Plant Circular RNA Database

Detail information of Os12g0583900_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os12g0583900_circ_g.4
					
						ID in PlantcircBase
						osa_circ_012128
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 24247340-24251425  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0583900						
					
						Parent gene annotation
						
							Similar to PDE135 (PIGMENT DEFECTIVE EMBRYO 135); transmembrane 
transporter. (Os12t0583900-01);Similar to Permease. (Os12t058390
0-02);Similar to PDE135 (PIGMENT DEFECTIVE EMBRYO 135); transmem
brane transporter. (Os12t0583900-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0583900_circ_g.1 Os12g0583900_circ_g.2 Os12g0583900_circ_g.3 Os12g0583900_circ_g.5 Os12g0583900_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						Exon boundary  
						
							No-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
						Os12t0583900-02:13
Os12t0583900-01:9
Os12t0583900-03:6

General Information
CircRNA Name	Os12g0583900_circ_g.4
ID in PlantcircBase	osa_circ_012128
Alias	NA
Organism	Oryza sativa
Position	chr12: 24247340-24251425 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0583900
Parent gene annotation	Similar to PDE135 (PIGMENT DEFECTIVE EMBRYO 135); transmembrane transporter. (Os12t0583900-01);Similar to Permease. (Os12t058390 0-02);Similar to PDE135 (PIGMENT DEFECTIVE EMBRYO 135); transmem brane transporter. (Os12t0583900-03)
Parent gene strand	+
Alternative splicing	Os12g0583900_circ_g.1 Os12g0583900_circ_g.2 Os12g0583900_circ_g.3 Os12g0583900_circ_g.5 Os12g0583900_circ_g.6
Support reads	1
Tissues	shoot
Exon boundary	No-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	Os12t0583900-02:13 Os12t0583900-01:9 Os12t0583900-03:6

			
						 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  
						
							CATTGGACTTTCGCTGTTCCTAGGCATCTCGGTTCCTCAATACTTCCATGAGTATACTGCTTCT
GCTAGCACTGGACCTGCCCGAACAAATGCTGGATGGtcggtgtaactaatgggggagatgaacc
agccgccgccgccgccggtggccgtgccgccgccgatggtgatgcagccaatcatgcatccgcc
cgtcggca

									
								

					

