Plant Circular RNA Database

Detail information of Os08g0439100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0439100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037182
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 21338926-21342166  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os08g0439100						
					
						Parent gene annotation
						
							Protein of unknown function DUF1336 domain containing protein. (
Os08t0439100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0439100_circ_g.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_igg.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_g.6 Os08g0439100_circ_g.7 Os08g0439100_circ_g.8 Os08g0439100_circ_g.9 Os08g0439100_circ_g.10 Os08g0439100_circ_g.11 						
					
						Support reads
						1
					
						Tissues
						root, 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  
						
							GT-AG							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
						Os08t0439100-01:7

General Information
CircRNA Name	Os08g0439100_circ_g.3
ID in PlantcircBase	osa_circ_037182
Alias	NA
Organism	Oryza sativa
Position	chr8: 21338926-21342166 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os08g0439100
Parent gene annotation	Protein of unknown function DUF1336 domain containing protein. ( Os08t0439100-01)
Parent gene strand	+
Alternative splicing	Os08g0439100_circ_g.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_igg.1 Os08g0439100_circ_g.2 Os08g0439100_circ_g.3 Os08g0439100_circ_g.4 Os08g0439100_circ_g.5 Os08g0439100_circ_g.6 Os08g0439100_circ_g.7 Os08g0439100_circ_g.8 Os08g0439100_circ_g.9 Os08g0439100_circ_g.10 Os08g0439100_circ_g.11
Support reads	1
Tissues	root, 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	GT-AG 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	Os08t0439100-01:7

			
						 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  
						
							GAAATCTCTCTAATCATGTCCAAATTATCATGAACTTATTTTCTTTGTGTTTGATTGTTTTGCA
GGTATAAGAATTTTTGAAGATATTGCAAACACAAAGcaacctatccgaaagggtgttgtaagtc
acactcttatggtggaggagcttggtcgccggattactagccatggggtaatggtccaattctg
tcctttga

									
								

					

