Plant Circular RNA Database

Detail information of Os03g0254700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0254700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_018901
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 8168177-8171555  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0254700						
					
						Parent gene annotation
						
							WD40 repeat-like domain containing protein. (Os03t0254700-01);Si
milar to predicted protein. (Os03t0254700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0254700_circ_g.3 Os03g0254700_circ_g.5 Os03g0254700_circ_g.6 Os03g0254700_circ_g.7 Os03g0254700_circ_g.8 Os03g0254700_circ_g.9 Os03g0254700_circ_g.10 Os03g0254700_circ_g.11 Os03g0254700_circ_g.12 						
					
						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
						Os03t0254700-02:2
Os03t0254700-01:10

General Information
CircRNA Name	Os03g0254700_circ_g.4
ID in PlantcircBase	osa_circ_018901
Alias	NA
Organism	Oryza sativa
Position	chr3: 8168177-8171555 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0254700
Parent gene annotation	WD40 repeat-like domain containing protein. (Os03t0254700-01);Si milar to predicted protein. (Os03t0254700-02)
Parent gene strand	-
Alternative splicing	Os03g0254700_circ_g.3 Os03g0254700_circ_g.5 Os03g0254700_circ_g.6 Os03g0254700_circ_g.7 Os03g0254700_circ_g.8 Os03g0254700_circ_g.9 Os03g0254700_circ_g.10 Os03g0254700_circ_g.11 Os03g0254700_circ_g.12
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	Os03t0254700-02:2 Os03t0254700-01:10

			
						 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  
						
							GAAGAACAACGAATATGCATTCATACCTCCAAGTGCTGCCTGATATCATCACCGCCATGGTATG
AATAGATCTGTACAATATGCCTTGAATAAGCAACACcttaaaagtcatcatgttgaacagagat
attttccctccagatgcagacatgacatatgaatcattctttgacaaagcaaagcaatggacag
cttcttca

									
								

					