						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
						
							TCGGTGTAACTAATGGGGGAGATGAACCAGCCGCCGCCGCCGCCGGTGGCCGTGCCGCCGCCGA
TGGTGATGCAGCCAATCATGCATCCGCCCGTCGGCACCGGCGCCGTCTTCCCGCCGCACGAGCA
GTTCCACCATCTCGCCTACTGCGTCCACTCCAACCCTTCCTGGGGTAAGGAAACCCCAACCCCT
TCATTCCTCCTCTTTTTTATCTTTCCTTGTGTGTTTTTGTGTTGGTTGGTGAATGGATTGGATA
TGATGAATATTCCCTTTCATCCCTAAAAATTTGGGAGATTTGATTTTTAGGAGTATCTGCTGGT
TGGGGTTTTTTTGACTCAAGATATTTTTTGCCTTTGGAGTGGGGGAGCTTCTGTGTTGTGTTGT
TTTTGTATGATTCTTGAATTGGGGGGTGTCCAGAGATATTTGATGTGTGTTTTGATTTGAAGAT
TTTTTTTTAGCATAACTCCTGTTTCACTCCCCTGCTAATATTTGAAGAGATTATGGTGTCTACT
GGTGCACACTATTGATGTTTTCCAGAGAGTTGTAGCTACTATTATTTTTTATAGACTAGTAAAA
GGAATTGGTGGTGGTGATGATTTGCTTTACACCCCACTACTTCATCAGATCTTTAGTGAATGGA
TCTATGTAGACATAGCTATTGTTTGTACTACTACATGCTTATGTATGTAGATGTTGAATTCTTT
GTAGTACATACGTATATGCAGTTGCTGGTTGACCTAGTGTGAATATTTTAATTGTGAAGGTAAG
TATAACTGTATTTGTGTAACCATGGAACTTTTGACATGTTCATTTGAGATCCCCTGCAATATAG
AGGCAAACACACTAGTTCTGTCAAAAGAATCTTAGAAGAGTAGTAGGATGTTCAGGCAAAAACG
CTATGAAGTGCTATCTTGATTTTTTTAAATTATCAAATGTACTTCTGGAAATTAAATTACTCAT
GTCGATTGCAGAAATGATTAAGACATATAAAGCTTGTGCTCACTAAATTACTATTGTTGATATT
ACCTTCAGTTCAGGTGGCCGCACTTGCATTCCTCCACTATCTTGTGATGCTGGGTTCTACTGTC
ATGCTTGCATCAACTATTGTTCCTGCAATGGGTGGTACCCCAGTAAGTACATTGTTTATTTTGT
TATAAAGAGTTTATTACGTACCATTATAGTTCTCTTCTAAAGAATTGGTACTGACCTTTTCCCG
CTTGTTGCTAATAGGGGGATAAGGCTCGTGTTATTCAATCCTTCCTATTTATGAGTGGCATCAA
TACTCTCCTCCAAACACTTGTTGGAACGCGGCTCCCTACAGTTATGAATGCTTCCTTTGCATTT
GTCGTCCCAGTACTGTCAATAGCCAAAGACTTTGAACAAAATAACTATGCGAGCAGTCACCAGG
TAGAGTACCGTTCATATTTGTTCAATCATAGAAAATTGTCTGGATCATGATCAATTTATTTGCA
TTGATTGATCAAATTATTATTGATTACTTATAACCTATTAGGGATTTTGCAGAGATTTACTCAC
ACAATGAGAGCAACTCAAGGGGCTCTGATTGTTGCTTCTATCCTCAACATGATTCTTGGGTTCA
GCACAATTTGGGGGGCATTCGCCAGGTACATATCTTATAATATTTGTTCTTAGACTACAATAGT
CATTTTGTGCTAGATTTTTTCAAGGTATTGACATTTGAATTGATTTCTTTCCAGGAAATTTAGT
CCTGTAATAATGACCCCTGTTGTTTGCGTTGTTGGTCTTGGGCTATTTGCACTTGGCTTTCCCC
AGGTACGATCTCTATATTATTTTTACAGGAAAATCTAGCAGTTCGCAAATAAAGGAAGCATGTT
CTCTTTGGTTTCCCATGGTAGGTTGGAAAGTGTGTGGAGATCGGGCTACCAATGCTAATCCTTG
CAGTTGTTGTGCAACAGGTAATGAATTAATCTCCTTATAGGGCGGTTTCTTTTAATAACACTCT
