Plant Circular RNA Database

Detail information of Os01g0337600_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os01g0337600_circ_g.6
					
						ID in PlantcircBase
						osa_circ_001621
					
						Alias
						Os01circ10703/Os_ciR1626
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 13254817-13257688  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os01g0337600						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os01t0337600-01);Similar to bindi
ng. (Os01t0337600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0337600_circ_g.5 Os01g0337600_circ_g.7 Os01g0337600_circ_g.8 Os01g0337600_circ_g.9 Os01g0337600_circ_g.10 Os01g0337600_circ_g.11 Os01g0337600_circ_g.12 Os01g0337600_circ_g.13 Os01g0337600_circ_g.14 Os01g0337600_circ_g.15 						
					
						Support reads
						2/7/2
					
						Tissues
						panicle/root/shoot, 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
						Os01t0337600-01:9
Os01t0337600-02:9

General Information
CircRNA Name	Os01g0337600_circ_g.6
ID in PlantcircBase	osa_circ_001621
Alias	Os01circ10703/Os_ciR1626
Organism	Oryza sativa
Position	chr1: 13254817-13257688 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os01g0337600
Parent gene annotation	Similar to predicted protein. (Os01t0337600-01);Similar to bindi ng. (Os01t0337600-02)
Parent gene strand	-
Alternative splicing	Os01g0337600_circ_g.5 Os01g0337600_circ_g.7 Os01g0337600_circ_g.8 Os01g0337600_circ_g.9 Os01g0337600_circ_g.10 Os01g0337600_circ_g.11 Os01g0337600_circ_g.12 Os01g0337600_circ_g.13 Os01g0337600_circ_g.14 Os01g0337600_circ_g.15
Support reads	2/7/2
Tissues	panicle/root/shoot, 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	Os01t0337600-01:9 Os01t0337600-02:9

			
						 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  
						
							AACAAAAAAAAAATCCAAACCTTTAAAATTAAAGGAAGATTGGATAACTCAACAGGTGGAAGCT
CCCTCAGCTCACCATTAACGGAGCGGAAGGATTCATcggaacagtcgtaattgttgaacaagcg
gcaaactcttactgagagtgcaaaattcatgcaagaacagcacctacaaacaccaaaaacaatc
ttagcagt

									
								

					