						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
						
							CAACCTATCCGAAAGGGTGTTGTAAGTCACACTCTTATGGTGGAGGAGCTTGGTCGCCGGATTA
CTAGCCATGGGGTAATGGTCCAATTCTGTCCTTTGATTAACATTTAACTGTCATATTATGTCCC
TATTTTTCTAGTGCAGCATAAATCATGTCTTTTTGTTAAAACGTTTTGTTCTAAATGTCTCATG
TGATTGCCTTTATAAATAACCAAATATGTTTTTTTTTTCAAAACCCAGGAACTGTATGTCTTGC
GGTTTTACAATCGGTTGGATCAAACAAAGAAAGGAGAGGTGCACAGCTCATTATGCTCTTGAAT
ATTTGTAAACAATGCTCCTATATAATGATTAAAAGTTTACTACTATTTTCCTTTTACTAGATTG
CATGTGGGGACCCCGGTGAAGCTAGGAAATGGGTTGAAGCATTTGAGCAGGCAAAACAGCAGGT
ATTTAATAATTCTATAAAATGCTAACTGTTATTGTCGGTGTAAAGTAGATTATGTGTTTTTGGG
GTCATCTTCTACACCCTTTATGAAAATGTGGGCTAACTTCAGTTACCTGTAACTGCCAAACTGG
AAATACTGTATTCATGGCGTTCAGCTCAAAGAAATCTTAAAAAAAATATTTCTATTTTTTCCTA
ATTGTGTTGTTGGCATTCAGGTTGTGATAGCATACCACTGAAGTTATTTATTTATGCACCAAAA
TTTAACATGTATTCAAATCCTTGAGACAATGGCTCATCACAGTACAATAACCAGAAATACTTAA
GAATTATGACAGGGATGCATGAAAATTGGCATTGCAGCAGTAGAAACTTTAAACAGCTGCTCTT
GAAATCGAGCTTGCTTCCAATAAACATGATTGCTGGCACGAGGGAGGCAAGGGAAGAATGAAAT
CTTGGAAATGTTGAAGTGTTAACAAATAAGCTCATTGAGTCATGTGCCACTCTTGCACTGGCAC
CTGCCCCTGAGTGTTAGCACTTGTTTTTGTCACGGGGAATAGAGATTTCAATAATTCATTACTC
AGATAGGTCCTTAATAAAATCTCCGCCGGCTATCTGTTATTTCTGCTGTAAAACCATTATCATA
ATTCATTGTACAAAAATGTTTACTTGAAAATTGAGTTTCAAATTTATAGACAGCACTGGCCTTT
TGTTTTAGGTATGACTTCTTCCAATTGTCACATCATGTCCATGTGTTGCAACAAGTCCCAAATA
AATATATTAGTCTAAATTACAAGATGTAATAAATAAATAATTATATTCAAATCTGAAACCTATA
TACATATTTATGTGAAACCAATTGACTACATATGTATACTTGTATGCAGTGATGCGACATTTTT
CTATAAAATTCTTACAAATAATATGTGCATGCCTATATATTTGCAGTCACAAAAGATCTTGAGT
GGAGGTGGGTGTAGAACCTTCCAATAATATCACCCTTAACACCCTCTTTAAATCAAGATAAGAT
ACAATTAATAATTTCTGCTACATTTCATTTGATTCTTTTATCCTGATTTCTCATAACAGGCTGA
TTATGACCTGATGACGAGAGGGGTTAGTTGGAATAGATCCCAGAATGAAAACGAGTATGGGAGC
TTCTTTGTGAGATGATACCTAGTTTTTCTTTTCCAATTTGCAATTTACAGTTCTTTGTTAAGCC
AAGCTCTTACGCCATATAATTATTTACACCTGGAGGCTTAATCTTGATGGGCATCGACCACGTG
TAAGGAGATATGCACAAGGCTTGGGGAAACTTGTACGAATTGGTAAAGGTAAGATAACAAAAAT
GCAATATTAATTTGTACCATGATAATTAGATTACAGTTTTACTCTATAACTTTTGAGACAGCTC
AATATTGAATGTTAGACAATTCACTCAATTCCTTGGCTAAATAAACCAAGAATGTTTGACTTTA
TTTTTTTTCCATAAATCAGTTTAACACCCTCCTCCCCCCCCAAAAAAAAACCAAAAAAAAAACA
TTTTGGTTGTCCAGTGTCCAGAAGGGTGATAATCAAGATCTGAAATCCAAATGTGGTATCGGTA
AATTGTACAACTTGCTAATCCTTTTCCATTTATTTATCAATTTAATTTTCTTGAAAAAAAAGTA
CTGGGCTTCTTTTGTAGGCATCCTAGTTCGATTCTAACAGAGTTTAGGGCTTAGTCAGATTGAG
TTGTTTTATAGAGGACCGATGTTACTCAGTTTCAGAAACATTTCAATTGGTGGGCTCTTTACTC
TGCAAAAGTGAGGTGTCCAATTGTTGTCAACTCAGCCAGCAGGCCAACCCACTTTGACTTTGAA
GCTCTGCAGAAGAGTTGGATATGAGCATATGACTAACTCTACGGAAAGAAATTGACCCAGATAG
TTTTCAGTTAGCCCAATTTTGAAGTTTTACATGAAAGTGCTAACTATGTGATAGATCCATTACT
TACCTACAATTCTTTTATTTACGTTTTTGATTACAGGGCCAGAAAAGCTCTTGCGGCAGTCTTC
AAATCTTCAAAGCCATGAGATAATTAATACAAACTTTGGAGGCGATTCTGGAGATGCATTCGAA
GCACACGAATGGAGATATGTTCGAACATTTAATGGTATCCTTACGCTATTCCTATTGGCACCTT
ATAACTAATCTGGTTAATCTGCGTGTATTCCTCTTTTGTTCCTTTTGGATGTCTACTCTAATCT
ATGTTAGATGAAGTTACAGAAAACATCTTTTTAAGTTCTCTTGCTGAAAAATAATATTCTTGTG
AATTACTGACTCTACACTTCACCTGGCAATCTACATGACCAACAGTCACTTATTTTTATGAACT
ATAAGACACCATTGTATCTTGGACAGTTAACTTTAGTTCTGAGTTCATTGCTTAAGTGCACAGG
ATAATAGTTGACACTATGTCCTAATGACCTTGAGACTCAGTTTGTACCCCTAACATCTATCGGA
TAAATTAAATTGATACCGAGTCAATTTTATCCCATATGTTCTGCAACACGATACATACATCAAC
TTGCAACTTGATTTAAGAAAAAATAGCTAGCCAATCAAGATATCTAAACATGGTTTAACTAGCA
TGACCAAGTGGGATTATTTACCTTTATGTCTATTATTCAATTCCTAGGGCATATATAATGATGA
AATTTGAAATCTCTCTAATCATGTCCAAATTATCATGAACTTATTTTCTTTGTGTTTGATTGTT
TTGCAGGTATAAGAATTTTTGAAGATATTGCAAACACAAAG
						
					

			
		

