Plant Circular RNA Database

Detail information of Os12g0287300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os12g0287300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_011143
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 10967961-10969591  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0287300						
					
						Parent gene annotation
						
							Similar to SufS. (Os12t0287300-01);Similar to predicted protein.
 (Os12t0287300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						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
						Os12t0287300-01:5
Os12t0287300-02:5

General Information
CircRNA Name	Os12g0287300_circ_g.2
ID in PlantcircBase	osa_circ_011143
Alias	NA
Organism	Oryza sativa
Position	chr12: 10967961-10969591 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0287300
Parent gene annotation	Similar to SufS. (Os12t0287300-01);Similar to predicted protein. (Os12t0287300-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	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	Os12t0287300-01:5 Os12t0287300-02:5

			
						 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  
						
							TCGACAGGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTG
ACCATGTTACAATATCCTCAATAGGAAGCATTGAACctggaggtcaagaatttcggcaatatct
gttggatgaacattttcaacattaaaagaacataatggggcgcggtgaacagtttggcatggag
ctggaccg

									
								

					

						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: 542
Transcript exons: 10967961-10968119,10968293-10968392,10969048-10969111,10
969280-10969352,10969446-10969591
CTGGAGGTCAAGAATTTCGGCAATATCTGTTGGATGAACATTTTCAACATTAAAAGAACATAAT
GGGGCGCGGTGAACAGTTTGGCATGGAGCTGGACCGTAGATCCGAACATTTGGAACAGCAATAA
GGCTCTCATAGAGATAGGTCGCCAACTCATTCTCATACTCATGGATCTTCTGCATGCCAATTTG
TGACAAATAATCAATTGCTGTTCCCAATCCTATAGCTTCTCCAATCGCAGGTGTTCCAGCTTCA
AATCTAGAAGGAGGCTCAGCATATGTGGATTTGTCTTGGAACACATCTGCAATCATTTCACCAC
CACCTAAGAAAGGCTCCATGGATGATAAGAGGTCAAACTTTCCATGCAAGAATCCAACGCCTGT
AGGGCCACACATCTTGTGTGATGATGCAACAAGAAAATCTGCACCAAGCCTCTGAACATCGACA
GGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTGACCATG
TTACAATATCCTCAATAGGAAGCATTGAAC
						
					

						Genomic sequence
						
							CTGGAGGTCAAGAATTTCGGCAATATCTGTTGGATGAACATTTTCAACATTAAAAGAACATAAT
GGGGCGCGGTGAACAGTTTGGCATGGAGCTGGACCGTAGATCCGAACATTTGGAACAGCAATAA
GGCTCTCATAGAGATAGGTCGCCAACTCATTCTGGATGGCAAAACATAACACTTGTGAGAATGT
TATAAATAGCTGAAACCTTTCTAAAGACCGGAATAAGCACAGTATGATGACATAGAGCAATATT
TTTGTTTTTCTGAAACGATAATAAAGTACATTTGAGAACAATGCAAGGAGGTAAAACATAAACA
GTTTATTCTGACCTCATACTCATGGATCTTCTGCATGCCAATTTGTGACAAATAATCAATTGCT
GTTCCCAATCCTATAGCTTCTCCAATCGCAGGTGTTCCAGCTTCAAATCTTTTCAGAACAACTA
CAATTAGAATCCCCAGATATGAAATGAAGAAAAAAGGTACAGCCACCATTAGCAATTATTTTGA
AGTCCCATGAAATTCCAAAAGGGATTCATTTCAATTTTACTGACAGATAATATAAAGCAGAGGC
AATCTTGGAAGAAATGTGGACAAGGGAGATACTTTTCTAACATAGTGAATTAGTAATAAAATCT
ATAACATATCAACTTTCTAACACAATCAAGTTTTTGGTGAAATGATTATGGTTCACATGTCTAG
GAATCTGCAACATGTTATCTTCATATTCTTGGTCTTATGGGACAAATCAATTTTATATCAGAAA
ATGAAGAGGAAAGAAAGACATATCTTTGTTAGGAAAGTAAGAAGAGTGTGGCAGTTGTTTCCAC
ACAACAGCTTGGGAGATCCGAGAAATATTAGTGATAACCATTATTCAAAATGACCAAATGATTC
TGCTGTATTACATTGTACTATTAATCACTTTAGATATTTTATTGTTCTGCACTGACTTTCCTCC
AGAAGATTATGATATAGTTCATGAAAGATCTAGACTGATATACATTGTGCACCAACTTTCCTAA
GACGATATGACATAGATGATGAAATCTAGAACGATCAAAGTAAGAAGTCACAATATGATTCACC
TAGAAGGAGGCTCAGCATATGTGGATTTGTCTTGGAACACATCTGCAATCATTTCACCACCACC
TGAAAGGAAATCAGAATTTCGAGGGTAGTTATAGAACAATACTTCCCCGAGAACAGGAAACAAT
ACTTCCTCTTAGTCATGGCCATGCTTCACCAATGGATGCTAACTATCCAACTTAACTTCTGATA
ATAGAGTGAGCAAATTTCTAGTGTCCTACAGTATCTTACCTAAGAAAGGCTCCATGGATGATAA
GAGGTCAAACTTTCCATGCAAGAATCCAACGCCTGTAGGGCCACACATCTGAGAAGTTTAGCCC
ATAACTTGTCAAAGTCAATTATTGCGCTACTCTCAATGATTACAAACTTATTTAGAAGAAAGAA
TTGATAATAAAACCTTGTGTGATGATGCAACAAGAAAATCTGCACCAAGCCTCTGAACATCGAC
AGGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTGACCAT
GTTACAATATCCTCAATAGGAAGCATTGAAC
						
