Plant Circular RNA Database

Detail information of Os12g0145700_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os12g0145700_circ_g.7
					
						ID in PlantcircBase
						osa_circ_010483
					
						Alias
						Os_ciR7416
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 2248005-2249038  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os12g0145700						
					
						Parent gene annotation
						
							Pyruvate kinase family protein. (Os12t0145700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0145700_circ_g.5 Os12g0145700_circ_g.6 Os12g0145700_circ_g.8 						
					
						Support reads
						2
					
						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
						Os12t0145700-01:4

General Information
CircRNA Name	Os12g0145700_circ_g.7
ID in PlantcircBase	osa_circ_010483
Alias	Os_ciR7416
Organism	Oryza sativa
Position	chr12: 2248005-2249038 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os12g0145700
Parent gene annotation	Pyruvate kinase family protein. (Os12t0145700-01)
Parent gene strand	-
Alternative splicing	Os12g0145700_circ_g.5 Os12g0145700_circ_g.6 Os12g0145700_circ_g.8
Support reads	2
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	Os12t0145700-01:4

			
						 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  
						
							GGTCAGGGGTGAGAATAACAGTGCCGTTCTCCTCGAGGGAGATGGAGGCTTCGCTCTTGTTCAC
CACCTGCAACTCTGGGCCGACCGTGTCAAGCATGACctgtcgcacatcttctacatgtcttgta
taagaaagagagaggaagtcaatcttgtttggggcaccccattttctgataacctgaaagcagt
acatgctc

									
								

					

						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: 447
Transcript exons: 2248005-2248085,2248314-2248445,2248566-2248643,2248883-
2249038
CTGTCGCACATCTTCTACATGTCTTGTATAAGAAAGAGAGAGGAAGTCAATCTTGTTTGGGGCA
CCCCATTTTCTGATAACCTCCTTGTCCTCATCAGATAGGGTAGGTAAGTCGATGTGAATCTGCG
AGCAATGCAATGTGAAGAGCGACCCAGCCAGAGTTGCTGTGTTTTTTATCACACAGACCACATC
ATCTCCTTTAATTTGAGAAACCTCTAACCAAACTGAAGTAGTCTCACTGCCTGTGAACAAGTAT
TGCCCAACAAATATTGTGTCACCTGGCTTCACAGCCTTAGCAAGCCCAGCGAAGTTAATTGGCA
GCACTTGTGAGGAGGCCTCCTGCCCCTGGTCAGGGGTGAGAATAACAGTGCCGTTCTCCTCGAG
GGAGATGGAGGCTTCGCTCTTGTTCACCACCTGCAACTCTGGGCCGACCGTGTCAAGCATGAC
						
					

						Genomic sequence
						
							CTGTCGCACATCTTCTACATGTCTTGTATAAGAAAGAGAGAGGAAGTCAATCTTGTTTGGGGCA
CCCCATTTTCTGATAACCTGAAAGCAGTACATGCTCATAAGCATTTAAGGCATCGGACAGATTT
TGAGTAAGGTGCTCCAAAAGGAAAAATATATAACATTTTACTTAATTCCATAAAGGACAGATTT
TGAGTAAGGTGCTCCAAAAGGAAAAATATACAACATTTTACTTAATTCCATAAAGGAAGACATC
AAATACAAATACATAAGGAGATACATATCACTATTCTGAAATGAGTTCCTTACCTCCTTGTCCT
CATCAGATAGGGTAGGTAAGTCGATGTGAATCTGCGAGCAATGCAATGTGAAGAGCGACCCAGC
CAGAGTTGCTGTGTTTTTTATCACACAGACCACATCATCTCCTTTAATTTGAGAAACCTAAACC
AGACAAATTAGAGTTTTGGTATCGGAAAATGTGGGCACAAAGCAAATCCTACTGACAATGACAT
AAGAAAAAAAAATGCAGAACGCTAAGCGCAGTATGCCGAATATTTTTACCTCTAACCAAACTGA
AGTAGTCTCACTGCCTGTGAACAAGTATTGCCCAACAAATATTGTGTCACCTGGCTTCACAGCC
TGCAAACAAAACAATAAGTCATTTTTTATATATCAAACAGAGCATATGCTGGAAATCGCAGTGA
CAAAATAGCAAGTTCCATAAAAGAAGGACCTATCTATTTGCAACCATTCATACACAGCATAATA
AGATTTTGCATAAATAGCACTGAAAGGTACTCCTACCTATGCGCTTGCAACCATTCATGCACAG
CGTAATAAGATTTCGGAAAAAAAAAAGAACTGAAAGGGAGTATTACCTTAGCAAGCCCAGCGAA
GTTAATTGGCAGCACTTGTGAGGAGGCCTCCTGCCCCTGGTCAGGGGTGAGAATAACAGTGCCG
TTCTCCTCGAGGGAGATGGAGGCTTCGCTCTTGTTCACCACCTGCAACTCTGGGCCGACCGTGT
CAAGCATGAC
						
					

			
		