						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
						
							CGGAACAGTCGTAATTGTTGAACAAGCGGCAAACTCTTACTGAGAGTGCAAAATTCATGCAAGA
ACAGCACCTACAAACACCAAAAACAATCTTAGCAGTGTCACCAAGGCAACGAATAACACACTAA
GTATTTTCAGCTTCTGGATCATCTCGACATGCAAACTATGCAAACGATTTTGGCTTTTTTTATA
GCTTTGAATGTGAGTCTCACATGCAGGTCCCAGACCCATGTCTGAGGCATCCAACAGCATCTTC
TGAACTAAAAAAATTGCAACATATTTGTGAATCCCTTTAACAAGTAACGACATTTCAAGACCTA
AAGTTCAACACCCACAGAGAAACAACTAATCTCTGTTAAGAATCATCGATAATGCAGCAGGAAA
TTCATGAAGACGATAACAGTTTCAGTTCTTAGTCACTGGCAGCAAGAATGACAGTGATGATAAA
TAGAATAATATGCTGCAGGTTTAAGGAGGCAATTGTATCTGCCAGCTAAATTTACTGAACTTCC
TAAATTTCATTGTGGTAATGCCAAGAAAATTGTGTTAATCACCAAAAAGGAAATAGCTGCAATT
TTGTTCATGTTAGACTCATCATGAACAAAATGGTTGAATGTGTGCTCACCAATTCTCTTTTTGA
TTCCATAGAAATATTTGATAATCTCATCCTAGCAAACAATTCTTGGATAAAGCAAGAATCATCC
TTTAGTAAGGAAATAACCTGCACACAAATCATTGTCATAAGCGACAAAAACAAGGAAATTTTAA
GATCAAGCAGACCAACACCGAGTGCAAGCTGAAACACTAACAGCGGCATTGTTCGAATGTATCA
TCGTGTTAAGACTAGCTAGAGTGCCATCATCCAACACTCGAGGTAATATAACATCCTGCAATTA
ACAAGAAAAAAAGCCCAATCTGTCAAATATGCATTCAAAAATAATATCAACAGAATTCTATCAT
GCAGAATAAGTACAAGGTAGCACTGACCTTTAGATAGCCTATTCTATATGTTTGATGTATCTTT
GAAACCACAGAAACATTTTTAATAGGTATGGCCTGTGGGGAAGAACAATGATCTACATTAACAT
TCAAATCATTTCTGAATCAGACCAAGGTGTGCAATGATCAGAGTACCTCTTTGAAAACTACATG
ATCCTTTAGAAAAGCGCGATGCTTTTGTACTTTAGGAACATCTGGGTCATCTGTATAGAATAGA
ACTCAATATATGAAGAAAAATGCGGAAGCAACCCCACAAGCATTTCAGTTAAAACCATAGCATA
TGTAATTTCATCATATGGAAATGAAATGGGGGAAACAAGAAGCAACAAAGGAGAAAACATACAT
TCAAGGGCACCTATGATGTCAAGAATAAACTCATCTGAGAAAATCTTGTCAAAGATTGATGAAC
TGTTCAGCAATACTGCAGAATGATAAACAGTAAATACTAATCTGTGAAATTTAGAAAACAAAAC
TTTCATACAGATATGTACTTACTGATTCCCCTGACTAATTTGAAGATCATGTGAAGATCATCTA
AGTTCTCTAAATCCTCGCATATTCGAAAAATGTCCAGTAACTTTGGGAAAAACTCGCGCTGCAA
GAATTTGTAAATGCAGTAGTTAAAGATTTCTAGTCAAACAGGACTAATCAAGTAATCATACCCA
AAATAACAAGTATAATCATCATATGTCACTTCCAAGTGTGCCACTGTTGCTTCCACCATGCCAT
GTAAACAAAAAGAAGATGGAATGTCAACAGGAGAACACCACACCCCAGTCATCTCTGTTCTTAT
TACGAATAGCCTTTAGATCTAATAGCATACTGTGTGCGACCCATGGAAGCTGTCCTTCAACATA
AAGTAAGACAGTAAGACTATAAGAGGCAAGGTTGCTCCCGTCCCACATTCCTTACCAAAGAGAT
GTCTTTGGCTTTGATGATTCAATTAACTTCTAGTTATACCTTCTATATAGTTACAACCCACTAA
GCCTAAAGCTCAACATGCAAACAACCTAATATCTCGTTATTTTTCTCCTACCTTCCACTTCTTG
TGATGCAAATCTTGGCCAGCAATCTAATATTTCATCTACAATCTCCTACATAGTCTACTAAATT
TATTTCTCTACAAACATGGCTTGGCAAACCAGTTTTATTTGTTGTTAATAACTAATATCCGTTT
TACTCCTGGCTTGGTTGCTGGAAAAAAAAACATATTGAAGATTACTTAGTAATTCCCACAGCAA
AGCTCGGAGAATCACCTAGTAAATATAGTACATGCAACCATCCCAGGCACAAAGATGAGGACTT
ACATCTTGTGTTATCAACTCTGCCACGCGCATCTGATCTGTAATGCCACCCTCCAATATAGTCT
GCAGATTTAGATGAACAATATTTTTGTTGTCAGCAAGGATTCTCAAATTTGCAGCAGAAAATGT
AGGTCACCCAAACACTAACTGTAAAGTGAATGTCAAATTTCAGGATTGATATAGCCAGCATGCA
AGTTACTCTGCACCCATTCTGCTGAGGCTTCCACAGCACTCAAAAGAATTCTCCACAGATATTA
ATAATATACATAAGTAGATGATCAGAAGAACAAGCAAAGGCTTATAGCCTTATAGGATGAACAC
AAGGTTCATGATTTTTCATATTTACTCGTCAAGGAGATGAGACTTCAAAACATGGTCAAGCAAA
GAAAAAAGACTAGCAAAAAAATAGAAGAATTTTTGCTATTGAGCATGAAAGGTAAGATTAATAA
AAAAAATGACTTCGTATAGGAACAAAAAAAAAATCCAAACCTTTAAAATTAAAGGAAGATTGGA
TAACTCAACAGGTGGAAGCTCCCTCAGCTCACCATTAACGGAGCGGAAGGATTCAT
						
					

			
		