					

			
		

Sequences
Splice junction sequence	TCGACAGGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTG ACCATGTTACAATATCCTCAATAGGAAGCATTGAACctggaggtcaagaatttcggcaatatct gttggatgaacattttcaacattaaaagaacataatggggcgcggtgaacagtttggcatggag ctggaccg
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: 542 Transcript exons: 10967961-10968119,10968293-10968392,10969048-10969111,10 969280-10969352,10969446-10969591 CTGGAGGTCAAGAATTTCGGCAATATCTGTTGGATGAACATTTTCAACATTAAAAGAACATAAT GGGGCGCGGTGAACAGTTTGGCATGGAGCTGGACCGTAGATCCGAACATTTGGAACAGCAATAA GGCTCTCATAGAGATAGGTCGCCAACTCATTCTCATACTCATGGATCTTCTGCATGCCAATTTG TGACAAATAATCAATTGCTGTTCCCAATCCTATAGCTTCTCCAATCGCAGGTGTTCCAGCTTCA AATCTAGAAGGAGGCTCAGCATATGTGGATTTGTCTTGGAACACATCTGCAATCATTTCACCAC CACCTAAGAAAGGCTCCATGGATGATAAGAGGTCAAACTTTCCATGCAAGAATCCAACGCCTGT AGGGCCACACATCTTGTGTGATGATGCAACAAGAAAATCTGCACCAAGCCTCTGAACATCGACA GGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTGACCATG TTACAATATCCTCAATAGGAAGCATTGAAC
Genomic sequence	CTGGAGGTCAAGAATTTCGGCAATATCTGTTGGATGAACATTTTCAACATTAAAAGAACATAAT GGGGCGCGGTGAACAGTTTGGCATGGAGCTGGACCGTAGATCCGAACATTTGGAACAGCAATAA GGCTCTCATAGAGATAGGTCGCCAACTCATTCTGGATGGCAAAACATAACACTTGTGAGAATGT TATAAATAGCTGAAACCTTTCTAAAGACCGGAATAAGCACAGTATGATGACATAGAGCAATATT TTTGTTTTTCTGAAACGATAATAAAGTACATTTGAGAACAATGCAAGGAGGTAAAACATAAACA GTTTATTCTGACCTCATACTCATGGATCTTCTGCATGCCAATTTGTGACAAATAATCAATTGCT GTTCCCAATCCTATAGCTTCTCCAATCGCAGGTGTTCCAGCTTCAAATCTTTTCAGAACAACTA CAATTAGAATCCCCAGATATGAAATGAAGAAAAAAGGTACAGCCACCATTAGCAATTATTTTGA AGTCCCATGAAATTCCAAAAGGGATTCATTTCAATTTTACTGACAGATAATATAAAGCAGAGGC AATCTTGGAAGAAATGTGGACAAGGGAGATACTTTTCTAACATAGTGAATTAGTAATAAAATCT ATAACATATCAACTTTCTAACACAATCAAGTTTTTGGTGAAATGATTATGGTTCACATGTCTAG GAATCTGCAACATGTTATCTTCATATTCTTGGTCTTATGGGACAAATCAATTTTATATCAGAAA ATGAAGAGGAAAGAAAGACATATCTTTGTTAGGAAAGTAAGAAGAGTGTGGCAGTTGTTTCCAC ACAACAGCTTGGGAGATCCGAGAAATATTAGTGATAACCATTATTCAAAATGACCAAATGATTC