Plant Circular RNA Database

Detail information of Os12g0165000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os12g0165000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_010571
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3308204-3311839  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0165000						
					
						Parent gene annotation
						
							WD40 repeat-like domain containing protein. (Os12t0165000-01);Si
milar to predicted protein. (Os12t0165000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0165000_circ_g.4 Os12g0165000_circ_g.5 Os12g0165000_circ_g.6 Os12g0165000_circ_g.7 Os12g0165000_circ_g.8 Os12g0165000_circ_g.9 Os12g0165000_circ_g.10 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os12t0165000-02:6
Os12t0165000-01:9

General Information
CircRNA Name	Os12g0165000_circ_g.3
ID in PlantcircBase	osa_circ_010571
Alias	NA
Organism	Oryza sativa
Position	chr12: 3308204-3311839 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0165000
Parent gene annotation	WD40 repeat-like domain containing protein. (Os12t0165000-01);Si milar to predicted protein. (Os12t0165000-02)
Parent gene strand	-
Alternative splicing	Os12g0165000_circ_g.4 Os12g0165000_circ_g.5 Os12g0165000_circ_g.6 Os12g0165000_circ_g.7 Os12g0165000_circ_g.8 Os12g0165000_circ_g.9 Os12g0165000_circ_g.10
Support reads	1
Tissues	shoot
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	Os12t0165000-02:6 Os12t0165000-01:9

			
						 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  
						
							TATTTTAGTGTGCATACACACATACACAAGATCTGGAGTGGGCAAGACTAGAACTGTGAATTAC
CTTATCATTGAATCAGATGAGCCTGAAAGACAATACtttgtgaatccgcaatatccgtggagca
ctaagtttcccttgtgttatgttcggtgcaggtgacccttcagcaggatgcaagtagaatccac
acctacat

									
								

					