Sequences
Splice junction sequence	AACAAAAAAAAAATCCAAACCTTTAAAATTAAAGGAAGATTGGATAACTCAACAGGTGGAAGCT CCCTCAGCTCACCATTAACGGAGCGGAAGGATTCATcggaacagtcgtaattgttgaacaagcg gcaaactcttactgagagtgcaaaattcatgcaagaacagcacctacaaacaccaaaaacaatc ttagcagt
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	CGGAACAGTCGTAATTGTTGAACAAGCGGCAAACTCTTACTGAGAGTGCAAAATTCATGCAAGA ACAGCACCTACAAACACCAAAAACAATCTTAGCAGTGTCACCAAGGCAACGAATAACACACTAA GTATTTTCAGCTTCTGGATCATCTCGACATGCAAACTATGCAAACGATTTTGGCTTTTTTTATA GCTTTGAATGTGAGTCTCACATGCAGGTCCCAGACCCATGTCTGAGGCATCCAACAGCATCTTC TGAACTAAAAAAATTGCAACATATTTGTGAATCCCTTTAACAAGTAACGACATTTCAAGACCTA AAGTTCAACACCCACAGAGAAACAACTAATCTCTGTTAAGAATCATCGATAATGCAGCAGGAAA TTCATGAAGACGATAACAGTTTCAGTTCTTAGTCACTGGCAGCAAGAATGACAGTGATGATAAA TAGAATAATATGCTGCAGGTTTAAGGAGGCAATTGTATCTGCCAGCTAAATTTACTGAACTTCC TAAATTTCATTGTGGTAATGCCAAGAAAATTGTGTTAATCACCAAAAAGGAAATAGCTGCAATT TTGTTCATGTTAGACTCATCATGAACAAAATGGTTGAATGTGTGCTCACCAATTCTCTTTTTGA TTCCATAGAAATATTTGATAATCTCATCCTAGCAAACAATTCTTGGATAAAGCAAGAATCATCC TTTAGTAAGGAAATAACCTGCACACAAATCATTGTCATAAGCGACAAAAACAAGGAAATTTTAA GATCAAGCAGACCAACACCGAGTGCAAGCTGAAACACTAACAGCGGCATTGTTCGAATGTATCA TCGTGTTAAGACTAGCTAGAGTGCCATCATCCAACACTCGAGGTAATATAACATCCTGCAATTA ACAAGAAAAAAAGCCCAATCTGTCAAATATGCATTCAAAAATAATATCAACAGAATTCTATCAT GCAGAATAAGTACAAGGTAGCACTGACCTTTAGATAGCCTATTCTATATGTTTGATGTATCTTT GAAACCACAGAAACATTTTTAATAGGTATGGCCTGTGGGGAAGAACAATGATCTACATTAACAT TCAAATCATTTCTGAATCAGACCAAGGTGTGCAATGATCAGAGTACCTCTTTGAAAACTACATG ATCCTTTAGAAAAGCGCGATGCTTTTGTACTTTAGGAACATCTGGGTCATCTGTATAGAATAGA ACTCAATATATGAAGAAAAATGCGGAAGCAACCCCACAAGCATTTCAGTTAAAACCATAGCATA TGTAATTTCATCATATGGAAATGAAATGGGGGAAACAAGAAGCAACAAAGGAGAAAACATACAT TCAAGGGCACCTATGATGTCAAGAATAAACTCATCTGAGAAAATCTTGTCAAAGATTGATGAAC TGTTCAGCAATACTGCAGAATGATAAACAGTAAATACTAATCTGTGAAATTTAGAAAACAAAAC TTTCATACAGATATGTACTTACTGATTCCCCTGACTAATTTGAAGATCATGTGAAGATCATCTA AGTTCTCTAAATCCTCGCATATTCGAAAAATGTCCAGTAACTTTGGGAAAAACTCGCGCTGCAA GAATTTGTAAATGCAGTAGTTAAAGATTTCTAGTCAAACAGGACTAATCAAGTAATCATACCCA AAATAACAAGTATAATCATCATATGTCACTTCCAAGTGTGCCACTGTTGCTTCCACCATGCCAT GTAAACAAAAAGAAGATGGAATGTCAACAGGAGAACACCACACCCCAGTCATCTCTGTTCTTAT TACGAATAGCCTTTAGATCTAATAGCATACTGTGTGCGACCCATGGAAGCTGTCCTTCAACATA AAGTAAGACAGTAAGACTATAAGAGGCAAGGTTGCTCCCGTCCCACATTCCTTACCAAAGAGAT GTCTTTGGCTTTGATGATTCAATTAACTTCTAGTTATACCTTCTATATAGTTACAACCCACTAA GCCTAAAGCTCAACATGCAAACAACCTAATATCTCGTTATTTTTCTCCTACCTTCCACTTCTTG TGATGCAAATCTTGGCCAGCAATCTAATATTTCATCTACAATCTCCTACATAGTCTACTAAATT TATTTCTCTACAAACATGGCTTGGCAAACCAGTTTTATTTGTTGTTAATAACTAATATCCGTTT TACTCCTGGCTTGGTTGCTGGAAAAAAAAACATATTGAAGATTACTTAGTAATTCCCACAGCAA AGCTCGGAGAATCACCTAGTAAATATAGTACATGCAACCATCCCAGGCACAAAGATGAGGACTT ACATCTTGTGTTATCAACTCTGCCACGCGCATCTGATCTGTAATGCCACCCTCCAATATAGTCT GCAGATTTAGATGAACAATATTTTTGTTGTCAGCAAGGATTCTCAAATTTGCAGCAGAAAATGT AGGTCACCCAAACACTAACTGTAAAGTGAATGTCAAATTTCAGGATTGATATAGCCAGCATGCA AGTTACTCTGCACCCATTCTGCTGAGGCTTCCACAGCACTCAAAAGAATTCTCCACAGATATTA ATAATATACATAAGTAGATGATCAGAAGAACAAGCAAAGGCTTATAGCCTTATAGGATGAACAC AAGGTTCATGATTTTTCATATTTACTCGTCAAGGAGATGAGACTTCAAAACATGGTCAAGCAAA GAAAAAAGACTAGCAAAAAAATAGAAGAATTTTTGCTATTGAGCATGAAAGGTAAGATTAATAA AAAAAATGACTTCGTATAGGAACAAAAAAAAAATCCAAACCTTTAAAATTAAAGGAAGATTGGA TAACTCAACAGGTGGAAGCTCCCTCAGCTCACCATTAACGGAGCGGAAGGATTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.13782755

