Plant Circular RNA Database

Detail information of Os06g0171800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0171800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_029839
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 3601906-3604303  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os06g0171800						
					
						Parent gene annotation
						
							VRR-NUC domain containing protein. (Os06t0171800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0171800_circ_g.4 Os06g0171800_circ_g.5 Os06g0171800_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						seed
					
						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
						Os06t0171800-01:6

General Information
CircRNA Name	Os06g0171800_circ_g.3
ID in PlantcircBase	osa_circ_029839
Alias	NA
Organism	Oryza sativa
Position	chr6: 3601906-3604303 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os06g0171800
Parent gene annotation	VRR-NUC domain containing protein. (Os06t0171800-01)
Parent gene strand	-
Alternative splicing	Os06g0171800_circ_g.4 Os06g0171800_circ_g.5 Os06g0171800_circ_g.6
Support reads	1
Tissues	seed
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	Os06t0171800-01:6

			
						 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  
						
							TTGTTCAAAGCGTAATCATCTGTGGCTTTTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAG
TTAACTTCCGTTTTGTTCCTCTTGTAAGGCATATATcttttggagctcttttagaatttctttc
atttcaggaacacttagcacgtcaataacctccttcaaatcatagttagatagatcatccatgc
aggatatc

									
								

					

						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: 1160
Transcript exons: 3601906-3602024,3602099-3602173,3602600-3602662,3602751-
3603012,3603588-3603692,3603768-3604303
CTTTTGGAGCTCTTTTAGAATTTCTTTCATTTCAGGAACACTTAGCACGTCAATAACCTCCTTC
AAATCATAGTTAGATAGATCATCCATGCAGGATATCATGTCAATATAACCTGCCAACTTAAGTT
CCATGGCTGCCTGCCCCAGATCTGATATCTCACGATATGAGATACTGCTCATTCGAAACCATGG
CCCTTTTCGAGTGTAGATCCTAACAAAGAGCCTTTGTCCATCATCTGGTAACAACTGAAAAGAG
TCTAAAAATGACTTTTCCTTGTCACTAAAAAGGTGTGAATGGTTTGCCATCACATCTGTTATCA
TCGAACTAAAATTTGTCTGGTATCTCGTACTGCTAGGTTGCAGCAAATTTCCATTTCCAACAGC
ACATATGAAATTTTCCCATAAGAACTGTGGATGCTTCAGATCATCATATGTCTCATTTTCATCT
GTATATTTCTGGCACTTAAGCTGGATGGGAACATGATCAAGTTGTTGTTCAGGCACGCCAACCA
CACATCCCTCGCATTCAATGTAGTGTCTGTCCAGTAGAGGAGCCAAAACTTTAGCCAGCTCTCG
AGGTAAGTATCCAAGCATCTGTTCACATTCATAGCCTGCATAAAGCACCTTGATAGCGTCAGGG
TCCTTTGCATTCTGAGGATCTCGGAGAAGAGTAATGCTCGCACCTTCTTGCAATTCTATGTTTT
CATGGAACCTCCTGCCCACTATGACAGTGTCAACTACTACCGAATTGCTAGAATCTGTCACTGA
AAGCAAACCAATAGTACTCGAAGTTGCATCAGTTGAAGGCATGTGGGACAAGCACTTCTTGACT
ACACCATTGTTTGCAGTATTTTCTGTATATGGTAATAATACATTGGGTGGTAGACAGGTATCAC
ATGTCTCCGAGATGTCAGGAGAGCCATGCAGGCAGCCAGGTGATGAAGCATTAGCACTTCCCTT
TGAATTGACCTTGTCATTATTCAACGAGAAGAAAGCTCCATCGCTAGATACATTTCCATCGGTC
GGTTCCATATGCTCTGCCTCATCACTGGTGTTCAAATTGTTCAAAGCGTAATCATCTGTGGCTT
TTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAGTTAACTTCCGTTTTGTTCCTCTTGTAAG
GCATATAT
						
					