Sequences
Splice junction sequence	GGTCAGGGGTGAGAATAACAGTGCCGTTCTCCTCGAGGGAGATGGAGGCTTCGCTCTTGTTCAC CACCTGCAACTCTGGGCCGACCGTGTCAAGCATGACctgtcgcacatcttctacatgtcttgta taagaaagagagaggaagtcaatcttgtttggggcaccccattttctgataacctgaaagcagt acatgctc
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: 447 Transcript exons: 2248005-2248085,2248314-2248445,2248566-2248643,2248883- 2249038 CTGTCGCACATCTTCTACATGTCTTGTATAAGAAAGAGAGAGGAAGTCAATCTTGTTTGGGGCA CCCCATTTTCTGATAACCTCCTTGTCCTCATCAGATAGGGTAGGTAAGTCGATGTGAATCTGCG AGCAATGCAATGTGAAGAGCGACCCAGCCAGAGTTGCTGTGTTTTTTATCACACAGACCACATC ATCTCCTTTAATTTGAGAAACCTCTAACCAAACTGAAGTAGTCTCACTGCCTGTGAACAAGTAT TGCCCAACAAATATTGTGTCACCTGGCTTCACAGCCTTAGCAAGCCCAGCGAAGTTAATTGGCA GCACTTGTGAGGAGGCCTCCTGCCCCTGGTCAGGGGTGAGAATAACAGTGCCGTTCTCCTCGAG GGAGATGGAGGCTTCGCTCTTGTTCACCACCTGCAACTCTGGGCCGACCGTGTCAAGCATGAC
Genomic sequence	CTGTCGCACATCTTCTACATGTCTTGTATAAGAAAGAGAGAGGAAGTCAATCTTGTTTGGGGCA CCCCATTTTCTGATAACCTGAAAGCAGTACATGCTCATAAGCATTTAAGGCATCGGACAGATTT TGAGTAAGGTGCTCCAAAAGGAAAAATATATAACATTTTACTTAATTCCATAAAGGACAGATTT TGAGTAAGGTGCTCCAAAAGGAAAAATATACAACATTTTACTTAATTCCATAAAGGAAGACATC AAATACAAATACATAAGGAGATACATATCACTATTCTGAAATGAGTTCCTTACCTCCTTGTCCT CATCAGATAGGGTAGGTAAGTCGATGTGAATCTGCGAGCAATGCAATGTGAAGAGCGACCCAGC CAGAGTTGCTGTGTTTTTTATCACACAGACCACATCATCTCCTTTAATTTGAGAAACCTAAACC AGACAAATTAGAGTTTTGGTATCGGAAAATGTGGGCACAAAGCAAATCCTACTGACAATGACAT AAGAAAAAAAAATGCAGAACGCTAAGCGCAGTATGCCGAATATTTTTACCTCTAACCAAACTGA AGTAGTCTCACTGCCTGTGAACAAGTATTGCCCAACAAATATTGTGTCACCTGGCTTCACAGCC TGCAAACAAAACAATAAGTCATTTTTTATATATCAAACAGAGCATATGCTGGAAATCGCAGTGA CAAAATAGCAAGTTCCATAAAAGAAGGACCTATCTATTTGCAACCATTCATACACAGCATAATA AGATTTTGCATAAATAGCACTGAAAGGTACTCCTACCTATGCGCTTGCAACCATTCATGCACAG CGTAATAAGATTTCGGAAAAAAAAAAGAACTGAAAGGGAGTATTACCTTAGCAAGCCCAGCGAA GTTAATTGGCAGCACTTGTGAGGAGGCCTCCTGCCCCTGGTCAGGGGTGAGAATAACAGTGCCG TTCTCCTCGAGGGAGATGGAGGCTTCGCTCTTGTTCACCACCTGCAACTCTGGGCCGACCGTGT CAAGCATGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.234565828

Conservation Information
Conserved circRNAs	NA
PMCS	0.234565828

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2248981-2248032(+)
2249037-2248007(-)
						
						Potential amino acid sequence
						
							MEASLLFTTCNSGPTVSSMTCRTSSTCLV*(+)
MLDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQY
LFTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGA
PNKIDFLSLSYTRHVEDVRQVMLDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLP
INFAGLAKAVKPGDTIFVGQYLFTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQ
IHIDLPTLSDEDKEVIRKWGAPNKIDFLSLSYTRHVEDVRQVMLDTVGPELQVVNKSEASISLE
ENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQYLFTGSETTSVWLEVSQIKGDDV
VCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGAPNKIDFLSLSYTRHVEDVRQVM
LDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQYL
FTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGAP
NKIDFLSLSYTRHVEDVRQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2248981-2248032(+) 2249037-2248007(-)
Potential amino acid sequence	MEASLLFTTCNSGPTVSSMTCRTSSTCLV*(+) MLDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQY LFTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGA PNKIDFLSLSYTRHVEDVRQVMLDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLP INFAGLAKAVKPGDTIFVGQYLFTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQ IHIDLPTLSDEDKEVIRKWGAPNKIDFLSLSYTRHVEDVRQVMLDTVGPELQVVNKSEASISLE ENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQYLFTGSETTSVWLEVSQIKGDDV VCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGAPNKIDFLSLSYTRHVEDVRQVM LDTVGPELQVVNKSEASISLEENGTVILTPDQGQEASSQVLPINFAGLAKAVKPGDTIFVGQYL FTGSETTSVWLEVSQIKGDDVVCVIKNTATLAGSLFTLHCSQIHIDLPTLSDEDKEVIRKWGAP NKIDFLSLSYTRHVEDVRQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os12g0145700_circ_g.7

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