						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
						
							TTTGTGAATCCGCAATATCCGTGGAGCACTAAGTTTCCCTTGTGTTATGTTCGGTGCAGGTGAC
CCTTCAGCAGGATGCAAGTAGAATCCACACCTACATTAAAGAAAAGAAAATAACATCAGTGACT
AGTTTGTTCCATGACAGTTATGTCTATGCAAAGGCACCCTGTGTATAACATCAACTTTTGCAGA
AAACATCAATCCAAATCTCACTTGCTCGTACTTTCATTATTTTCAGTAAATACCCTAATAAGAT
CCACTATTAACATGAAAATGGGTCAAATCCAAAAAGGATATGCAGAATCTATTGTTTTACACCC
TCAGGAATTTAGCACTGTGCAGACCTTAATAAATAGCAGATAATTTGATGCCTTGCAGAGATCT
TAATCAAACCTTGTGGAAAAAAATTACTGGTGGTTCAAATATAGGAAATTGAATATATTTAAAT
CCTTTAAAAAGAAAGAATAGATTATGCCAGTATCTAATCATCATTGTATAGAACTATTAGCACT
GGAACTTTCAAAGAGGGATATCAGCTAACCAAGCTATGCCACAAAATCGTGGCAGAAACCAAAT
ACTCCCCCAGTCCCAAAATAGAACAACTTGTAGCATTCAAAATTTGTCCCAAAATATAACTTCT
CAACCTACATTCTCTTCTCAACCAACCACAATCTTCCGCTATTCAAACTCTTCACCTATTGCCT
TTTCTCAACCAATCGCAACCCTCCCTCATTTAATTCCACCTACTTTCTTAATTCCCATGTCCAA
CCCTAAAATTCCTTATACTTTGGAACGGAGGTAGTATATATATAATCACAATATGTTCAACGAA
AGAGGCAAAATAGATGTTATAAACAGGCTTTGAGTAAATTAGTATCACAGAGGGGACATTTCAT
ATCAAGTCCAAATTGCTAGAGAGCACAAATTTTGAATTTCTGCAAAGCGAATCTCCAAATTAAG
GTATAATGCATCACGATATATGTTCACCAAAATTCGAGGAGGAATATTGAATAATCCACTCAAA
CAGCCATCCCTGTGTGCCCTCTAGCAAACAACATACCTAACGCTCATATGTTATACAGTTCACA
AACAACAGCATCAACGAAATTTGGGCTTACTATTGCAACTAAAATGCCTTGACCTTCTAAAAGC
CCGAGATTCCACGAAATACTACCTTCCAAGATAGTGCAGCATCTCGAAAGAACTCAAGCAATGG
TCCAAAGATATAAAGAAAAATACCATCTTAGGAGAATAGGAAGTAGAAATGAGCAATTACTTTG
TATTCTCTTTTGGAAATCGATTATGCTCAACACAGTCCACAATCCACCATGGGATATCGCTCTC
GGTTCCATCTAAATCTGTAATTCTCTTTCTCCAAGGCCCTCCACTTGAACCTTCTGTGATGATT
GATGGAGGCGAAACTGTGGAAAACTCAAATGAGGGAAGCATCTGACTTGCATGATTTTCAGCCC
CATCATCAACCTCAGATCTTGGATGGGGCAAATTTTTCAAGGATACATCTTTTCCTGTTGAAGT
GTCACCATTTGACAAGCCGTGTGAGCCAGATCTCTGCTTTTTTTTACTCCAATGAACTAACAAA
CCACGGAGAGTCTCCTGAGCCAAATTAATCTGCATTTTTTTAAGAGGGAATTGTTAAGAAGTTG
AATCAGGTATGAATCAGATCTCACTTGCAAGTGGCAATCATATCAGGTGAATTTCATCATTAGG
TGTCATGGATGGTTTGAACCAAGAATACAAACTAAAATATATCAACAAAAGAAAGAACTTTCTG
TCTTAGTAACAGAATGATTGAACTACTGGTGCATCAAAAGTTTGAAGAATGATAAGCAAAACAA
CCAGTTGACAACATATGATTCTGTGCAAACCTTAAGATCTTCCTGTGCTCCTGCAACGTTTAAG
TCAACTGCATATATTTCTGCAGAAAAGCATTGAGGTGTATCCAGGTGGACAGACAGGCATCCCA
ATCGAGCATCCATGGTAAACCAGGCAGGTATGCTAACCTAAAAGTAAAGACACAAATTACATAC
TAGTAAGCAGCAGATTTTTACTACACAGAGATCATGAGTTTATCAGTAATACCATCTCAAACAA
CTCTTTTTTCTTATCCTCAAAAGAAACCTGCACGAACAAAGTGGAGTGGCTTAACATTCTATCA
AATATCAAATTCATTCAAAAAAAAATCAAAAGACACACAGTATGAACTACAGAGTGCCCGAAAT
TGGGACTGAAACTAGAATTGCTGCTGACTCTCAACATACTTAAGGATCTTTTCAGGGAAAGAGC
TATTCGCTAAATTGAGCAAAAATAAGAACCTTGCCAAAGTCTTCAATAACAGCTCCTCGAGTAA
TCTCCCACAATTTGACAGAACCAGCAGTATCCTATGAAATAGGAGCAAGGCATATAAGTGAACT
CTTTGTAATCTGCTAATGGTAGAGCACATGATGGAAATAACACTTGTAATCACCTTCGTCAATA
CATGTCTTCTATTATTCAGGATCTCATGCTGAGTTATTGCTGGAACTCCAGGAATAATTGAAGA
TGGTTCTTTGTGTATAGGGACCTAAAGTGGTATAATCATGATATAAGCACTCATTAAGCACCAA
TAAAAATGTTGCCCATAGTTAAACAAACTTTCTATGTTTACTCAGGCAACAGTTATTCTGTCAA
AGAAATTGCCTGCTTCAGTGTGGCAAAGCATGGAATGAATTTGTGTCTATGACATGCTGGGTCA
CTATACTAAGACTTGTATCACGCCAAATATGTAGCAGCAAACCAAACAACAGCCTCCATGTTGT
GGCTTGTGTGTTACTTTTAAAGATCAGTCAATCTCAAAGTTAAGTTCACAAGGTTTATACTGCA
GAATCCCTTATACCCTATTTTATCTTCAATGTGCGCAAGTATGACAATCGCTATGGCATGTGAA
ACTGTTATTACTGACTTAAAAGTGTGTCTGCGAAGAAATACAAAATTATTGTTCATGATACAAT
TAATGAAAGATGGCAAATGTCATGCTTACAGGTGCTGATCCTTCTAAAGAAGCCCTTGCCCTGG
AGAATGACAAATTGCCAGCTAAGAATGAAGAACCTTTTTGGAAAAGCTTTAGGGGTTCATGCGC
TTCAGCTTTCCATCCATTCACAGAAGAATCAGTTGTTGCAACCCAAATCATATCATCCTGCAAG
GACAATTGTAGAATCGGGTGCTCGTTTGTGCAGAGCAAGACACTCTCTCGATTGCTTAAATCTG
TCAAGTACACCTGCCATCCAAGAAAACAGGAAGGTTCAGAATTCAGAAAAGAAGCAATTATGCA
ACATTTGAAACTTGACTCACCGACTGATCTCTTCCACCACTATAAACATGACTAAACGAAGGAG
TGCTTGCAAGCGCCCAGACTGAATCAGTATGCACAGCATAAGAATGAATACATCGCTGCTGTCC
CAGATCCCATAATCTGCAAAATCCAGAAACATGTGCAGACAAGATGTTACATGACTTCATGATC
AGTGTGAAAGTACAGATATTTTAGTGTGCATACACACATACACAAGATCTGGAGTGGGCAAGAC
TAGAACTGTGAATTACCTTATCATTGAATCAGATGAGCCTGAAAGACAATAC
						
