Plant Circular RNA Database

Detail information of Os10g0498200_circ_ag.6

			
						 General Information
					
						CircRNA Name
						Os10g0498200_circ_ag.6
					
						ID in PlantcircBase
						osa_circ_007331
					
						Alias
						Os10circ06759/Os_ciR178
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 19000436-19003690  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os10g0498200_circ_ag.1 Os10g0498200_circ_ag.2 Os10g0498200_circ_ag.3 Os10g0498200_circ_ag.4 Os10g0498200_circ_ag.5 Os10g0498300_circ_g.1 						
					
						Support reads
						2/303/39
					
						Tissues
						panicle/root/seed, pistil
					
						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
						NA

General Information
CircRNA Name	Os10g0498200_circ_ag.6
ID in PlantcircBase	osa_circ_007331
Alias	Os10circ06759/Os_ciR178
Organism	Oryza sativa
Position	chr10: 19000436-19003690 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os10g0498200_circ_ag.1 Os10g0498200_circ_ag.2 Os10g0498200_circ_ag.3 Os10g0498200_circ_ag.4 Os10g0498200_circ_ag.5 Os10g0498300_circ_g.1
Support reads	2/303/39
Tissues	panicle/root/seed, pistil
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	NA

			
						 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  
						
							CGACACCCCTCCCCGAGTGGTTTAGTGAGGAGGATCTTGATGTCTACTCATCCCTCTATGAGAA
GTCTGGTTTTCGATATCCGCTACAGATGCCATATAGgtctctgcaccagagaaaaccaattgga
gatgcaaaattccaagtcccagtgtttattgtcatgggagaaaaagattatgtctttaagttcc
ctggtatc

									
								

					