AACCGGTGATATACTACGAAACTTACTATTTACTATGCTGTGTATGCAGTATGTGCCATATTAC
TTCCATCATTACCATGAGCGAATCACCTTCTTGTTTGAGAGGTATTCGTTGCTTCTTTGTATTG
GGATTGTGTGGGCCTTTGCAGCTATCCTTACTGCTGCTGGTGCATACAACCATGTTTCACTCAA
GACCCAGCAGCACTGCCGCACTGACAAGTCCTATCTCATATCATCGGCACCATGGTATCGTTCT
CAAGTATATTGATTATGAACTGATTTTAAAAGGCTGTAGGTTCTTCAGATAGCCATTTCTAATC
GACCCTTTACATACATGCTCTACTAGGATCAAAATCCCATACCCCTTCCAATGGGGTACACCAA
TCTTCACTGCAGGTCATTCATTTGGAATGATGGGTGCTGTACTTGTTTCTGCTTTTGAGGTAAG
ACCAAGGCCCAAAAATGTAATCAGATCTCTTTTGTTATGTTTTATCTTTTGTTGTTTCTAATGT
GTGTTATCTCATGTAGTCCACTGGTGCACACTTTGCAACTGCACGTCTAGCTGGTGCGACACCA
CCTCCAGCTAGTGTCCTTAGTAGGAGTGTTGGTTTGCAGGTGAGTTTTGTTCAATATAAGATTT
TATATTCTTACACCACATCTCAGTCTACATTACCGACACCAATAAAATGTCTTGTCTGTATCTA
ACTTGCATTTGAAAACAAGTCCCCAGCTCATTAATCTCTAACAAGTAATAGCGAGACATCAAAT
ATGGTTGTTTGTACATACTATGCATGACTTTCCTTTGCTACTAAAAATATTGATTTAATCGGAT
GGATCTGTGGGAGAGCTGTTAGTTCAAGTCCTTGATTTACTAATGCTATTACCTATTATTTATT
TTGCCATCCTTGCTTTTACTTGTGAAATTTTCTTGTGCCATCCTTGACGACTTTACAATTTTAC
TCGTGTGAAATGCAGGGCATTGGAATGTTCCTAGAAGGTATCTTTGGCGCTCCAGCTGGTTCAT
CTGTATCAGTGTAAGGGGATCTCAACTTTTATGCCCTTTCTATGAGTTTGTTATTCGAGAAGAC
TAGAACAGTTCCATGCAAATAGATGTTAAATATATATGCTTCAAACAATAAATGCTCAAAATAA
GATGTAGTGTTGGTGTTAACAGAGTATCTAGTCCTACATTCTAGCTATAGTTGTACATCGTTCT
GGTTAGGTAAAGCTTTTTGTGGTATTCAGTTTATTACTCTGGGGTAGGAGCTGATTAGGAACCA
TAGTACACATGATGAAATGTAAAGTTCACATATTTTTATGGGTAGGCCATGGTATGAAATTATT
CTGTTATTATGTACAGAACATGTAATTATTCTGTACAACTAACCATAGGCAACTTGACGGTCCC
TGCTTACACACTTAAAAAAGATACGGAGTACTTGCTTTGCAAACCCTTTTGTGGTTAGGAATAG
TGGAATACTATACTGGTGGGCTTTGATCACATTGCATGAGAGTAAGATTTAGTTTCTTTATATT
TGTGTTCATTTGTGAACTGAAAGGACCCCTTGCCTTTAATATAATGCAGTGAAAACATTGGGCT
TCTTGGACTAACAAAAGTTGGAAGCAGGAGAGTGATCCAGATATCAACTGGATTTATGATTTTC
TTCTCCATATTTGGTAATCTTTTGGTCTCATCTTCAGTTGCCAAAGGGGAAAGATAGTTTTGTC
TGAAATTTGTATACTTCTATTCATGCAGGGAAGTTTGGTGCTTTCTTTGCATCTATTCCATTGC
CAATCTTCGCAGCAATTTTCTGTATCTTATTTGGTATTGTTGGTGAGTCCGAATTTTCTTTCTT
AAGAGTCCTTGCATCGATGAATATATATGGCCGCAACATGATTGTGTTCATTTTATGTTCTAAT
CTGTTTTTTTTGGCATATCAGCTGCGGTGGGAGTCTCGTACATGCAATTTGTAAACAAAAATTC
GATGAGGAACATATACATCATTGGACTTTCGCTGTTCCTAGGCATCTCGGTTCCTCAATACTTC
CATGAGTATACTGCTTCTGCTAGCACTGGACCTGCCCGAACAAATGCTGGATGG
						
