Plant Circular RNA Database

Detail information of Os08g0175600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0175600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036078
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 4414994-4416326  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0175600						
					
						Parent gene annotation
						
							Similar to PolI-like DNA polymerase. (Os08t0175600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0174700_circ_ag.1 Os08g0174700_circ_g.2 Os08g0174800_circ_g.1 Os08g0174800_circ_igg.1 Os08g0174800_circ_igg.2 Os08g0175200_circ_g.1 Os08g0175200_circ_g.2 Os08g0175200_circ_g.3 Os08g0175300_circ_igg.1 Os08g0175300_circ_igg.2 Os08g0175300_circ_igg.3 Os08g0175300_circ_igg.4 						
					
						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
						Os08t0175600-01:2

General Information
CircRNA Name	Os08g0175600_circ_g.1
ID in PlantcircBase	osa_circ_036078
Alias	NA
Organism	Oryza sativa
Position	chr8: 4414994-4416326 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0175600
Parent gene annotation	Similar to PolI-like DNA polymerase. (Os08t0175600-01)
Parent gene strand	-
Alternative splicing	Os08g0174700_circ_ag.1 Os08g0174700_circ_g.2 Os08g0174800_circ_g.1 Os08g0174800_circ_igg.1 Os08g0174800_circ_igg.2 Os08g0175200_circ_g.1 Os08g0175200_circ_g.2 Os08g0175200_circ_g.3 Os08g0175300_circ_igg.1 Os08g0175300_circ_igg.2 Os08g0175300_circ_igg.3 Os08g0175300_circ_igg.4
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	Os08t0175600-01:2

			
						 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  
						
							TTCTTGCACGCTACTTTGTACATTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTG
CTAACCCCCATGCCAGAACTAGGAGAATAATCTTGCctttttgatagatgggtcctcaaagaaa
ggagcaaactccattagaacatcccttccaccatctagcacatccacccatatgcatgttttgc
catttcca

									
								

					

						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: 285
Transcript exons: 4414994-4415100,4416140-4416240,4416250-4416326
CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT
AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCGCAGAGGAGTAGTGCCATT
AGTGATGTTGTTCCTGACATTGTTGGTGGTCCTGAGGAAAAATAACCTCTTGGTTTCATCAACC
CATTCTTGCACGCTACTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTGCTAACCC
CCATGCCAGAACTAGGAGAATAATCTTGC
Transcript length: 916
Transcript exons: 4414994-4415191,4415609-4416326
CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT
AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCTCCCCATCAGAATTTCCTG
AATAGATGCTAAAGCATATTACTTCTCCATGACCAACTGGCGTCTCTTCTTTGACATCAATATT
TGCCACCTCCGTGTCACATGCATGAATAAAGCCTTTGTACTTTGTAGTAAGCAATTTAACAACA
CTCCTAGCTGACTCAACATTGTCGACAACCAAAACTTTGTCATAGATGGTAGCAAGCAACTTCC
GTGCATTTTTTGACTCAGTGGACAAGGAAGCTTTGTCCGGGATATTTAGCGTCACTTTCCTTGT
AATGCGTTTGTGCTCCTTTTTGTTTGGGATAGCTTTATCAACCACCAAAGTTGTCTCTGACTTG
GAAACTTTAGGCAGAGAAGATTCCACCGTAACGGAATCGTGCCAAGGAATTTCCTCCTTGGAGC
CATCAAGCAGGTTCAGTGGTTTGATATCATTATTAGCAACACTGAATGGGGCAGGCACAGCATG
TGCTGACTGATACATCACACGATGCTTAGCCAAATCTGTATCGACATGTCTATTTACAATTGAA
TTAGATGGCCCTCTTTCTCTTTGATTATACAAGGAAGGATAGTTTGAACTCCTGATATCTTCTG
AGGGATCATGACGCAGATTTCCAACCCGCAGAGGAGTAGTGCCATTAGTGATGTTGTTCCTGAC
ATTGTTGGTGGTCCTGAGGAAAAATAACCTCTTGGTTTCATCAACCCATTCTTGCACGCTACTT
TGTACATTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTGCTAACCCCCATGCCAG
AACTAGGAGAATAATCTTGC
						
					

