4684892-4684964,4685046- 4685166,4685626-4685745 GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC ATAAGTCCTTCCGGGACATGGATATCAGCTTAGATTCAGAATTTTTAGTTTCCACATCCACTGA TGGTTCTGCAAGAATATGGAAGATAGATGAGGGGGTACCATTGGTCAATTTGACTCGATCTGCG GATGAGAAGATTGAATGTTGCCGCTTTTCTAGGGATGGCATGAAACCATTCCTGTTTTGCACCG TTGCAAAAGGTAACAAAGTTGTAACTGTTGTCTGGAACATAAGTGACTGGAGTCGAATTGGATA CAAGAGACTTCTGGGAAAACCTATCTCCACACTTTCAGTTAGCATGGATGGGAAGTATCTGGCT TTGGGGAGCCATGATGGTGATTTCTGTGCTGTGGATGTAAAGAAGATGGATGTTTCTCACTGGA GCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTGAATTTTGTCCTACTGAAAG
Genomic sequence	GATGGGCATCTCAGAATATTTCATTGGCCGAGCATGAATGTGCTCTTAGATGAACCCAAGGCTC ATAAGTCCTTCCGGGACATGGATATCAGGTTAGGGCAAGTGCAAGCATAATTATTTTCCTTTAT TATTTGCAAAAGAATCCCAGGATATTCTCATCTGTTGAACAAGTGTTGTTGTAAATGGCGCAAT CATGTAGCCGTTATCTTGAGAGAGTAACCAAGAACTTTGATAACGTAGCAGTAGTGTTGGTCCA AACCTTAATGAAGCATTTTGGTCTTGGAAGACTCTTTTTTAGACCGAAGCGATTCTTTGAACCT TTGGTTTTCGTCCCTGTGCTTTATTGTGAATTGACTTTTGCAATACTGCTGCTTTTCCTCTTGT AGCTTAGATTCAGAATTTTTAGTTTCCACATCCACTGATGGTTCTGCAAGAATATGGAAGATAG ATGAGGGGGTACCATTGGTCAATTTGACTCGATCTGCGGTATGATGCGATAAATTTGTGCAAGT CATGTTCTCTTGTTGAGATACTGAAAGCCTTAACCATTTGGTGTTCTGGTTTTCTATGCAGGAT GAGAAGATTGAATGTTGCCGCTTTTCTAGGGATGGCATGAAACCATTCCTGTTTTGCACCGTTG CAAAAGGTATACTTTCTATTGTGGTCCAGAAATAGATTTATGCATATCAGATGATTTTTCTATA TATGTGCTTTGTCATTGGAACAGGTAACAAAGTTGTAACTGTTGTCTGGAACATAAGTGACTGG AGTCGAATTGGATACAAGAGACTTCTGGGAAAACCTATCTCCACACTTTCAGTTAGCATGGATG GGAAGTATCTGGCTTTGTAAGTACATATAAATACTGTTGATCTTATCATACTGAACAAGTATAT AACTCCATTGCATTTCTAGGAACATTTACAATGCCAAATTTCAAGACTAACATAAGCTACTTTC TCCTAGTAACTTCACTATTTTGTCCTTTTTGAAGAGCTCAAAAACTTGCTTGCATTTTTTTGTT ACATTCTCACATTGACATGTAATATATCAACAACTTGAAACAACTGTCACATAAATAATAACAA AGAATTACTCTAGTTGACAAGGATGTTGCGTAGCTCTGAAAAAAATGGACGAAAAACATTAACA TTATAAATTGTAATAGTGACAGTATCAGCTGGAGTAATGTTTTTTTCCTAATAAATATGCAGTG CCCCAATACTAGCTAACATATTCTAAACTGAATTGCTTTTGATGTATTTAGTGCACCGACATGT GAATGAATTCTGTATTTCTTCTTTCAGGGGGAGCCATGATGGTGATTTCTGTGCTGTGGATGTA AAGAAGATGGATGTTTCTCACTGGAGCAAGAAGGTCCATCTTGGTTCTCCGGTTTCCTCAATTG AATTTTGTCCTACTGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017606 						
					
						PMCS
						0.371988087

Conservation Information
Conserved circRNAs	osi_circ_017606
PMCS	0.371988087

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4684353-4684352(+)
4685674-4684368(+)
4684344-4685682(-)
						
						Potential amino acid sequence
						
							MNVLLDEPKAHKSFRDMDISLDSEFLVSTSTDGSARIWKIDEGVPLVNLTRSADEKIECCRFSR
DGMKPFLFCTVAKGNKVVTVVWNISDWSRIGYKRLLGKPISTLSVSMDGKYLALGSHDGDFCAV
DVKKMDVSHWSKKVHLGSPVSSIEFCPTERMGISEYFIGRA*(+)
MFLTGARRSILVLRFPQLNFVLLKGWASQNISLAEHECALR*(+)
MKYSEMPILSVGQNSIEETGEPRWTFLLQ*(-)
						
						Sponge-miRNAs
						
							osa-miR5497 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4684353-4684352(+) 4685674-4684368(+) 4684344-4685682(-)
Potential amino acid sequence	MNVLLDEPKAHKSFRDMDISLDSEFLVSTSTDGSARIWKIDEGVPLVNLTRSADEKIECCRFSR DGMKPFLFCTVAKGNKVVTVVWNISDWSRIGYKRLLGKPISTLSVSMDGKYLALGSHDGDFCAV DVKKMDVSHWSKKVHLGSPVSSIEFCPTERMGISEYFIGRA(+) MFLTGARRSILVLRFPQLNFVLLKGWASQNISLAEHECALR(+) MKYSEMPILSVGQNSIEETGEPRWTFLLQ*(-)
Sponge-miRNAs	osa-miR5497
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 Os07g0187700_circ_g.2

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