					

			
		

Sequences
Splice junction sequence	CATTGGACTTTCGCTGTTCCTAGGCATCTCGGTTCCTCAATACTTCCATGAGTATACTGCTTCT GCTAGCACTGGACCTGCCCGAACAAATGCTGGATGGtcggtgtaactaatgggggagatgaacc agccgccgccgccgccggtggccgtgccgccgccgatggtgatgcagccaatcatgcatccgcc cgtcggca
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	TCGGTGTAACTAATGGGGGAGATGAACCAGCCGCCGCCGCCGCCGGTGGCCGTGCCGCCGCCGA TGGTGATGCAGCCAATCATGCATCCGCCCGTCGGCACCGGCGCCGTCTTCCCGCCGCACGAGCA GTTCCACCATCTCGCCTACTGCGTCCACTCCAACCCTTCCTGGGGTAAGGAAACCCCAACCCCT TCATTCCTCCTCTTTTTTATCTTTCCTTGTGTGTTTTTGTGTTGGTTGGTGAATGGATTGGATA TGATGAATATTCCCTTTCATCCCTAAAAATTTGGGAGATTTGATTTTTAGGAGTATCTGCTGGT TGGGGTTTTTTTGACTCAAGATATTTTTTGCCTTTGGAGTGGGGGAGCTTCTGTGTTGTGTTGT TTTTGTATGATTCTTGAATTGGGGGGTGTCCAGAGATATTTGATGTGTGTTTTGATTTGAAGAT TTTTTTTTAGCATAACTCCTGTTTCACTCCCCTGCTAATATTTGAAGAGATTATGGTGTCTACT GGTGCACACTATTGATGTTTTCCAGAGAGTTGTAGCTACTATTATTTTTTATAGACTAGTAAAA GGAATTGGTGGTGGTGATGATTTGCTTTACACCCCACTACTTCATCAGATCTTTAGTGAATGGA TCTATGTAGACATAGCTATTGTTTGTACTACTACATGCTTATGTATGTAGATGTTGAATTCTTT GTAGTACATACGTATATGCAGTTGCTGGTTGACCTAGTGTGAATATTTTAATTGTGAAGGTAAG TATAACTGTATTTGTGTAACCATGGAACTTTTGACATGTTCATTTGAGATCCCCTGCAATATAG AGGCAAACACACTAGTTCTGTCAAAAGAATCTTAGAAGAGTAGTAGGATGTTCAGGCAAAAACG CTATGAAGTGCTATCTTGATTTTTTTAAATTATCAAATGTACTTCTGGAAATTAAATTACTCAT GTCGATTGCAGAAATGATTAAGACATATAAAGCTTGTGCTCACTAAATTACTATTGTTGATATT ACCTTCAGTTCAGGTGGCCGCACTTGCATTCCTCCACTATCTTGTGATGCTGGGTTCTACTGTC ATGCTTGCATCAACTATTGTTCCTGCAATGGGTGGTACCCCAGTAAGTACATTGTTTATTTTGT TATAAAGAGTTTATTACGTACCATTATAGTTCTCTTCTAAAGAATTGGTACTGACCTTTTCCCG CTTGTTGCTAATAGGGGGATAAGGCTCGTGTTATTCAATCCTTCCTATTTATGAGTGGCATCAA TACTCTCCTCCAAACACTTGTTGGAACGCGGCTCCCTACAGTTATGAATGCTTCCTTTGCATTT GTCGTCCCAGTACTGTCAATAGCCAAAGACTTTGAACAAAATAACTATGCGAGCAGTCACCAGG TAGAGTACCGTTCATATTTGTTCAATCATAGAAAATTGTCTGGATCATGATCAATTTATTTGCA TTGATTGATCAAATTATTATTGATTACTTATAACCTATTAGGGATTTTGCAGAGATTTACTCAC ACAATGAGAGCAACTCAAGGGGCTCTGATTGTTGCTTCTATCCTCAACATGATTCTTGGGTTCA GCACAATTTGGGGGGCATTCGCCAGGTACATATCTTATAATATTTGTTCTTAGACTACAATAGT CATTTTGTGCTAGATTTTTTCAAGGTATTGACATTTGAATTGATTTCTTTCCAGGAAATTTAGT CCTGTAATAATGACCCCTGTTGTTTGCGTTGTTGGTCTTGGGCTATTTGCACTTGGCTTTCCCC AGGTACGATCTCTATATTATTTTTACAGGAAAATCTAGCAGTTCGCAAATAAAGGAAGCATGTT CTCTTTGGTTTCCCATGGTAGGTTGGAAAGTGTGTGGAGATCGGGCTACCAATGCTAATCCTTG CAGTTGTTGTGCAACAGGTAATGAATTAATCTCCTTATAGGGCGGTTTCTTTTAATAACACTCT AACCGGTGATATACTACGAAACTTACTATTTACTATGCTGTGTATGCAGTATGTGCCATATTAC