						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
						
							GTCTCTGCACCAGAGAAAACCAATTGGAGATGCAAAATTCCAAGTCCCAGTGTTTATTGTCATG
GGAGAAAAAGATTATGTCTTTAAGTTCCCTGGTATCGAGTCTGCTATGAAAGACGGAACTATGG
AGAAGCATGCACCAAACATAAAGATCACCTACATCCCTGAAGGAGGGCATTTTGTGCAGGAGCA
GTTCCGTGACTATGTGAATGAGCTCCTTCTTGGCTTCTTGAAAGATCATCCTGTGGTTATATAA
ATGCTATTGTAGCCTCAGTTGTGCTTCACCCGTAGTTCAAGTTGGCTTAGAAAACGTTGTGCTA
TATCATGGTATGAATTTGTCAACAAACTAAGGATCAGCTATGGCTAGTTTGTTACTTTCAGTAA
TGCCTATTTGAGCTTGTTGTATCTAGGTTGTCCTGCTGGTGTTACTAGCAATGTAAAGACTAAA
CCCATTGCTATACTTCTACCATGACTTTTGCAAGCCAATGATGTGAACTTATACCATGATTTTA
GAAAGTCTTACTGTAAAAGACGGAGTACGTAGTTACTATGTATACGGATGATTAATCATAATTA
TATAAAAAATTAAAAAATTAACAATCACTGTAATAAGTACTTATCTTTTATGATTGATTTAGTT
TTAGAGAAATGTTTGTAGATCACCTATCTCATATTAGAGAAATTTTGACCTAATCCTCTTATAT
TAGAGAAATATTATTCCGGTGGCCGTGCTTCCTCCCTTCCTCATCCTTGTACCAAACACAATAA
CTCAAACTGTCATCCCTCTTTCAGCCTCATCAACCCAATAAATAAATAAATATAGACTTAAGTC
TACTTTAACCCAAAAATTTTGTGTGTGCGCGTGCTTGTGCGTGTGCGGGGGAGTGGTGGTGGGG
GTTGGGGGCCGTGGTTGAATCTTTTTTTAAATACTAAAATGAGTACTCATATTCGTTTTCTTTT
TTTCTGTTAAATACTAAAATGAGTACGAATAGCTCGAATACAAAAATAATCATGGATTATCTCG
AATCCAGATAAGGGCAAAATATAATTAGACACAAAAAGAACAAATAATTAAAAAAATCATATTG
TTTTGGTGTAAACATATAAAGGCAATTCTGAAATGTCATCTACTCCCTCTGTTTCAGGTTATAA
GACGTTTTGACATTTGGTCAAACTCAAACTGTTTCAAGTTTAACTAAGTTTATAGATAAATATA
GTGATATTTATAATACTAAATTAGTTTCATCAAATCAATAATTGAATATATTTTCATAATAAAT
TTGTCTTGAGTTGAAAATGTTACTACTTTTTCCTATAAACTTAATCAAACTTAAAATAGTTTGA
CTTTGACTAAAGTAAAAAATATCTTATAACCTAAAACGGAAGGAGTAGATAACTAAGAGTGCCA
GGTAGAAGGAAAACCTTCTCTACCTGGCGTCCACTAGTTCGATATGTAGCAGTACAAAAACGTA
CTCTCTCCAGACTGATAATACTTGTTGTTTTAGATAAGGGTGAGGTCAAACTTTAGAATAGTTG
ATTAGAATTATTTTTAAAGTATTTGTTTTTCAAATATCACTATAGATTAATAAAATCATATATT
TGTTAACATTTATATATATATATATATATATATATATATATATATATATATATATATATATATA
TATATATATATATATATATATTATAATAAAAAATAATGGTCAAAGTTGTTTTTTTAGACCGTAT
CCTTATCCAAAACGACAATTATTATCAACCCGTAGAGATGACGCATCCCCACCTCACACTCGCA
CTGTCACGACGTCGCCTCTGCAATCTGAACTTCTGCGGCGAGGAGGGAGCTCGAGCCGCCCGGA
AGCCATGGCCACGGCGGAGCAGCAGCAGCAGATCGAGCACGTCCACCTCCCCGTGCGGGGCTCA
CCCTCCACGTCGCGCAAGCCGGCAAAGGTTTGGCCGCCTCAATTTGCGTTGCCTGCGCGCGCGC
CTCGCCGCCGCCGGCGATCGTCGGGTGAACGATTGTTCGGCTGCTGGTCGTTGCAGGCGAGCTC
GGGACGGTGGTGTTCCTGCACGGGTTCCCGGAGATATGGTACTCGTGGCGCCACCAGATGCTCG
CCGTCGCCGCCGCCGGGTACCGCGCCGTCGCGCCGGACTGGCGCGGGTACGGGCTCTCCGACCA
GCCGCCGGAGCCGGAGGCGGCGGAGTACGACGACCTCGTCGAGGATCTCCTCGCCATCCTCGAC
GCCCTCGCCGTGCCCAAGGTACGTAAGCTCCTCAGTTTAATCGATCCTTTTACGAATTTTTTTA
GCAGGTTTCCAGTTTTGAGTCCTACTCGTGCATGCAGACTGTGAAGCTGTGTAAGGCCTTCTTG
CTATAAAACTTGCAAACGGAAGGCATAATTCAAAACAGAATTTTTCACTTCTTGTGTGCATCCT
GGTTAGCAATTTGTAACGAAACATATAAACTTCCACTGTCATACACAGCAAGGGAGATATTTGG
AGAGGATAATTTGTTTTCTGTCGTTAACTAGTACTGTAGTCTAGTATTCAGTTGGTACCACGTC
GGTAAGCACCAAGCCACCAACAATCAAGATTCAAGAGTATGTTAGAGGCATGAAAAATGAGTGC
AAGATATTAAGGTGCCCTTTTTCTGAGTAAAAGATAAAAGATAAGGGTTTCAATTTCTCCATAA
TGAAACCAGCTGCTTATAAATGTCTTGCCTTCAGTAAAAAAATCCTTTAGTTTGTTGTTTGCTC
CTGATAGTTTATATGTTTCTTCTGTCAGGCCTTTCTTGTTGGGAAGGACTTTGGGGCCATGCCA
GCTTATAGTTTTGCTCTCTGTCATCCAAATCGTACATGTGGTGTGATGTGTTTGGGCATCCCTT
TCGGCGTTAATAGTTCATCCTTAAACACCTTACCAGAAGGATTCTACATTTTACGTTGGGCGGT
AATTCTCTAACTATCATGCCAAAATATTGTGTGCAAGATTCGCTTATAGTGACAGTGGAAGAAC
TCGTCTTGCAGCAACCAGGAAGAGCAGAAGCTGACTTTGGCAAGTATGATATCAGGAGAGTCGT
GCGCACTATCTACATACTCTTCTCTAGGAACGAGATCCCCATAGCTAAGGAAGATCAAGAGATC
ATGGATCTTGCAGACTTATCGACACCCCTCCCCGAGTGGTTTAGTGAGGAGGATCTTGATGTCT
ACTCATCCCTCTATGAGAAGTCTGGTTTTCGATATCCGCTACAGATGCCATATAG
						