						Genomic sequence
						
							CTTTTGGAGCTCTTTTAGAATTTCTTTCATTTCAGGAACACTTAGCACGTCAATAACCTCCTTC
AAATCATAGTTAGATAGATCATCCATGCAGGATATCATGTCAATATAACCTGCCACTATATAGG
AAAGAGATCATGATTGAAGCAGCCAACATATGAATTAGTAAAAGTGAGCAGGTCCAGATTATTA
CACTTAAGTTCCATGGCTGCCTGCCCCAGATCTGATATCTCACGATATGAGATACTGCTCATTC
GAAACCATGGCCCTACAAGAAATTTTAGGTGTTTATAAGTATGTGAACTACCTAAGGAACACAG
GCATTAAAAGTCTAGAGGCAATTGTGGATCATTACGAATTAAATGAGAAGATCAACAGATGCAT
CAATTTATACAGAAATGTAGCAAACCCAAGGTAATTATTGTAGTATAGTAATACACAATATAAA
ATCCCTAGAACTCATAGATTAATCATGTAAGACTTAATCACTTTCAAGAGGTAAGAAAGCTGCG
CAGAGAACATTTCAAAGTTAATGAGTGGATAGTCTAGGCAATCAAGTAGCACAGCTAGCCCCTT
CTGAAAATAGTGCTCCCAAATTCATGCTGCACATCTGCTATTTATGTAAAAATAAATATGTAAT
CAAGAATGAAGTAAAATGAGCATCTCAGTTATTACTTGATGCCGATATAGCAACCTTTTCGAGT
GTAGATCCTAACAAAGAGCCTTTGTCCATCATCTGGTAACAACTGAAAAGAGTCTGTTGAGGAT
AAGAACAGAGTCCTCGATGAGTACTTTCTAATTCACAAATATAAGATATATATAGTGGGGAGGA
AATAAGAAACAACCTAAAAATGACTTTTCCTTGTCACTAAAAAGGTGTGAATGGTTTGCCATCA
CATCTGTTATCATCGAACTAAAATTTGTCTGGTATCTCGTACTGCTAGGTTGCAGCAAATTTCC
ATTTCCAACAGCACATATGAAATTTTCCCATAAGAACTGTGGATGCTTCAGATCATCATATGTC
TCATTTTCATCTGTATATTTCTGGCACTTAAGCTGGATGGGAACATGATCAAGTTGTTGTTCAG
GCACGCCAACCACACATCCCTAACAAAAAAAGAATAATTAGAAGTTGAATGGTTATTAACTTGG
TAGTACAGAGTCACAGAAAAAGAAACATTACATCCTTCCTAAAGTAAATAAAGTGAATAGTTAT
TTCCACCAAAATTAATACAACTGATAAAGTGACCACCAAATAATTTCAAGAAGAAATAGAAATG
CGGGGGTTAGGTGAAATAACATCGTCCCAACGCTCCGACTGGAATGAGTCGCTTAAAGAGAAGG
ACAAGCTAGAGAGCATGACAGTAGCATATAAAGTAATATCTGATTATGAAGCTGTCATATCTAA
TGCATGCATTAACATCAGGGACCATTAGCGAAGATGGCATGGGGTGAGATACTGAGATTTCAAA
GATAATCTAATGCACAGGTCAATGTTGGTTCCCTTACCACCTATAGGATAGTTAAAGTAGAACT
TGAAGGGAAACATAGCAATAGCTGCAGTTTCATCAGTGTAATGCATTCTACATAAATACAACAC
TTATATCCAACAGAATATGTTAATTCAACAAGGTAACCTAATGACAGCGGTTCTGCTGCGATAT
ACAAAGAAGTAAGCTCACCTCGCATTCAATGTAGTGTCTGTCCAGTAGAGGAGCCAAAACTTTA
GCCAGCTCTCGAGGTAAGTATCCAAGCATCTGTTCACATTCATAGCCTGCATAAAGCACCTATG
CATGGTGTTAAGAAAAAAATGTCCACAGAAGAGGCATATCACAGGAATTTATTTAGACAAAATG
GAAAACCTTGATAGCGTCAGGGTCCTTTGCATTCTGAGGATCTCGGAGAAGAGTAATGCTCGCA
CCTTCTTGCAATTCTATGTTTTCATGGAACCTCCTGCCCACTATGACAGTGTCAACTACTACCG
AATTGCTAGAATCTGTCACTGAAAGCAAACCAATAGTACTCGAAGTTGCATCAGTTGAAGGCAT
GTGGGACAAGCACTTCTTGACTACACCATTGTTTGCAGTATTTTCTGTATATGGTAATAATACA
TTGGGTGGTAGACAGGTATCACATGTCTCCGAGATGTCAGGAGAGCCATGCAGGCAGCCAGGTG
ATGAAGCATTAGCACTTCCCTTTGAATTGACCTTGTCATTATTCAACGAGAAGAAAGCTCCATC
GCTAGATACATTTCCATCGGTCGGTTCCATATGCTCTGCCTCATCACTGGTGTTCAAATTGTTC
AAAGCGTAATCATCTGTGGCTTTTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAGTTAACT
TCCGTTTTGTTCCTCTTGTAAGGCATATAT
						
					

			
		