TTCCATCATTACCATGAGCGAATCACCTTCTTGTTTGAGAGGTATTCGTTGCTTCTTTGTATTG GGATTGTGTGGGCCTTTGCAGCTATCCTTACTGCTGCTGGTGCATACAACCATGTTTCACTCAA GACCCAGCAGCACTGCCGCACTGACAAGTCCTATCTCATATCATCGGCACCATGGTATCGTTCT CAAGTATATTGATTATGAACTGATTTTAAAAGGCTGTAGGTTCTTCAGATAGCCATTTCTAATC GACCCTTTACATACATGCTCTACTAGGATCAAAATCCCATACCCCTTCCAATGGGGTACACCAA TCTTCACTGCAGGTCATTCATTTGGAATGATGGGTGCTGTACTTGTTTCTGCTTTTGAGGTAAG ACCAAGGCCCAAAAATGTAATCAGATCTCTTTTGTTATGTTTTATCTTTTGTTGTTTCTAATGT GTGTTATCTCATGTAGTCCACTGGTGCACACTTTGCAACTGCACGTCTAGCTGGTGCGACACCA CCTCCAGCTAGTGTCCTTAGTAGGAGTGTTGGTTTGCAGGTGAGTTTTGTTCAATATAAGATTT TATATTCTTACACCACATCTCAGTCTACATTACCGACACCAATAAAATGTCTTGTCTGTATCTA ACTTGCATTTGAAAACAAGTCCCCAGCTCATTAATCTCTAACAAGTAATAGCGAGACATCAAAT ATGGTTGTTTGTACATACTATGCATGACTTTCCTTTGCTACTAAAAATATTGATTTAATCGGAT GGATCTGTGGGAGAGCTGTTAGTTCAAGTCCTTGATTTACTAATGCTATTACCTATTATTTATT TTGCCATCCTTGCTTTTACTTGTGAAATTTTCTTGTGCCATCCTTGACGACTTTACAATTTTAC TCGTGTGAAATGCAGGGCATTGGAATGTTCCTAGAAGGTATCTTTGGCGCTCCAGCTGGTTCAT CTGTATCAGTGTAAGGGGATCTCAACTTTTATGCCCTTTCTATGAGTTTGTTATTCGAGAAGAC TAGAACAGTTCCATGCAAATAGATGTTAAATATATATGCTTCAAACAATAAATGCTCAAAATAA GATGTAGTGTTGGTGTTAACAGAGTATCTAGTCCTACATTCTAGCTATAGTTGTACATCGTTCT GGTTAGGTAAAGCTTTTTGTGGTATTCAGTTTATTACTCTGGGGTAGGAGCTGATTAGGAACCA TAGTACACATGATGAAATGTAAAGTTCACATATTTTTATGGGTAGGCCATGGTATGAAATTATT CTGTTATTATGTACAGAACATGTAATTATTCTGTACAACTAACCATAGGCAACTTGACGGTCCC TGCTTACACACTTAAAAAAGATACGGAGTACTTGCTTTGCAAACCCTTTTGTGGTTAGGAATAG TGGAATACTATACTGGTGGGCTTTGATCACATTGCATGAGAGTAAGATTTAGTTTCTTTATATT TGTGTTCATTTGTGAACTGAAAGGACCCCTTGCCTTTAATATAATGCAGTGAAAACATTGGGCT TCTTGGACTAACAAAAGTTGGAAGCAGGAGAGTGATCCAGATATCAACTGGATTTATGATTTTC TTCTCCATATTTGGTAATCTTTTGGTCTCATCTTCAGTTGCCAAAGGGGAAAGATAGTTTTGTC TGAAATTTGTATACTTCTATTCATGCAGGGAAGTTTGGTGCTTTCTTTGCATCTATTCCATTGC CAATCTTCGCAGCAATTTTCTGTATCTTATTTGGTATTGTTGGTGAGTCCGAATTTTCTTTCTT AAGAGTCCTTGCATCGATGAATATATATGGCCGCAACATGATTGTGTTCATTTTATGTTCTAAT CTGTTTTTTTTGGCATATCAGCTGCGGTGGGAGTCTCGTACATGCAATTTGTAAACAAAAATTC GATGAGGAACATATACATCATTGGACTTTCGCTGTTCCTAGGCATCTCGGTTCCTCAATACTTC CATGAGTATACTGCTTCTGCTAGCACTGGACCTGCCCGAACAAATGCTGGATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.115243231

Conservation Information
Conserved circRNAs	NA
PMCS	0.115243231

			
						 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
						Chu et al., 2017

circRNA

Detail information of Os12g0583900_circ_g.4

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