Sequences
Splice junction sequence	GAAATCTCTCTAATCATGTCCAAATTATCATGAACTTATTTTCTTTGTGTTTGATTGTTTTGCA GGTATAAGAATTTTTGAAGATATTGCAAACACAAAGcaacctatccgaaagggtgttgtaagtc acactcttatggtggaggagcttggtcgccggattactagccatggggtaatggtccaattctg tcctttga
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	CAACCTATCCGAAAGGGTGTTGTAAGTCACACTCTTATGGTGGAGGAGCTTGGTCGCCGGATTA CTAGCCATGGGGTAATGGTCCAATTCTGTCCTTTGATTAACATTTAACTGTCATATTATGTCCC TATTTTTCTAGTGCAGCATAAATCATGTCTTTTTGTTAAAACGTTTTGTTCTAAATGTCTCATG TGATTGCCTTTATAAATAACCAAATATGTTTTTTTTTTCAAAACCCAGGAACTGTATGTCTTGC GGTTTTACAATCGGTTGGATCAAACAAAGAAAGGAGAGGTGCACAGCTCATTATGCTCTTGAAT ATTTGTAAACAATGCTCCTATATAATGATTAAAAGTTTACTACTATTTTCCTTTTACTAGATTG CATGTGGGGACCCCGGTGAAGCTAGGAAATGGGTTGAAGCATTTGAGCAGGCAAAACAGCAGGT ATTTAATAATTCTATAAAATGCTAACTGTTATTGTCGGTGTAAAGTAGATTATGTGTTTTTGGG GTCATCTTCTACACCCTTTATGAAAATGTGGGCTAACTTCAGTTACCTGTAACTGCCAAACTGG AAATACTGTATTCATGGCGTTCAGCTCAAAGAAATCTTAAAAAAAATATTTCTATTTTTTCCTA ATTGTGTTGTTGGCATTCAGGTTGTGATAGCATACCACTGAAGTTATTTATTTATGCACCAAAA TTTAACATGTATTCAAATCCTTGAGACAATGGCTCATCACAGTACAATAACCAGAAATACTTAA GAATTATGACAGGGATGCATGAAAATTGGCATTGCAGCAGTAGAAACTTTAAACAGCTGCTCTT GAAATCGAGCTTGCTTCCAATAAACATGATTGCTGGCACGAGGGAGGCAAGGGAAGAATGAAAT CTTGGAAATGTTGAAGTGTTAACAAATAAGCTCATTGAGTCATGTGCCACTCTTGCACTGGCAC CTGCCCCTGAGTGTTAGCACTTGTTTTTGTCACGGGGAATAGAGATTTCAATAATTCATTACTC AGATAGGTCCTTAATAAAATCTCCGCCGGCTATCTGTTATTTCTGCTGTAAAACCATTATCATA ATTCATTGTACAAAAATGTTTACTTGAAAATTGAGTTTCAAATTTATAGACAGCACTGGCCTTT TGTTTTAGGTATGACTTCTTCCAATTGTCACATCATGTCCATGTGTTGCAACAAGTCCCAAATA AATATATTAGTCTAAATTACAAGATGTAATAAATAAATAATTATATTCAAATCTGAAACCTATA TACATATTTATGTGAAACCAATTGACTACATATGTATACTTGTATGCAGTGATGCGACATTTTT CTATAAAATTCTTACAAATAATATGTGCATGCCTATATATTTGCAGTCACAAAAGATCTTGAGT GGAGGTGGGTGTAGAACCTTCCAATAATATCACCCTTAACACCCTCTTTAAATCAAGATAAGAT ACAATTAATAATTTCTGCTACATTTCATTTGATTCTTTTATCCTGATTTCTCATAACAGGCTGA TTATGACCTGATGACGAGAGGGGTTAGTTGGAATAGATCCCAGAATGAAAACGAGTATGGGAGC TTCTTTGTGAGATGATACCTAGTTTTTCTTTTCCAATTTGCAATTTACAGTTCTTTGTTAAGCC AAGCTCTTACGCCATATAATTATTTACACCTGGAGGCTTAATCTTGATGGGCATCGACCACGTG TAAGGAGATATGCACAAGGCTTGGGGAAACTTGTACGAATTGGTAAAGGTAAGATAACAAAAAT GCAATATTAATTTGTACCATGATAATTAGATTACAGTTTTACTCTATAACTTTTGAGACAGCTC AATATTGAATGTTAGACAATTCACTCAATTCCTTGGCTAAATAAACCAAGAATGTTTGACTTTA TTTTTTTTCCATAAATCAGTTTAACACCCTCCTCCCCCCCCAAAAAAAAACCAAAAAAAAAACA TTTTGGTTGTCCAGTGTCCAGAAGGGTGATAATCAAGATCTGAAATCCAAATGTGGTATCGGTA AATTGTACAACTTGCTAATCCTTTTCCATTTATTTATCAATTTAATTTTCTTGAAAAAAAAGTA CTGGGCTTCTTTTGTAGGCATCCTAGTTCGATTCTAACAGAGTTTAGGGCTTAGTCAGATTGAG TTGTTTTATAGAGGACCGATGTTACTCAGTTTCAGAAACATTTCAATTGGTGGGCTCTTTACTC TGCAAAAGTGAGGTGTCCAATTGTTGTCAACTCAGCCAGCAGGCCAACCCACTTTGACTTTGAA GCTCTGCAGAAGAGTTGGATATGAGCATATGACTAACTCTACGGAAAGAAATTGACCCAGATAG TTTTCAGTTAGCCCAATTTTGAAGTTTTACATGAAAGTGCTAACTATGTGATAGATCCATTACT TACCTACAATTCTTTTATTTACGTTTTTGATTACAGGGCCAGAAAAGCTCTTGCGGCAGTCTTC AAATCTTCAAAGCCATGAGATAATTAATACAAACTTTGGAGGCGATTCTGGAGATGCATTCGAA GCACACGAATGGAGATATGTTCGAACATTTAATGGTATCCTTACGCTATTCCTATTGGCACCTT ATAACTAATCTGGTTAATCTGCGTGTATTCCTCTTTTGTTCCTTTTGGATGTCTACTCTAATCT ATGTTAGATGAAGTTACAGAAAACATCTTTTTAAGTTCTCTTGCTGAAAAATAATATTCTTGTG AATTACTGACTCTACACTTCACCTGGCAATCTACATGACCAACAGTCACTTATTTTTATGAACT ATAAGACACCATTGTATCTTGGACAGTTAACTTTAGTTCTGAGTTCATTGCTTAAGTGCACAGG ATAATAGTTGACACTATGTCCTAATGACCTTGAGACTCAGTTTGTACCCCTAACATCTATCGGA TAAATTAAATTGATACCGAGTCAATTTTATCCCATATGTTCTGCAACACGATACATACATCAAC TTGCAACTTGATTTAAGAAAAAATAGCTAGCCAATCAAGATATCTAAACATGGTTTAACTAGCA TGACCAAGTGGGATTATTTACCTTTATGTCTATTATTCAATTCCTAGGGCATATATAATGATGA AATTTGAAATCTCTCTAATCATGTCCAAATTATCATGAACTTATTTTCTTTGTGTTTGATTGTT TTGCAGGTATAAGAATTTTTGAAGATATTGCAAACACAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.094941014