					

			
		

Sequences
Splice junction sequence	TATTTTAGTGTGCATACACACATACACAAGATCTGGAGTGGGCAAGACTAGAACTGTGAATTAC CTTATCATTGAATCAGATGAGCCTGAAAGACAATACtttgtgaatccgcaatatccgtggagca ctaagtttcccttgtgttatgttcggtgcaggtgacccttcagcaggatgcaagtagaatccac acctacat
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	TTTGTGAATCCGCAATATCCGTGGAGCACTAAGTTTCCCTTGTGTTATGTTCGGTGCAGGTGAC CCTTCAGCAGGATGCAAGTAGAATCCACACCTACATTAAAGAAAAGAAAATAACATCAGTGACT AGTTTGTTCCATGACAGTTATGTCTATGCAAAGGCACCCTGTGTATAACATCAACTTTTGCAGA AAACATCAATCCAAATCTCACTTGCTCGTACTTTCATTATTTTCAGTAAATACCCTAATAAGAT CCACTATTAACATGAAAATGGGTCAAATCCAAAAAGGATATGCAGAATCTATTGTTTTACACCC TCAGGAATTTAGCACTGTGCAGACCTTAATAAATAGCAGATAATTTGATGCCTTGCAGAGATCT TAATCAAACCTTGTGGAAAAAAATTACTGGTGGTTCAAATATAGGAAATTGAATATATTTAAAT CCTTTAAAAAGAAAGAATAGATTATGCCAGTATCTAATCATCATTGTATAGAACTATTAGCACT GGAACTTTCAAAGAGGGATATCAGCTAACCAAGCTATGCCACAAAATCGTGGCAGAAACCAAAT ACTCCCCCAGTCCCAAAATAGAACAACTTGTAGCATTCAAAATTTGTCCCAAAATATAACTTCT CAACCTACATTCTCTTCTCAACCAACCACAATCTTCCGCTATTCAAACTCTTCACCTATTGCCT TTTCTCAACCAATCGCAACCCTCCCTCATTTAATTCCACCTACTTTCTTAATTCCCATGTCCAA CCCTAAAATTCCTTATACTTTGGAACGGAGGTAGTATATATATAATCACAATATGTTCAACGAA AGAGGCAAAATAGATGTTATAAACAGGCTTTGAGTAAATTAGTATCACAGAGGGGACATTTCAT ATCAAGTCCAAATTGCTAGAGAGCACAAATTTTGAATTTCTGCAAAGCGAATCTCCAAATTAAG GTATAATGCATCACGATATATGTTCACCAAAATTCGAGGAGGAATATTGAATAATCCACTCAAA CAGCCATCCCTGTGTGCCCTCTAGCAAACAACATACCTAACGCTCATATGTTATACAGTTCACA AACAACAGCATCAACGAAATTTGGGCTTACTATTGCAACTAAAATGCCTTGACCTTCTAAAAGC CCGAGATTCCACGAAATACTACCTTCCAAGATAGTGCAGCATCTCGAAAGAACTCAAGCAATGG TCCAAAGATATAAAGAAAAATACCATCTTAGGAGAATAGGAAGTAGAAATGAGCAATTACTTTG TATTCTCTTTTGGAAATCGATTATGCTCAACACAGTCCACAATCCACCATGGGATATCGCTCTC GGTTCCATCTAAATCTGTAATTCTCTTTCTCCAAGGCCCTCCACTTGAACCTTCTGTGATGATT GATGGAGGCGAAACTGTGGAAAACTCAAATGAGGGAAGCATCTGACTTGCATGATTTTCAGCCC CATCATCAACCTCAGATCTTGGATGGGGCAAATTTTTCAAGGATACATCTTTTCCTGTTGAAGT GTCACCATTTGACAAGCCGTGTGAGCCAGATCTCTGCTTTTTTTTACTCCAATGAACTAACAAA CCACGGAGAGTCTCCTGAGCCAAATTAATCTGCATTTTTTTAAGAGGGAATTGTTAAGAAGTTG AATCAGGTATGAATCAGATCTCACTTGCAAGTGGCAATCATATCAGGTGAATTTCATCATTAGG