						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
						
							CTTAAAAGTCATCATGTTGAACAGAGATATTTTCCCTCCAGATGCAGACATGACATATGAATCA
TTCTTTGACAAAGCAAAGCAATGGACAGCTTCTTCAGGGTTGTCAGTTATGTCATTAGTCATGA
GGATGCCGCTTGGAGGTTGCCATAATTGAGGAGAAACACTTGCAGTAGCCTAGAAGAGTCAATA
GCAAACATAAAAAGTTAGTAACAATCATATGCACAAATTGCTTGCCCCTGGACCTGGTATACAG
AGCAGGTAGGTAAAACTGAGCATATTTATGTGCGTAAATAATCCAGATTTAACCTTTCCACTTG
AGTTTCGGTCATTGCGAGGCCATTTCCAGAGCAGATGAACAGCATTTGAAGCTAAAGCCAAGAT
AGCGACACCAGAATTTGTGTAAATAAGTCTTGAAATCTGCAGTTCAAAACAAATAAGATCTATG
GAAACCCTTACAGATAAAAACCAGCAGTTGGTACTTGGATGTGGATCAGAAGAATCTCAAGAAT
GCTAGTCAAAATATGAGGTGACAAAACATTTCATTCTATTGGGCAAGCATCATTCACGGAAACA
GTCAGTGGCTTTAGTTCAATTAACAATCATACTCTGCAATAGGGGTGGGCACTCGGTTTTTCGG
TTTAATAGGGTCGGTCTTTTAGGTTTTTTATATAACTCGGTTTATGTAAAATACTAACCGACGG
TAGCTATGGAAAAATAAAAACTGAGCTTTCCAAAACTGATTAATGTCAGTTCGGGTTTATCAGC
TTTCGGTTTTTACCGAAGAATGCCGCGCTCAACGAGGACCTACGCACACGCAGCCATGGAGCTC
GCTCGATGATGACGACATGCCTCTGATCTTCCACCGTCCAACCACTAATCACCAAAGCTGCTTA
ATCGTCCAGCACAAGCTCCAGGAGCGCTAGTCGCCAACCCCTGCTGCACTCGGCCGCGACGGCG
AGCAGCACGACCACACGAATCCCACACGACCCCACGCACAAATTAGGGATATGGGGAAAAGTTA
ATGGGCCTTGTGTAGTTGGGCCAGGAGGGAGACACACACAGATCGGTTTTCTCGGTAGTTCGGT
TTATGGCAGATGAAGACTGAAGAAAAAACCGCACACCAAATGATGTAAAAAATCAAACCGAGCA
AGCAAGCAGCCGAAGACCGAAGAAACCACCAATTCGGCTCGGTTCGGTTCGGTCTACGGTTTTC
GGTGTTTTTATGCCCACCCCTACTCTGCAATAAATCAAATAATATTAGCTATGGAAACTTGTCA
AAACATATGGTGTTTGTTCTATACACACTAAGGCTGTGTTCGGCAGACACAGTTGGGAACTAAT
CCTTGGTGCACGCAAAACAAAGCAGCTCATTAGCGTATGATTAATTAAGTATTAGCTTTTTAAA
AAAAATGGATTAATATGATTTTTTGAAGCAACTTTCCTATTGAAAACTTTTGTAAAAAAAATGC
ACCGTTTAATAGTTTGAAAAGCGTGTGCACGGAAAAAGAGGGAGATGAGTTGGGAAAGGAGAGG
AAAGAACTCAGCCTAAAAAATTACTTAATAATGTACTACAAAGTATTAATTTTATAGAACCACT
GAGACAGTTATACTGCAGATTGCAACAAGAGGGATAAAATATCACCTTGCTTGTCCTCATATTA
TCTGTTAATTTCAATGATCTGCACTGACTTGACTCGGTTATCTCCATAAGTTTCCAGACTTTTG
ATTTATCCAATGGCTCATCAGCTATTCTAGGCTTTACATCAACCAAGCTTCGGCTATCCCCATT
CTGTAGAATTTTTCCAAGAATGTACAAGTTAGTTGGGTCACTATAGAAGGTTTTCTGATAGAAA
GAGAAAGATCAATAGAAAAGGAATTGTGAATATGGTCAAACCAGTGCAGTTATTGCCGGTGGAG
CAGCATTTCCTGAACTAGTCCCGGCAGCAGCAGCTGACGCCGCCGCAGCAGCAGCAGCAGTCAA
TGGATTCATTAGGGGCTGCACCAAGATGGATCTATTGGGTCAAGCTTGCAAAAATATTTAGTTG
TAATTTTAAATGGTCACAAGAACTTACCTTTGTTACAGTCTCAGACGCACTCCGAGAAGCATCA
AATGAACGATTTTCCAATGTGCGCAGCAACCGTACTCCATCAGCATTTGCTAAGATCTTGATAC
CATTTTCATGGGTAGAAACAGCCAGCAGAGTACCTTCCTTGTTGAATCGGACCCGTGGACTTGC
CTAATAATTGCATGCTAGGTTAGATTAAGATGGAAATTTCCTTACTCATTTCATTTGAACCAAT
CACCATTTACCAAAGTATCTACAGATAAAGGAAAACACTCACAGGAAGACCACCATCGGCATCA
ATGGTAGTCAGAAGACTTGTGTTGTCCATGTCCCATATCTTAATCAAGAATTCATCTCCAGCAG
CCAAAAACCTGTTCCGTGTGGTATCAAATTGGACAACACCCATCGATCGCTTGCGAAATCCCTG
GTAAGTTCTCTTGACAGCTCCTTCACTTTCATTCCATTCCACTAGATGTGATTCGCCATCCTTG
CTAGTCCCACAAGAAAATAACCTACTCACAAGGGCAAAAAGAATCAGTGAAAACAAAGACAAAA
ACCCAGTTACCCACATGAATCATGCTAACAAAGAAATAATTATGAACCTTGAACCATCTGCACT
ATATGCCATTGTTGTGCACCAATGTCCTGGCGCATCATAGTCAACTCTGGATCCCAAATTATCA
TATAGCCAAGCCTTTATCTTTCCATCCAAAGCAGTTGAGAAGATGAACTGCACGAAGAAAAATA
ACAACAGGTAAGGAAAAGTAGCCTCCAATAGTTAATATTGATCGTTATAGCATAAAAACTGCAG
GTGCACCTGAATATTTTCCTTATAATGTGGACAAACAGAGTAAACAGGAGCTTCATGACCTTCA
AATGTAAATTGCTTTGCTCCACTAGTGGCCTCCCAGACCTAGAATATGGTGCCCATAAAACTTA
GCACTTCTGGGTTAAACAAAGAGACTTTCAGTCCCAGAACTCATGCAATCACAGAAACTCACCT
TAATTGTCTTGTCATCTCCGCAGGTTATTATACATAGCTGCTTATTTGGATGGGCAAATGCAAT
GTCATTTACACCACCGACATGCGCATCAATCTAGTTAAGAAAGGAGGGATTAATCAAATTCAGG
AATCAGATTAGACGATTATACAATAAGAAACTAATACCAATTAGGAAGGAAGAACTTCCTGTCA
AAACAAAAAAGGAAAGAAGAACAACGAATATGCATTCATACCTCCAAGTGCTGCCTGATATCAT
CACCGCCATGGTATGAATAGATCTGTACAATATGCCTTGAATAAGCAACAC
						
					

			
		