					

			
		

Sequences
Splice junction sequence	CGACACCCCTCCCCGAGTGGTTTAGTGAGGAGGATCTTGATGTCTACTCATCCCTCTATGAGAA GTCTGGTTTTCGATATCCGCTACAGATGCCATATAGgtctctgcaccagagaaaaccaattgga gatgcaaaattccaagtcccagtgtttattgtcatgggagaaaaagattatgtctttaagttcc ctggtatc
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	GTCTCTGCACCAGAGAAAACCAATTGGAGATGCAAAATTCCAAGTCCCAGTGTTTATTGTCATG GGAGAAAAAGATTATGTCTTTAAGTTCCCTGGTATCGAGTCTGCTATGAAAGACGGAACTATGG AGAAGCATGCACCAAACATAAAGATCACCTACATCCCTGAAGGAGGGCATTTTGTGCAGGAGCA GTTCCGTGACTATGTGAATGAGCTCCTTCTTGGCTTCTTGAAAGATCATCCTGTGGTTATATAA ATGCTATTGTAGCCTCAGTTGTGCTTCACCCGTAGTTCAAGTTGGCTTAGAAAACGTTGTGCTA TATCATGGTATGAATTTGTCAACAAACTAAGGATCAGCTATGGCTAGTTTGTTACTTTCAGTAA TGCCTATTTGAGCTTGTTGTATCTAGGTTGTCCTGCTGGTGTTACTAGCAATGTAAAGACTAAA CCCATTGCTATACTTCTACCATGACTTTTGCAAGCCAATGATGTGAACTTATACCATGATTTTA GAAAGTCTTACTGTAAAAGACGGAGTACGTAGTTACTATGTATACGGATGATTAATCATAATTA TATAAAAAATTAAAAAATTAACAATCACTGTAATAAGTACTTATCTTTTATGATTGATTTAGTT TTAGAGAAATGTTTGTAGATCACCTATCTCATATTAGAGAAATTTTGACCTAATCCTCTTATAT TAGAGAAATATTATTCCGGTGGCCGTGCTTCCTCCCTTCCTCATCCTTGTACCAAACACAATAA CTCAAACTGTCATCCCTCTTTCAGCCTCATCAACCCAATAAATAAATAAATATAGACTTAAGTC TACTTTAACCCAAAAATTTTGTGTGTGCGCGTGCTTGTGCGTGTGCGGGGGAGTGGTGGTGGGG GTTGGGGGCCGTGGTTGAATCTTTTTTTAAATACTAAAATGAGTACTCATATTCGTTTTCTTTT TTTCTGTTAAATACTAAAATGAGTACGAATAGCTCGAATACAAAAATAATCATGGATTATCTCG AATCCAGATAAGGGCAAAATATAATTAGACACAAAAAGAACAAATAATTAAAAAAATCATATTG TTTTGGTGTAAACATATAAAGGCAATTCTGAAATGTCATCTACTCCCTCTGTTTCAGGTTATAA GACGTTTTGACATTTGGTCAAACTCAAACTGTTTCAAGTTTAACTAAGTTTATAGATAAATATA GTGATATTTATAATACTAAATTAGTTTCATCAAATCAATAATTGAATATATTTTCATAATAAAT TTGTCTTGAGTTGAAAATGTTACTACTTTTTCCTATAAACTTAATCAAACTTAAAATAGTTTGA CTTTGACTAAAGTAAAAAATATCTTATAACCTAAAACGGAAGGAGTAGATAACTAAGAGTGCCA GGTAGAAGGAAAACCTTCTCTACCTGGCGTCCACTAGTTCGATATGTAGCAGTACAAAAACGTA CTCTCTCCAGACTGATAATACTTGTTGTTTTAGATAAGGGTGAGGTCAAACTTTAGAATAGTTG ATTAGAATTATTTTTAAAGTATTTGTTTTTCAAATATCACTATAGATTAATAAAATCATATATT