TGTCATGGATGGTTTGAACCAAGAATACAAACTAAAATATATCAACAAAAGAAAGAACTTTCTG TCTTAGTAACAGAATGATTGAACTACTGGTGCATCAAAAGTTTGAAGAATGATAAGCAAAACAA CCAGTTGACAACATATGATTCTGTGCAAACCTTAAGATCTTCCTGTGCTCCTGCAACGTTTAAG TCAACTGCATATATTTCTGCAGAAAAGCATTGAGGTGTATCCAGGTGGACAGACAGGCATCCCA ATCGAGCATCCATGGTAAACCAGGCAGGTATGCTAACCTAAAAGTAAAGACACAAATTACATAC TAGTAAGCAGCAGATTTTTACTACACAGAGATCATGAGTTTATCAGTAATACCATCTCAAACAA CTCTTTTTTCTTATCCTCAAAAGAAACCTGCACGAACAAAGTGGAGTGGCTTAACATTCTATCA AATATCAAATTCATTCAAAAAAAAATCAAAAGACACACAGTATGAACTACAGAGTGCCCGAAAT TGGGACTGAAACTAGAATTGCTGCTGACTCTCAACATACTTAAGGATCTTTTCAGGGAAAGAGC TATTCGCTAAATTGAGCAAAAATAAGAACCTTGCCAAAGTCTTCAATAACAGCTCCTCGAGTAA TCTCCCACAATTTGACAGAACCAGCAGTATCCTATGAAATAGGAGCAAGGCATATAAGTGAACT CTTTGTAATCTGCTAATGGTAGAGCACATGATGGAAATAACACTTGTAATCACCTTCGTCAATA CATGTCTTCTATTATTCAGGATCTCATGCTGAGTTATTGCTGGAACTCCAGGAATAATTGAAGA TGGTTCTTTGTGTATAGGGACCTAAAGTGGTATAATCATGATATAAGCACTCATTAAGCACCAA TAAAAATGTTGCCCATAGTTAAACAAACTTTCTATGTTTACTCAGGCAACAGTTATTCTGTCAA AGAAATTGCCTGCTTCAGTGTGGCAAAGCATGGAATGAATTTGTGTCTATGACATGCTGGGTCA CTATACTAAGACTTGTATCACGCCAAATATGTAGCAGCAAACCAAACAACAGCCTCCATGTTGT GGCTTGTGTGTTACTTTTAAAGATCAGTCAATCTCAAAGTTAAGTTCACAAGGTTTATACTGCA GAATCCCTTATACCCTATTTTATCTTCAATGTGCGCAAGTATGACAATCGCTATGGCATGTGAA ACTGTTATTACTGACTTAAAAGTGTGTCTGCGAAGAAATACAAAATTATTGTTCATGATACAAT TAATGAAAGATGGCAAATGTCATGCTTACAGGTGCTGATCCTTCTAAAGAAGCCCTTGCCCTGG AGAATGACAAATTGCCAGCTAAGAATGAAGAACCTTTTTGGAAAAGCTTTAGGGGTTCATGCGC TTCAGCTTTCCATCCATTCACAGAAGAATCAGTTGTTGCAACCCAAATCATATCATCCTGCAAG GACAATTGTAGAATCGGGTGCTCGTTTGTGCAGAGCAAGACACTCTCTCGATTGCTTAAATCTG TCAAGTACACCTGCCATCCAAGAAAACAGGAAGGTTCAGAATTCAGAAAAGAAGCAATTATGCA ACATTTGAAACTTGACTCACCGACTGATCTCTTCCACCACTATAAACATGACTAAACGAAGGAG TGCTTGCAAGCGCCCAGACTGAATCAGTATGCACAGCATAAGAATGAATACATCGCTGCTGTCC CAGATCCCATAATCTGCAAAATCCAGAAACATGTGCAGACAAGATGTTACATGACTTCATGATC AGTGTGAAAGTACAGATATTTTAGTGTGCATACACACATACACAAGATCTGGAGTGGGCAAGAC TAGAACTGTGAATTACCTTATCATTGAATCAGATGAGCCTGAAAGACAATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121130285