Conservation Information
Conserved circRNAs	NA
PMCS	0.13782755

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13257164-13254827(+)
13254876-13257687(-)
13257154-13257687(-)
						
						Potential amino acid sequence
						
							MPPSNIVFKIKGRLDNSTGGSSLSSPLTERKDSSEQS*(+)
MNFALSVRVCRLFNNYDCSDESFRSVNGELRELPPVELSNLPLILKTILEGGITDQMRVAELIT
QDREFFPKLLDIFRICEDLENLDDLHMIFKLVRGIILLNSSSIFDKIFSDEFILDIIGALEYDP
DVPKVQKHRAFLKDHVVFKEAIPIKNVSVVSKIHQTYRIGYLKDVILPRVLDDGTLASLNTMIH
SNNAAVISLLKDDSCFIQELFARMRLSNISMESKRELVLFLHEFCTLSKSLPLVQQLRLFR*(-
)
MRVAELITQDREFFPKLLDIFRICEDLENLDDLHMIFKLVRGIILLNSSSIFDKIFSDEFILDI
IGALEYDPDVPKVQKHRAFLKDHVVFKEAIPIKNVSVVSKIHQTYRIGYLKDVILPRVLDDGTL
ASLNTMIHSNNAAVISLLKDDSCFIQELFARMRLSNISMESKRELVLFLHEFCTLSKSLPLVQQ
LRLFR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13257164-13254827(+) 13254876-13257687(-) 13257154-13257687(-)
Potential amino acid sequence	MPPSNIVFKIKGRLDNSTGGSSLSSPLTERKDSSEQS(+) MNFALSVRVCRLFNNYDCSDESFRSVNGELRELPPVELSNLPLILKTILEGGITDQMRVAELIT QDREFFPKLLDIFRICEDLENLDDLHMIFKLVRGIILLNSSSIFDKIFSDEFILDIIGALEYDP DVPKVQKHRAFLKDHVVFKEAIPIKNVSVVSKIHQTYRIGYLKDVILPRVLDDGTLASLNTMIH SNNAAVISLLKDDSCFIQELFARMRLSNISMESKRELVLFLHEFCTLSKSLPLVQQLRLFR(- ) MRVAELITQDREFFPKLLDIFRICEDLENLDDLHMIFKLVRGIILLNSSSIFDKIFSDEFILDI IGALEYDPDVPKVQKHRAFLKDHVVFKEAIPIKNVSVVSKIHQTYRIGYLKDVILPRVLDDGTL ASLNTMIHSNNAAVISLLKDDSCFIQELFARMRLSNISMESKRELVLFLHEFCTLSKSLPLVQQ LRLFR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0337600_circ_g.6

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