Sequences
Splice junction sequence	GAAGAACAACGAATATGCATTCATACCTCCAAGTGCTGCCTGATATCATCACCGCCATGGTATG AATAGATCTGTACAATATGCCTTGAATAAGCAACACcttaaaagtcatcatgttgaacagagat attttccctccagatgcagacatgacatatgaatcattctttgacaaagcaaagcaatggacag cttcttca
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	CTTAAAAGTCATCATGTTGAACAGAGATATTTTCCCTCCAGATGCAGACATGACATATGAATCA TTCTTTGACAAAGCAAAGCAATGGACAGCTTCTTCAGGGTTGTCAGTTATGTCATTAGTCATGA GGATGCCGCTTGGAGGTTGCCATAATTGAGGAGAAACACTTGCAGTAGCCTAGAAGAGTCAATA GCAAACATAAAAAGTTAGTAACAATCATATGCACAAATTGCTTGCCCCTGGACCTGGTATACAG AGCAGGTAGGTAAAACTGAGCATATTTATGTGCGTAAATAATCCAGATTTAACCTTTCCACTTG AGTTTCGGTCATTGCGAGGCCATTTCCAGAGCAGATGAACAGCATTTGAAGCTAAAGCCAAGAT AGCGACACCAGAATTTGTGTAAATAAGTCTTGAAATCTGCAGTTCAAAACAAATAAGATCTATG GAAACCCTTACAGATAAAAACCAGCAGTTGGTACTTGGATGTGGATCAGAAGAATCTCAAGAAT GCTAGTCAAAATATGAGGTGACAAAACATTTCATTCTATTGGGCAAGCATCATTCACGGAAACA GTCAGTGGCTTTAGTTCAATTAACAATCATACTCTGCAATAGGGGTGGGCACTCGGTTTTTCGG TTTAATAGGGTCGGTCTTTTAGGTTTTTTATATAACTCGGTTTATGTAAAATACTAACCGACGG TAGCTATGGAAAAATAAAAACTGAGCTTTCCAAAACTGATTAATGTCAGTTCGGGTTTATCAGC TTTCGGTTTTTACCGAAGAATGCCGCGCTCAACGAGGACCTACGCACACGCAGCCATGGAGCTC GCTCGATGATGACGACATGCCTCTGATCTTCCACCGTCCAACCACTAATCACCAAAGCTGCTTA ATCGTCCAGCACAAGCTCCAGGAGCGCTAGTCGCCAACCCCTGCTGCACTCGGCCGCGACGGCG AGCAGCACGACCACACGAATCCCACACGACCCCACGCACAAATTAGGGATATGGGGAAAAGTTA ATGGGCCTTGTGTAGTTGGGCCAGGAGGGAGACACACACAGATCGGTTTTCTCGGTAGTTCGGT TTATGGCAGATGAAGACTGAAGAAAAAACCGCACACCAAATGATGTAAAAAATCAAACCGAGCA AGCAAGCAGCCGAAGACCGAAGAAACCACCAATTCGGCTCGGTTCGGTTCGGTCTACGGTTTTC GGTGTTTTTATGCCCACCCCTACTCTGCAATAAATCAAATAATATTAGCTATGGAAACTTGTCA AAACATATGGTGTTTGTTCTATACACACTAAGGCTGTGTTCGGCAGACACAGTTGGGAACTAAT CCTTGGTGCACGCAAAACAAAGCAGCTCATTAGCGTATGATTAATTAAGTATTAGCTTTTTAAA AAAAATGGATTAATATGATTTTTTGAAGCAACTTTCCTATTGAAAACTTTTGTAAAAAAAATGC ACCGTTTAATAGTTTGAAAAGCGTGTGCACGGAAAAAGAGGGAGATGAGTTGGGAAAGGAGAGG AAAGAACTCAGCCTAAAAAATTACTTAATAATGTACTACAAAGTATTAATTTTATAGAACCACT GAGACAGTTATACTGCAGATTGCAACAAGAGGGATAAAATATCACCTTGCTTGTCCTCATATTA TCTGTTAATTTCAATGATCTGCACTGACTTGACTCGGTTATCTCCATAAGTTTCCAGACTTTTG ATTTATCCAATGGCTCATCAGCTATTCTAGGCTTTACATCAACCAAGCTTCGGCTATCCCCATT CTGTAGAATTTTTCCAAGAATGTACAAGTTAGTTGGGTCACTATAGAAGGTTTTCTGATAGAAA GAGAAAGATCAATAGAAAAGGAATTGTGAATATGGTCAAACCAGTGCAGTTATTGCCGGTGGAG CAGCATTTCCTGAACTAGTCCCGGCAGCAGCAGCTGACGCCGCCGCAGCAGCAGCAGCAGTCAA TGGATTCATTAGGGGCTGCACCAAGATGGATCTATTGGGTCAAGCTTGCAAAAATATTTAGTTG TAATTTTAAATGGTCACAAGAACTTACCTTTGTTACAGTCTCAGACGCACTCCGAGAAGCATCA AATGAACGATTTTCCAATGTGCGCAGCAACCGTACTCCATCAGCATTTGCTAAGATCTTGATAC CATTTTCATGGGTAGAAACAGCCAGCAGAGTACCTTCCTTGTTGAATCGGACCCGTGGACTTGC CTAATAATTGCATGCTAGGTTAGATTAAGATGGAAATTTCCTTACTCATTTCATTTGAACCAAT CACCATTTACCAAAGTATCTACAGATAAAGGAAAACACTCACAGGAAGACCACCATCGGCATCA ATGGTAGTCAGAAGACTTGTGTTGTCCATGTCCCATATCTTAATCAAGAATTCATCTCCAGCAG CCAAAAACCTGTTCCGTGTGGTATCAAATTGGACAACACCCATCGATCGCTTGCGAAATCCCTG GTAAGTTCTCTTGACAGCTCCTTCACTTTCATTCCATTCCACTAGATGTGATTCGCCATCCTTG CTAGTCCCACAAGAAAATAACCTACTCACAAGGGCAAAAAGAATCAGTGAAAACAAAGACAAAA ACCCAGTTACCCACATGAATCATGCTAACAAAGAAATAATTATGAACCTTGAACCATCTGCACT ATATGCCATTGTTGTGCACCAATGTCCTGGCGCATCATAGTCAACTCTGGATCCCAAATTATCA TATAGCCAAGCCTTTATCTTTCCATCCAAAGCAGTTGAGAAGATGAACTGCACGAAGAAAAATA ACAACAGGTAAGGAAAAGTAGCCTCCAATAGTTAATATTGATCGTTATAGCATAAAAACTGCAG GTGCACCTGAATATTTTCCTTATAATGTGGACAAACAGAGTAAACAGGAGCTTCATGACCTTCA AATGTAAATTGCTTTGCTCCACTAGTGGCCTCCCAGACCTAGAATATGGTGCCCATAAAACTTA GCACTTCTGGGTTAAACAAAGAGACTTTCAGTCCCAGAACTCATGCAATCACAGAAACTCACCT TAATTGTCTTGTCATCTCCGCAGGTTATTATACATAGCTGCTTATTTGGATGGGCAAATGCAAT GTCATTTACACCACCGACATGCGCATCAATCTAGTTAAGAAAGGAGGGATTAATCAAATTCAGG AATCAGATTAGACGATTATACAATAAGAAACTAATACCAATTAGGAAGGAAGAACTTCCTGTCA AAACAAAAAAGGAAAGAAGAACAACGAATATGCATTCATACCTCCAAGTGCTGCCTGATATCAT CACCGCCATGGTATGAATAGATCTGTACAATATGCCTTGAATAAGCAACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.18414784