						Genomic sequence
						
							CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT
AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCTCCCCATCAGAATTTCCTG
AATAGATGCTAAAGCATATTACTTCTCCATGACCAACTGGCGTCTCTTCTTTGACATCAATATT
TGCCACCTGCATAATATTGTACTATCCTAAATTAGAATGTATGTTTGGAGCTTGATATGCAATA
AAACTGTAAATAATTCTGAGCAAAGCTTGCTACCACAGAAGTAGACTATGAGCATGTCAAACCA
TGTAACTAGAAGAAACCAATAATTAGCATTAGCATTTAATATTTTACATTCTTCATGACATCTC
CTGTAAACTCTGCAACTTACATTTTCAGAGAAGATACATAGGGGAAAAAAGGCACAATCTAACA
ACAAACACTTGAGGTCAGCAATATTGATGACCAAACAAGATACTATAGTATCACCTATCAGAAA
TATACTTCTTATTGATACTCTCACAATTATGAGGCAAAACCTAAATAACATAGCCAAAACTGAT
ATACCGATGATAGAACTCAAGCAGGGTTTGGTGAAATACCTCCGTGTCACATGCATGAATAAAG
CCTTTGTACTTTGTAGTAAGCAATTTAACAACACTCCTAGCTGACTCAACATTGTCGACAACCA
AAACTTTGTCATAGATGGTAGCAAGCAACTTCCGTGCATTTTTTGACTCAGTGGACAAGGAAGC
TTTGTCCGGGATATTTAGCGTCACTTTCCTTGTAATGCGTTTGTGCTCCTTTTTGTTTGGGATA
GCTTTATCAACCACCAAAGTTGTCTCTGACTTGGAAACTTTAGGCAGAGAAGATTCCACCGTAA
CGGAATCGTGCCAAGGAATTTCCTCCTTGGAGCCATCAAGCAGGTTCAGTGGTTTGATATCATT
ATTAGCAACACTGAATGGGGCAGGCACAGCATGTGCTGACTGATACATCACACGATGCTTAGCC
AAATCTGTATCGACATGTCTATTTACAATTGAATTAGATGGCCCTCTTTCTCTTTGATTATACA
AGGAAGGATAGTTTGAACTCCTGATATCTTCTGAGGGATCATGACGCAGATTTCCAACCCGCAG
AGGAGTAGTGCCATTAGTGATGTTGTTCCTGACATTGTTGGTGGTCCTGAGGAAAAATAACCTC
TTGGTTTCATCAACCCATTCTTGCACGCTACTTTGTACATTTAAGTTGCCATGCAATCCCAGCC
TGAAAGCACCAGTTTTGCTAACCCCCATGCCAGAACTAGGAGAATAATCTTGC
						
					

			
		