TGTTAACATTTATATATATATATATATATATATATATATATATATATATATATATATATATATA TATATATATATATATATATATTATAATAAAAAATAATGGTCAAAGTTGTTTTTTTAGACCGTAT CCTTATCCAAAACGACAATTATTATCAACCCGTAGAGATGACGCATCCCCACCTCACACTCGCA CTGTCACGACGTCGCCTCTGCAATCTGAACTTCTGCGGCGAGGAGGGAGCTCGAGCCGCCCGGA AGCCATGGCCACGGCGGAGCAGCAGCAGCAGATCGAGCACGTCCACCTCCCCGTGCGGGGCTCA CCCTCCACGTCGCGCAAGCCGGCAAAGGTTTGGCCGCCTCAATTTGCGTTGCCTGCGCGCGCGC CTCGCCGCCGCCGGCGATCGTCGGGTGAACGATTGTTCGGCTGCTGGTCGTTGCAGGCGAGCTC GGGACGGTGGTGTTCCTGCACGGGTTCCCGGAGATATGGTACTCGTGGCGCCACCAGATGCTCG CCGTCGCCGCCGCCGGGTACCGCGCCGTCGCGCCGGACTGGCGCGGGTACGGGCTCTCCGACCA GCCGCCGGAGCCGGAGGCGGCGGAGTACGACGACCTCGTCGAGGATCTCCTCGCCATCCTCGAC GCCCTCGCCGTGCCCAAGGTACGTAAGCTCCTCAGTTTAATCGATCCTTTTACGAATTTTTTTA GCAGGTTTCCAGTTTTGAGTCCTACTCGTGCATGCAGACTGTGAAGCTGTGTAAGGCCTTCTTG CTATAAAACTTGCAAACGGAAGGCATAATTCAAAACAGAATTTTTCACTTCTTGTGTGCATCCT GGTTAGCAATTTGTAACGAAACATATAAACTTCCACTGTCATACACAGCAAGGGAGATATTTGG AGAGGATAATTTGTTTTCTGTCGTTAACTAGTACTGTAGTCTAGTATTCAGTTGGTACCACGTC GGTAAGCACCAAGCCACCAACAATCAAGATTCAAGAGTATGTTAGAGGCATGAAAAATGAGTGC AAGATATTAAGGTGCCCTTTTTCTGAGTAAAAGATAAAAGATAAGGGTTTCAATTTCTCCATAA TGAAACCAGCTGCTTATAAATGTCTTGCCTTCAGTAAAAAAATCCTTTAGTTTGTTGTTTGCTC CTGATAGTTTATATGTTTCTTCTGTCAGGCCTTTCTTGTTGGGAAGGACTTTGGGGCCATGCCA GCTTATAGTTTTGCTCTCTGTCATCCAAATCGTACATGTGGTGTGATGTGTTTGGGCATCCCTT TCGGCGTTAATAGTTCATCCTTAAACACCTTACCAGAAGGATTCTACATTTTACGTTGGGCGGT AATTCTCTAACTATCATGCCAAAATATTGTGTGCAAGATTCGCTTATAGTGACAGTGGAAGAAC TCGTCTTGCAGCAACCAGGAAGAGCAGAAGCTGACTTTGGCAAGTATGATATCAGGAGAGTCGT GCGCACTATCTACATACTCTTCTCTAGGAACGAGATCCCCATAGCTAAGGAAGATCAAGAGATC ATGGATCTTGCAGACTTATCGACACCCCTCCCCGAGTGGTTTAGTGAGGAGGATCTTGATGTCT ACTCATCCCTCTATGAGAAGTCTGGTTTTCGATATCCGCTACAGATGCCATATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.057160727

Conservation Information
Conserved circRNAs	NA
PMCS	1.057160727

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os10g0498200_circ_ag.6

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