Plant Circular RNA Database

Detail information of Os06g0192900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0192900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_030006
					
						Alias
						Os06circ04561/Os_ciR570
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 4688230-4689339  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os06g0192900						
					
						Parent gene annotation
						
							Similar to tac7077. (Os06t0192900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0192900_circ_g.2 						
					
						Support reads
						2/48/4
					
						Tissues
						leaf and panicle/root/shoot, 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
						Os06t0192900-01:4

General Information
CircRNA Name	Os06g0192900_circ_g.3
ID in PlantcircBase	osa_circ_030006
Alias	Os06circ04561/Os_ciR570
Organism	Oryza sativa
Position	chr6: 4688230-4689339 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os06g0192900
Parent gene annotation	Similar to tac7077. (Os06t0192900-01)
Parent gene strand	+
Alternative splicing	Os06g0192900_circ_g.2
Support reads	2/48/4
Tissues	leaf and panicle/root/shoot, 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	Os06t0192900-01:4

			
						 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  
						
							ACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACCATTTTGCTTT
GCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAGttcttggaagctttcttgctgctctcaa
caaatttattgcggaccgttattctttgaatcactcagtatcagaataccatgtgtatgagttc
ttcaaggt

									
								

					

						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: 174
Transcript exons: 4688230-4688316,4689253-4689339
TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC
AGTATCAGAATACCATGTGTATGGTACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACC
ATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG
Transcript length: 190
Transcript exons: 4688230-4688303,4689224-4689339
TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC
AGTATCAGAAAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAG
ATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG
Transcript length: 196
Transcript exons: 4688230-4688301,4689216-4689339
TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC
AGTATCAGATGCAATTAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTT
GAGCAGATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTT
GCAG
Transcript length: 379
Transcript exons: 4688230-4688327,4688856-4688880,4688992-4689112,4689205-
4689339
TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC
AGTATCAGAATACCATGTGTATGAGTTCTTCAAGATATGGAATTGTTCTCGAGAAAGAGCTAAT
TTTCTTGTCCATGAGTTCTTTACAACCCATTACTTCCAAGATGGTATACATCCTATCCCCGGTG
CCCGAGATGCTCTGCAAAATCTCTCTTCTTTCTGTAGCTTATCTGTTGTCACATCTCGGCAGGA
TGCAATTAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAGATC
CATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG
						
					

						Genomic sequence
						
							TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC
AGTATCAGAATACCATGTGTATGAGTTCTTCAAGGTGATTTGAAATCCAACCCTCCTAGAAAAA
ATTCAAGCCCTTAAATTTTTGGAAAAATTGGTTATATAGCATTGAAAGTTCATGTTTTTGGTTT
TATAGCACCGAAAGATACCGGTTCACTTTAATAGCACCCAAAGTTCACCCTGTTCCCATTTTTA
GCACTTCCGTCAATTCTCAATCGTTTTCCGTCCGTCTTGATCCAGCCACACACACGATATGACG
TTTCTACCCCTTACAAGTACAAGTAGAATGCATGTCAATGAGGGGTAGAAACGTCATATCGTGT
GCGTAGCTGGGTCAATAACGATCAAGACGGACGGAAAAATTGACGGAAGTGCTAAAAATGGGAA
CAGGGTAAACTTTGGGTGCTATTAAAGTGAACCGGTATCTTTCAGTGCTATAAAACCAAAAACG
TGAACTTTCGATGCTATATGACCAATTTTGCCTAAATTTTTCATCCTTGATCATGTCTCTGTTA
AGAAATTCTATCCATCAGGTAGTTACATCTTTTTGTGCAACTCTGTGCAGATATGGAATTGTTC
TCGAGAAAGAGGTTTGTCTTATGCTATCTTTTCATTTCTTTTTGGAACTTACAAATCTTTTATT
GTGAACATAACAACAATTCTTCATATAAAAAATCAACAACTTGTCTAAAATGTTGCAGCTAATT
TTCTTGTCCATGAGTTCTTTACAACCCATTACTTCCAAGATGGTATACATCCTATCCCCGGTGC
CCGAGATGCTCTGCAAAATCTCTCTTCTTTCTGTAGCTTATCTGTTGTCACGTAAGTCCATTTT
CTGATATTTAGGGGCATAGTGAACTTATCTTTATTATGTGACGTTTGTGTTTTGGCTAATGATA
TCGTTTCTTTTTAAGATCTCGGCAGGATGCAATTAAAAATCACACATTAGACTGGATCGACAAG
TACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAA
AGCCAAAATCAGAAATTTGCAG
						