Sequences
Splice junction sequence	TTCTTGCACGCTACTTTGTACATTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTG CTAACCCCCATGCCAGAACTAGGAGAATAATCTTGCctttttgatagatgggtcctcaaagaaa ggagcaaactccattagaacatcccttccaccatctagcacatccacccatatgcatgttttgc catttcca
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: 285 Transcript exons: 4414994-4415100,4416140-4416240,4416250-4416326 CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCGCAGAGGAGTAGTGCCATT AGTGATGTTGTTCCTGACATTGTTGGTGGTCCTGAGGAAAAATAACCTCTTGGTTTCATCAACC CATTCTTGCACGCTACTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTGCTAACCC CCATGCCAGAACTAGGAGAATAATCTTGC Transcript length: 916 Transcript exons: 4414994-4415191,4415609-4416326 CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCTCCCCATCAGAATTTCCTG AATAGATGCTAAAGCATATTACTTCTCCATGACCAACTGGCGTCTCTTCTTTGACATCAATATT TGCCACCTCCGTGTCACATGCATGAATAAAGCCTTTGTACTTTGTAGTAAGCAATTTAACAACA CTCCTAGCTGACTCAACATTGTCGACAACCAAAACTTTGTCATAGATGGTAGCAAGCAACTTCC GTGCATTTTTTGACTCAGTGGACAAGGAAGCTTTGTCCGGGATATTTAGCGTCACTTTCCTTGT AATGCGTTTGTGCTCCTTTTTGTTTGGGATAGCTTTATCAACCACCAAAGTTGTCTCTGACTTG GAAACTTTAGGCAGAGAAGATTCCACCGTAACGGAATCGTGCCAAGGAATTTCCTCCTTGGAGC CATCAAGCAGGTTCAGTGGTTTGATATCATTATTAGCAACACTGAATGGGGCAGGCACAGCATG TGCTGACTGATACATCACACGATGCTTAGCCAAATCTGTATCGACATGTCTATTTACAATTGAA TTAGATGGCCCTCTTTCTCTTTGATTATACAAGGAAGGATAGTTTGAACTCCTGATATCTTCTG AGGGATCATGACGCAGATTTCCAACCCGCAGAGGAGTAGTGCCATTAGTGATGTTGTTCCTGAC ATTGTTGGTGGTCCTGAGGAAAAATAACCTCTTGGTTTCATCAACCCATTCTTGCACGCTACTT TGTACATTTAAGTTGCCATGCAATCCCAGCCTGAAAGCACCAGTTTTGCTAACCCCCATGCCAG AACTAGGAGAATAATCTTGC
Genomic sequence	CTTTTTGATAGATGGGTCCTCAAAGAAAGGAGCAAACTCCATTAGAACATCCCTTCCACCATCT AGCACATCCACCCATATGCATGTTTTGCCATTTCCAAAATCAGCCTCCCCATCAGAATTTCCTG AATAGATGCTAAAGCATATTACTTCTCCATGACCAACTGGCGTCTCTTCTTTGACATCAATATT TGCCACCTGCATAATATTGTACTATCCTAAATTAGAATGTATGTTTGGAGCTTGATATGCAATA AAACTGTAAATAATTCTGAGCAAAGCTTGCTACCACAGAAGTAGACTATGAGCATGTCAAACCA TGTAACTAGAAGAAACCAATAATTAGCATTAGCATTTAATATTTTACATTCTTCATGACATCTC CTGTAAACTCTGCAACTTACATTTTCAGAGAAGATACATAGGGGAAAAAAGGCACAATCTAACA ACAAACACTTGAGGTCAGCAATATTGATGACCAAACAAGATACTATAGTATCACCTATCAGAAA TATACTTCTTATTGATACTCTCACAATTATGAGGCAAAACCTAAATAACATAGCCAAAACTGAT ATACCGATGATAGAACTCAAGCAGGGTTTGGTGAAATACCTCCGTGTCACATGCATGAATAAAG CCTTTGTACTTTGTAGTAAGCAATTTAACAACACTCCTAGCTGACTCAACATTGTCGACAACCA AAACTTTGTCATAGATGGTAGCAAGCAACTTCCGTGCATTTTTTGACTCAGTGGACAAGGAAGC TTTGTCCGGGATATTTAGCGTCACTTTCCTTGTAATGCGTTTGTGCTCCTTTTTGTTTGGGATA GCTTTATCAACCACCAAAGTTGTCTCTGACTTGGAAACTTTAGGCAGAGAAGATTCCACCGTAA CGGAATCGTGCCAAGGAATTTCCTCCTTGGAGCCATCAAGCAGGTTCAGTGGTTTGATATCATT ATTAGCAACACTGAATGGGGCAGGCACAGCATGTGCTGACTGATACATCACACGATGCTTAGCC AAATCTGTATCGACATGTCTATTTACAATTGAATTAGATGGCCCTCTTTCTCTTTGATTATACA AGGAAGGATAGTTTGAACTCCTGATATCTTCTGAGGGATCATGACGCAGATTTCCAACCCGCAG AGGAGTAGTGCCATTAGTGATGTTGTTCCTGACATTGTTGGTGGTCCTGAGGAAAAATAACCTC TTGGTTTCATCAACCCATTCTTGCACGCTACTTTGTACATTTAAGTTGCCATGCAATCCCAGCC TGAAAGCACCAGTTTTGCTAACCCCCATGCCAGAACTAGGAGAATAATCTTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.578518001

Conservation Information
Conserved circRNAs	NA
PMCS	0.578518001

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4416261-4414998(+)
4416303-4416311(-)
						
						Potential amino acid sequence
						
							MQSQPESTSFANPHARTRRIILPF*(+)
MGVSKTGAFRLGLHGNLNVQSSVQEWVDETKRLFFLRTTNNVRNNITNGTTPLRVGNLRHDPSE
DIRSSNYPSLYNQRERGPSNSIVNRHVDTDLAKHRVMYQSAHAVPAPFSVANNDIKPLNLLDGS
KEEIPWHDSVTVESSLPKVSKSETTLVVDKAIPNKKEHKRITRKVTLNIPDKASLSTESKNARK
LLATIYDKVLVVDNVESARSVVKLLTTKYKGFIHACDTEVANIDVKEETPVGHGEVICFSIYSG
NSDGEADFGNGKTCIWVDVLDGGRDVLMEFAPFFEDPSIKKARLFS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4416261-4414998(+) 4416303-4416311(-)
Potential amino acid sequence	MQSQPESTSFANPHARTRRIILPF(+) MGVSKTGAFRLGLHGNLNVQSSVQEWVDETKRLFFLRTTNNVRNNITNGTTPLRVGNLRHDPSE DIRSSNYPSLYNQRERGPSNSIVNRHVDTDLAKHRVMYQSAHAVPAPFSVANNDIKPLNLLDGS KEEIPWHDSVTVESSLPKVSKSETTLVVDKAIPNKKEHKRITRKVTLNIPDKASLSTESKNARK LLATIYDKVLVVDNVESARSVVKLLTTKYKGFIHACDTEVANIDVKEETPVGHGEVICFSIYSG NSDGEADFGNGKTCIWVDVLDGGRDVLMEFAPFFEDPSIKKARLFS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0175600_circ_g.1

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