Plant Circular RNA Database

Detail information of Os12g0297500_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os12g0297500_circ_g.8
					
						ID in PlantcircBase
						osa_circ_011259
					
						Alias
						Os12circ05119/Os_ciR3687
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 11734617-11740276  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os12g0297500						
					
						Parent gene annotation
						
							Pyruvate phosphate dikinase, PEP/pyruvate-binding domain contain
ing protein. (Os12t0297500-01);Similar to Phosphoglucan, water d
ikinase, chloroplastic. (Os12t0297500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0297500_circ_g.4 Os12g0297500_circ_g.5 Os12g0297500_circ_g.6 Os12g0297500_circ_g.7 Os12g0297500_circ_g.9 Os12g0297500_circ_g.10 						
					
						Support reads
						3/2
					
						Tissues
						leaf and panicle/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  
						
							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
						Os12t0297500-01:9

General Information
CircRNA Name	Os12g0297500_circ_g.8
ID in PlantcircBase	osa_circ_011259
Alias	Os12circ05119/Os_ciR3687
Organism	Oryza sativa
Position	chr12: 11734617-11740276 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os12g0297500
Parent gene annotation	Pyruvate phosphate dikinase, PEP/pyruvate-binding domain contain ing protein. (Os12t0297500-01);Similar to Phosphoglucan, water d ikinase, chloroplastic. (Os12t0297500-02)
Parent gene strand	-
Alternative splicing	Os12g0297500_circ_g.4 Os12g0297500_circ_g.5 Os12g0297500_circ_g.6 Os12g0297500_circ_g.7 Os12g0297500_circ_g.9 Os12g0297500_circ_g.10
Support reads	3/2
Tissues	leaf and panicle/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	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	Os12t0297500-01:9

			
						 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  
						
							TGTAAGGAGAAACCTTCAGATAAATAGCTGAGTATACAAGGGCCCCCAGACGACTCTGGTCATC
AAAAGATTCTGACAATATCCCGCGAACAACCTCTAAcattactttttcagggaatatagaaaga
agtgcttcagagtactcttccgttaatctccgtgctctgtccagtgtagctttaagtcttagtg
accaaata