Conservation Information
Conserved circRNAs	NA
PMCS	0.18414784

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8171518-8168233(+)
8170875-8171320(-)
						
						Potential amino acid sequence
						
							MNRSVQYALNKQHLKSHHVEQRYFPSRCRHDI*(+)
MAYSADGSRLFSCGTSKDGESHLVEWNESEGAVKRTYQGFRKRSMGVVQFDTTRNRFLAAGDEF
LIKIWDMDNTSLLTTIDADGGLPASPRVRFNKEGTLLAVSTHENGIKILANADGVRLLRTLENR
SFDASRSASETVTKPLMNPLTAAAAAAASAAAAGTSSGNAAPPAITALNGDSRSLVDVKPRIAD
EPLDKSKVWKLMEITESSQCRSLKLTDNMRTSKISRLIYTNSGVAILALASNAVHLLWKWPRND
RNSSGKATASVSPQLWQPPSGILMTNDITDNPEEAVHCFALSKNDSYVMSASGGKISLFNMMTF
KVLLIQGILYRSIHTMAVMISGSTWRLMRMSVV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8171518-8168233(+) 8170875-8171320(-)
Potential amino acid sequence	MNRSVQYALNKQHLKSHHVEQRYFPSRCRHDI(+) MAYSADGSRLFSCGTSKDGESHLVEWNESEGAVKRTYQGFRKRSMGVVQFDTTRNRFLAAGDEF LIKIWDMDNTSLLTTIDADGGLPASPRVRFNKEGTLLAVSTHENGIKILANADGVRLLRTLENR SFDASRSASETVTKPLMNPLTAAAAAAASAAAAGTSSGNAAPPAITALNGDSRSLVDVKPRIAD EPLDKSKVWKLMEITESSQCRSLKLTDNMRTSKISRLIYTNSGVAILALASNAVHLLWKWPRND RNSSGKATASVSPQLWQPPSGILMTNDITDNPEEAVHCFALSKNDSYVMSASGGKISLFNMMTF KVLLIQGILYRSIHTMAVMISGSTWRLMRMSVV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0254700_circ_g.4

Address

Any questions?

Supported by