					

			
		

Sequences
Splice junction sequence	ACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACCATTTTGCTTT GCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAGttcttggaagctttcttgctgctctcaa caaatttattgcggaccgttattctttgaatcactcagtatcagaataccatgtgtatgagttc ttcaaggt
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: 174 Transcript exons: 4688230-4688316,4689253-4689339 TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC AGTATCAGAATACCATGTGTATGGTACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACC ATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG Transcript length: 190 Transcript exons: 4688230-4688303,4689224-4689339 TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC AGTATCAGAAAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAG ATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG Transcript length: 196 Transcript exons: 4688230-4688301,4689216-4689339 TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC AGTATCAGATGCAATTAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTT GAGCAGATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTT GCAG Transcript length: 379 Transcript exons: 4688230-4688327,4688856-4688880,4688992-4689112,4689205- 4689339 TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC AGTATCAGAATACCATGTGTATGAGTTCTTCAAGATATGGAATTGTTCTCGAGAAAGAGCTAAT TTTCTTGTCCATGAGTTCTTTACAACCCATTACTTCCAAGATGGTATACATCCTATCCCCGGTG CCCGAGATGCTCTGCAAAATCTCTCTTCTTTCTGTAGCTTATCTGTTGTCACATCTCGGCAGGA TGCAATTAAAAATCACACATTAGACTGGATCGACAAGTACTATCCAGGGTTATTTGAGCAGATC CATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAAAGCCAAAATCAGAAATTTGCAG
Genomic sequence	TTCTTGGAAGCTTTCTTGCTGCTCTCAACAAATTTATTGCGGACCGTTATTCTTTGAATCACTC AGTATCAGAATACCATGTGTATGAGTTCTTCAAGGTGATTTGAAATCCAACCCTCCTAGAAAAA ATTCAAGCCCTTAAATTTTTGGAAAAATTGGTTATATAGCATTGAAAGTTCATGTTTTTGGTTT TATAGCACCGAAAGATACCGGTTCACTTTAATAGCACCCAAAGTTCACCCTGTTCCCATTTTTA GCACTTCCGTCAATTCTCAATCGTTTTCCGTCCGTCTTGATCCAGCCACACACACGATATGACG TTTCTACCCCTTACAAGTACAAGTAGAATGCATGTCAATGAGGGGTAGAAACGTCATATCGTGT GCGTAGCTGGGTCAATAACGATCAAGACGGACGGAAAAATTGACGGAAGTGCTAAAAATGGGAA CAGGGTAAACTTTGGGTGCTATTAAAGTGAACCGGTATCTTTCAGTGCTATAAAACCAAAAACG TGAACTTTCGATGCTATATGACCAATTTTGCCTAAATTTTTCATCCTTGATCATGTCTCTGTTA AGAAATTCTATCCATCAGGTAGTTACATCTTTTTGTGCAACTCTGTGCAGATATGGAATTGTTC TCGAGAAAGAGGTTTGTCTTATGCTATCTTTTCATTTCTTTTTGGAACTTACAAATCTTTTATT GTGAACATAACAACAATTCTTCATATAAAAAATCAACAACTTGTCTAAAATGTTGCAGCTAATT TTCTTGTCCATGAGTTCTTTACAACCCATTACTTCCAAGATGGTATACATCCTATCCCCGGTGC CCGAGATGCTCTGCAAAATCTCTCTTCTTTCTGTAGCTTATCTGTTGTCACGTAAGTCCATTTT CTGATATTTAGGGGCATAGTGAACTTATCTTTATTATGTGACGTTTGTGTTTTGGCTAATGATA TCGTTTCTTTTTAAGATCTCGGCAGGATGCAATTAAAAATCACACATTAGACTGGATCGACAAG TACTATCCAGGGTTATTTGAGCAGATCCATTTTGGAAACCATTTTGCTTTGCAAGGTCAATCAA AGCCAAAATCAGAAATTTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006571* osi_circ_016747 						
					
						PMCS
						0.403358686

Conservation Information
Conserved circRNAs	osi_circ_006571* osi_circ_016747
PMCS	0.403358686

			
						 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 Os06g0192900_circ_g.3

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