						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: 1155
Transcript exons: 11734617-11734735,11734843-11735048,11736835-11736887,11
736967-11737134,11737488-11737572,11738826-11739004,1173
9083-11739208,11739920-11740051,11740190-11740276
CATTACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTACTCTTCCGTTAATCTCCGTGCT
CTGTCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCCCATCTTCACAACCTTCACTTT
CAGATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTT
CCAACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGA
GTAGTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGA
TGAATCTGCTTAACAGAACAAATGAATAATCCTCAAGACTAATTTCACAAAGGCGCCACTTTTG
TCGCATTGCTATAGCATTATCAGGCGCATCATTTCTAAGGCCACTTTCAAGGCCCTTCATTAGA
ACCGATCTTAGAGAAGATAATGATTGCAAGGTAGTCATCAAAATTTGAATGGTATCATTTTTAT
CCAAATCTTCTGCATGATCCACTTGGTCCAAACTCCTTTTGGTTTCCACAAAGGATGAGAGAAC
TTCTAAGCCTGACTCGTTCAGAGATTCCTTGATGGACTCCAGTTGCTCAAATAGGCTGCCAGCA
TTGAAGAAATCTTTTAGTTCGCTATAAAATATCGTGAATTGTTCAACAAATGTTTCACTGTATT
CTCCAGGGGTCTTAGTAATCCTAGCAAGCATGACTTCTGTAGCAATAAGATCCTCAGGTCCAGC
ATTACGATGAAGTTTGTTTTGTATAGTATGCTTGATTTCTTGCTTGAGATCATGTGGGATGTCA
TTCCGGTGAGCAATATCACGAATTCGTGTTAGAGGGACAGAGGCTGTAAACTCTGACTTAAATG
AAGGTAAAAAGGGATGAATTTTGCGAATCACGAGAACATCCTTGGCTGATGTGGTTTTCCCATA
ATACATCATTTCAAGTTCACGGAATATTTGCCTCGATATCTCAGCATGTTTGTTAGGCCGATGG
TGGCCACCATCTTCAAAGCACGATATCTGACCTGTATAAATCCACTTCAGATAAATAGCTGAGT
ATACAAGGGCCCCCAGACGACTCTGGTCATCAAAAGATTCTGACAATATCCCGCGAACAACCTC
TAA
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TGTAAGGAGAAACCTTCAGATAAATAGCTGAGTATACAAGGGCCCCCAGACGACTCTGGTCATC AAAAGATTCTGACAATATCCCGCGAACAACCTCTAAcattactttttcagggaatatagaaaga agtgcttcagagtactcttccgttaatctccgtgctctgtccagtgtagctttaagtcttagtg accaaata
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: 1155 Transcript exons: 11734617-11734735,11734843-11735048,11736835-11736887,11 736967-11737134,11737488-11737572,11738826-11739004,1173 9083-11739208,11739920-11740051,11740190-11740276 CATTACTTTTTCAGGGAATATAGAAAGAAGTGCTTCAGAGTACTCTTCCGTTAATCTCCGTGCT CTGTCCAGTGTAGCTTTAAGTCTTAGTGACCAAATATATTTCCCATCTTCACAACCTTCACTTT CAGATAGACCTTTTTGCTTCCAGGAAAGAATCTCATTCCCTATGGCAATACATTCATCTGTTTT CCAACCTGAAAAGCTAACTTGATTGATGCCAATGACAAGGGCATCAAGAGTAGTATCCCATAGA GTAGTATTTCTAGCTACATCCTTTGCAAGTGAAGCTGATCCACCTAAGGCTTCAAGAGTATTGA TGAATCTGCTTAACAGAACAAATGAATAATCCTCAAGACTAATTTCACAAAGGCGCCACTTTTG TCGCATTGCTATAGCATTATCAGGCGCATCATTTCTAAGGCCACTTTCAAGGCCCTTCATTAGA ACCGATCTTAGAGAAGATAATGATTGCAAGGTAGTCATCAAAATTTGAATGGTATCATTTTTAT CCAAATCTTCTGCATGATCCACTTGGTCCAAACTCCTTTTGGTTTCCACAAAGGATGAGAGAAC TTCTAAGCCTGACTCGTTCAGAGATTCCTTGATGGACTCCAGTTGCTCAAATAGGCTGCCAGCA TTGAAGAAATCTTTTAGTTCGCTATAAAATATCGTGAATTGTTCAACAAATGTTTCACTGTATT CTCCAGGGGTCTTAGTAATCCTAGCAAGCATGACTTCTGTAGCAATAAGATCCTCAGGTCCAGC ATTACGATGAAGTTTGTTTTGTATAGTATGCTTGATTTCTTGCTTGAGATCATGTGGGATGTCA TTCCGGTGAGCAATATCACGAATTCGTGTTAGAGGGACAGAGGCTGTAAACTCTGACTTAAATG AAGGTAAAAAGGGATGAATTTTGCGAATCACGAGAACATCCTTGGCTGATGTGGTTTTCCCATA ATACATCATTTCAAGTTCACGGAATATTTGCCTCGATATCTCAGCATGTTTGTTAGGCCGATGG TGGCCACCATCTTCAAAGCACGATATCTGACCTGTATAAATCCACTTCAGATAAATAGCTGAGT ATACAAGGGCCCCCAGACGACTCTGGTCATCAAAAGATTCTGACAATATCCCGCGAACAACCTC TAA
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010445 						
					
						PMCS
						0.112374595

Conservation Information
Conserved circRNAs	osi_circ_010445
PMCS	0.112374595

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							11739954-11734619(-)
						
					

						Potential amino acid sequence
						
							MMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQNKL
HRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLNES
GLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDNAI
AMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQVSF
SGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIFPE
KVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFREL
EMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQNK
LHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLNE
SGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDNA
IAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQVS
FSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIFP
EKVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFRE
LEMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQN
KLHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLN
ESGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDN
AIAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQV
SFSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIF
PEKVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFR
ELEMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQ
NKLHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESL
NESGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPD
NAIAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQ
VSFSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSI
FPEKVM(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	11739954-11734619(-)
Potential amino acid sequence	MMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQNKL HRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLNES GLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDNAI AMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQVSF SGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIFPE KVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFREL EMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQNK LHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLNE SGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDNA IAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQVS FSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIFP EKVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFRE LEMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQN KLHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESLN ESGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPDN AIAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQV SFSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSIF PEKVMLEVVRGILSESFDDQSRLGALVYSAIYLKWIYTGQISCFEDGGHHRPNKHAEISRQIFR ELEMMYYGKTTSAKDVLVIRKIHPFLPSFKSEFTASVPLTRIRDIAHRNDIPHDLKQEIKHTIQ NKLHRNAGPEDLIATEVMLARITKTPGEYSETFVEQFTIFYSELKDFFNAGSLFEQLESIKESL NESGLEVLSSFVETKRSLDQVDHAEDLDKNDTIQILMTTLQSLSSLRSVLMKGLESGLRNDAPD NAIAMRQKWRLCEISLEDYSFVLLSRFINTLEALGGSASLAKDVARNTTLWDTTLDALVIGINQ VSFSGWKTDECIAIGNEILSWKQKGLSESEGCEDGKYIWSLRLKATLDRARRLTEEYSEALLSI FPEKVM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os12g0297500_circ_g.8

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