TGCTGTATTACATTGTACTATTAATCACTTTAGATATTTTATTGTTCTGCACTGACTTTCCTCC AGAAGATTATGATATAGTTCATGAAAGATCTAGACTGATATACATTGTGCACCAACTTTCCTAA GACGATATGACATAGATGATGAAATCTAGAACGATCAAAGTAAGAAGTCACAATATGATTCACC TAGAAGGAGGCTCAGCATATGTGGATTTGTCTTGGAACACATCTGCAATCATTTCACCACCACC TGAAAGGAAATCAGAATTTCGAGGGTAGTTATAGAACAATACTTCCCCGAGAACAGGAAACAAT ACTTCCTCTTAGTCATGGCCATGCTTCACCAATGGATGCTAACTATCCAACTTAACTTCTGATA ATAGAGTGAGCAAATTTCTAGTGTCCTACAGTATCTTACCTAAGAAAGGCTCCATGGATGATAA GAGGTCAAACTTTCCATGCAAGAATCCAACGCCTGTAGGGCCACACATCTGAGAAGTTTAGCCC ATAACTTGTCAAAGTCAATTATTGCGCTACTCTCAATGATTACAAACTTATTTAGAAGAAAGAA TTGATAATAAAACCTTGTGTGATGATGCAACAAGAAAATCTGCACCAAGCCTCTGAACATCGAC AGGCATATGAGGAACACTTTGACAAGCATCGACAAGAACTTTAGCACCAATTCTGTTTGACCAT GTTACAATATCCTCAATAGGAAGCATTGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003393* osi_circ_010414 						
					
						PMCS
						0.153549923

Conservation Information
Conserved circRNAs	osi_circ_003393* osi_circ_010414
PMCS	0.153549923

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10968305-10969575(-)
10969588-10969564(-)
						
						Potential amino acid sequence
						
							MSMRMSWRPISMRALLLFQMFGSTVQLHAKLFTAPHYVLLMLKMFIQQILPKFLTSRFNASY*(
-)
MLPIEDIVTWSNRIGAKVLVDACQSVPHMPVDVQRLGADFLVASSHKMCGPTGVGFLHGKFDLL
SSMEPFLGGGEMIADVFQDKSTYAEPPSRFEAGTPAIGEAIGLGTAIDYLSQIGMQKIHEYENE
LATYLYESLIAVPNVRIYGPAPCQTVHRAPLCSFNVENVHPTDIAEILDLQVQCFLLRIL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10968305-10969575(-) 10969588-10969564(-)
Potential amino acid sequence	MSMRMSWRPISMRALLLFQMFGSTVQLHAKLFTAPHYVLLMLKMFIQQILPKFLTSRFNASY( -) MLPIEDIVTWSNRIGAKVLVDACQSVPHMPVDVQRLGADFLVASSHKMCGPTGVGFLHGKFDLL SSMEPFLGGGEMIADVFQDKSTYAEPPSRFEAGTPAIGEAIGLGTAIDYLSQIGMQKIHEYENE LATYLYESLIAVPNVRIYGPAPCQTVHRAPLCSFNVENVHPTDIAEILDLQVQCFLLRIL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0287300_circ_g.2

Address

Any questions?

Supported by