Sequences
Splice junction sequence	TTGTTCAAAGCGTAATCATCTGTGGCTTTTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAG TTAACTTCCGTTTTGTTCCTCTTGTAAGGCATATATcttttggagctcttttagaatttctttc atttcaggaacacttagcacgtcaataacctccttcaaatcatagttagatagatcatccatgc aggatatc
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: 1160 Transcript exons: 3601906-3602024,3602099-3602173,3602600-3602662,3602751- 3603012,3603588-3603692,3603768-3604303 CTTTTGGAGCTCTTTTAGAATTTCTTTCATTTCAGGAACACTTAGCACGTCAATAACCTCCTTC AAATCATAGTTAGATAGATCATCCATGCAGGATATCATGTCAATATAACCTGCCAACTTAAGTT CCATGGCTGCCTGCCCCAGATCTGATATCTCACGATATGAGATACTGCTCATTCGAAACCATGG CCCTTTTCGAGTGTAGATCCTAACAAAGAGCCTTTGTCCATCATCTGGTAACAACTGAAAAGAG TCTAAAAATGACTTTTCCTTGTCACTAAAAAGGTGTGAATGGTTTGCCATCACATCTGTTATCA TCGAACTAAAATTTGTCTGGTATCTCGTACTGCTAGGTTGCAGCAAATTTCCATTTCCAACAGC ACATATGAAATTTTCCCATAAGAACTGTGGATGCTTCAGATCATCATATGTCTCATTTTCATCT GTATATTTCTGGCACTTAAGCTGGATGGGAACATGATCAAGTTGTTGTTCAGGCACGCCAACCA CACATCCCTCGCATTCAATGTAGTGTCTGTCCAGTAGAGGAGCCAAAACTTTAGCCAGCTCTCG AGGTAAGTATCCAAGCATCTGTTCACATTCATAGCCTGCATAAAGCACCTTGATAGCGTCAGGG TCCTTTGCATTCTGAGGATCTCGGAGAAGAGTAATGCTCGCACCTTCTTGCAATTCTATGTTTT CATGGAACCTCCTGCCCACTATGACAGTGTCAACTACTACCGAATTGCTAGAATCTGTCACTGA AAGCAAACCAATAGTACTCGAAGTTGCATCAGTTGAAGGCATGTGGGACAAGCACTTCTTGACT ACACCATTGTTTGCAGTATTTTCTGTATATGGTAATAATACATTGGGTGGTAGACAGGTATCAC ATGTCTCCGAGATGTCAGGAGAGCCATGCAGGCAGCCAGGTGATGAAGCATTAGCACTTCCCTT TGAATTGACCTTGTCATTATTCAACGAGAAGAAAGCTCCATCGCTAGATACATTTCCATCGGTC GGTTCCATATGCTCTGCCTCATCACTGGTGTTCAAATTGTTCAAAGCGTAATCATCTGTGGCTT TTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAGTTAACTTCCGTTTTGTTCCTCTTGTAAG GCATATAT
Genomic sequence	CTTTTGGAGCTCTTTTAGAATTTCTTTCATTTCAGGAACACTTAGCACGTCAATAACCTCCTTC AAATCATAGTTAGATAGATCATCCATGCAGGATATCATGTCAATATAACCTGCCACTATATAGG AAAGAGATCATGATTGAAGCAGCCAACATATGAATTAGTAAAAGTGAGCAGGTCCAGATTATTA CACTTAAGTTCCATGGCTGCCTGCCCCAGATCTGATATCTCACGATATGAGATACTGCTCATTC GAAACCATGGCCCTACAAGAAATTTTAGGTGTTTATAAGTATGTGAACTACCTAAGGAACACAG GCATTAAAAGTCTAGAGGCAATTGTGGATCATTACGAATTAAATGAGAAGATCAACAGATGCAT CAATTTATACAGAAATGTAGCAAACCCAAGGTAATTATTGTAGTATAGTAATACACAATATAAA ATCCCTAGAACTCATAGATTAATCATGTAAGACTTAATCACTTTCAAGAGGTAAGAAAGCTGCG CAGAGAACATTTCAAAGTTAATGAGTGGATAGTCTAGGCAATCAAGTAGCACAGCTAGCCCCTT CTGAAAATAGTGCTCCCAAATTCATGCTGCACATCTGCTATTTATGTAAAAATAAATATGTAAT CAAGAATGAAGTAAAATGAGCATCTCAGTTATTACTTGATGCCGATATAGCAACCTTTTCGAGT GTAGATCCTAACAAAGAGCCTTTGTCCATCATCTGGTAACAACTGAAAAGAGTCTGTTGAGGAT AAGAACAGAGTCCTCGATGAGTACTTTCTAATTCACAAATATAAGATATATATAGTGGGGAGGA AATAAGAAACAACCTAAAAATGACTTTTCCTTGTCACTAAAAAGGTGTGAATGGTTTGCCATCA CATCTGTTATCATCGAACTAAAATTTGTCTGGTATCTCGTACTGCTAGGTTGCAGCAAATTTCC ATTTCCAACAGCACATATGAAATTTTCCCATAAGAACTGTGGATGCTTCAGATCATCATATGTC TCATTTTCATCTGTATATTTCTGGCACTTAAGCTGGATGGGAACATGATCAAGTTGTTGTTCAG GCACGCCAACCACACATCCCTAACAAAAAAAGAATAATTAGAAGTTGAATGGTTATTAACTTGG TAGTACAGAGTCACAGAAAAAGAAACATTACATCCTTCCTAAAGTAAATAAAGTGAATAGTTAT TTCCACCAAAATTAATACAACTGATAAAGTGACCACCAAATAATTTCAAGAAGAAATAGAAATG CGGGGGTTAGGTGAAATAACATCGTCCCAACGCTCCGACTGGAATGAGTCGCTTAAAGAGAAGG ACAAGCTAGAGAGCATGACAGTAGCATATAAAGTAATATCTGATTATGAAGCTGTCATATCTAA TGCATGCATTAACATCAGGGACCATTAGCGAAGATGGCATGGGGTGAGATACTGAGATTTCAAA GATAATCTAATGCACAGGTCAATGTTGGTTCCCTTACCACCTATAGGATAGTTAAAGTAGAACT TGAAGGGAAACATAGCAATAGCTGCAGTTTCATCAGTGTAATGCATTCTACATAAATACAACAC TTATATCCAACAGAATATGTTAATTCAACAAGGTAACCTAATGACAGCGGTTCTGCTGCGATAT ACAAAGAAGTAAGCTCACCTCGCATTCAATGTAGTGTCTGTCCAGTAGAGGAGCCAAAACTTTA GCCAGCTCTCGAGGTAAGTATCCAAGCATCTGTTCACATTCATAGCCTGCATAAAGCACCTATG CATGGTGTTAAGAAAAAAATGTCCACAGAAGAGGCATATCACAGGAATTTATTTAGACAAAATG GAAAACCTTGATAGCGTCAGGGTCCTTTGCATTCTGAGGATCTCGGAGAAGAGTAATGCTCGCA CCTTCTTGCAATTCTATGTTTTCATGGAACCTCCTGCCCACTATGACAGTGTCAACTACTACCG AATTGCTAGAATCTGTCACTGAAAGCAAACCAATAGTACTCGAAGTTGCATCAGTTGAAGGCAT GTGGGACAAGCACTTCTTGACTACACCATTGTTTGCAGTATTTTCTGTATATGGTAATAATACA TTGGGTGGTAGACAGGTATCACATGTCTCCGAGATGTCAGGAGAGCCATGCAGGCAGCCAGGTG ATGAAGCATTAGCACTTCCCTTTGAATTGACCTTGTCATTATTCAACGAGAAGAAAGCTCCATC GCTAGATACATTTCCATCGGTCGGTTCCATATGCTCTGCCTCATCACTGGTGTTCAAATTGTTC AAAGCGTAATCATCTGTGGCTTTTCTACTGAAACTGAAATCAAGAAGGGTGCTCTGAGTTAACT TCCGTTTTGTTCCTCTTGTAAGGCATATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.214178764