Conservation Information
Conserved circRNAs	NA
PMCS	0.094941014

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21338963-21342163(+)
21340645-21341422(-)
						
						Potential amino acid sequence
						
							MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS
WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF
EAHEWRYVRTFNGIRIFEDIANTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTK
KGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGK
LVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKQPIR
KGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADY
DLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNF
GGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRF
YNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVR
RYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDI
ANTK(+)
MPIKIKLVFILGSIPTNPSRHQVIISLLFCLLKCFNPFPSFTGVPTCNLSFLCLIQPIVKPQDI
QFPMASNPATKLLHHKSVTYNTLSDRLLCVCNIFKNSYTIKCSNISPFVCFECISRIASKVCIN
YLMALKI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21338963-21342163(+) 21340645-21341422(-)
Potential amino acid sequence	MVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVS WNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAF EAHEWRYVRTFNGIRIFEDIANTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTK KGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGK LVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKQPIR KGVVSHTLMVEELGRRITSHGELYVLRFYNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADY DLMTRGVSWNRSQNENELNLDGHRPRVRRYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNF GGDSGDAFEAHEWRYVRTFNGIRIFEDIANTKQPIRKGVVSHTLMVEELGRRITSHGELYVLRF YNRLDQTKKGEIACGDPGEARKWVEAFEQAKQQADYDLMTRGVSWNRSQNENELNLDGHRPRVR RYAQGLGKLVRIGKGPEKLLRQSSNLQSHEIINTNFGGDSGDAFEAHEWRYVRTFNGIRIFEDI ANTK(+) MPIKIKLVFILGSIPTNPSRHQVIISLLFCLLKCFNPFPSFTGVPTCNLSFLCLIQPIVKPQDI QFPMASNPATKLLHHKSVTYNTLSDRLLCVCNIFKNSYTIKCSNISPFVCFECISRIASKVCIN YLMALKI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0439100_circ_g.3

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