Conservation Information
Conserved circRNAs	NA
PMCS	0.121130285

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3311813-3311818(-)
						
						Potential amino acid sequence
						
							MIRLWDLGQQRCIHSYAVHTDSVWALASTPSFSHVYSGGRDQSVYLTDLSNRESVLLCTNEHPI
LQLSLQDDMIWVATTDSSVNGWKAEAHEPLKLFQKGSSFLAGNLSFSRARASLEGSAPVPIHKE
PSSIIPGVPAITQHEILNNRRHVLTKDTAGSVKLWEITRGAVIEDFGKVSFEDKKKELFEMVSI
PAWFTMDARLGCLSVHLDTPQCFSAEIYAVDLNVAGAQEDLKINLAQETLRGLLVHWSKKKQRS
GSHGLSNGDTSTGKDVSLKNLPHPRSEVDDGAENHASQMLPSFEFSTVSPPSIITEGSSGGPWR
KRITDLDGTESDIPWWIVDCVEHNRFPKENTKCGFYLHPAEGSPAPNITQGKLSAPRILRIHKV
LSFRLI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3311813-3311818(-)
Potential amino acid sequence	MIRLWDLGQQRCIHSYAVHTDSVWALASTPSFSHVYSGGRDQSVYLTDLSNRESVLLCTNEHPI LQLSLQDDMIWVATTDSSVNGWKAEAHEPLKLFQKGSSFLAGNLSFSRARASLEGSAPVPIHKE PSSIIPGVPAITQHEILNNRRHVLTKDTAGSVKLWEITRGAVIEDFGKVSFEDKKKELFEMVSI PAWFTMDARLGCLSVHLDTPQCFSAEIYAVDLNVAGAQEDLKINLAQETLRGLLVHWSKKKQRS GSHGLSNGDTSTGKDVSLKNLPHPRSEVDDGAENHASQMLPSFEFSTVSPPSIITEGSSGGPWR KRITDLDGTESDIPWWIVDCVEHNRFPKENTKCGFYLHPAEGSPAPNITQGKLSAPRILRIHKV LSFRLI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0165000_circ_g.3

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