Conservation Information
Conserved circRNAs	NA
PMCS	0.214178764

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3604177-3604270(-)
						
						Potential amino acid sequence
						
							MEPTDGNVSSDGAFFSLNNDKVNSKGSANASSPGCLHGSPDISETCDTCLPPNVLLPYTENTAN
NGVVKKCLSHMPSTDATSSTIGLLSVTDSSNSVVVDTVIVGRRFHENIELQEGASITLLRDPQN
AKDPDAIKVLYAGYECEQMLGYLPRELAKVLAPLLDRHYIECEGCVVGVPEQQLDHVPIQLKCQ
KYTDENETYDDLKHPQFLWENFICAVGNGNLLQPSSTRYQTNFSSMITDVMANHSHLFSDKEKS
FLDSFQLLPDDGQRLFVRIYTRKGPWFRMSSISYREISDLGQAAMELKLAGYIDMISCMDDLSN
YDLKEVIDVLSVPEMKEILKELQKIYALQEEQNGS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3604177-3604270(-)
Potential amino acid sequence	MEPTDGNVSSDGAFFSLNNDKVNSKGSANASSPGCLHGSPDISETCDTCLPPNVLLPYTENTAN NGVVKKCLSHMPSTDATSSTIGLLSVTDSSNSVVVDTVIVGRRFHENIELQEGASITLLRDPQN AKDPDAIKVLYAGYECEQMLGYLPRELAKVLAPLLDRHYIECEGCVVGVPEQQLDHVPIQLKCQ KYTDENETYDDLKHPQFLWENFICAVGNGNLLQPSSTRYQTNFSSMITDVMANHSHLFSDKEKS FLDSFQLLPDDGQRLFVRIYTRKGPWFRMSSISYREISDLGQAAMELKLAGYIDMISCMDDLSN YDLKEVIDVLSVPEMKEILKELQKIYALQEEQNGS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0171800_circ_g.3

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