Plant Circular RNA Database

Detail information of Os01g0857000_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os01g0857000_circ_g.7
					
						ID in PlantcircBase
						osa_circ_004878
					
						Alias
						Os_ciR5115
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 37029418-37030810  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os01g0857000						
					
						Parent gene annotation
						
							Double-stranded RNA-binding-like domain containing protein. (Os0
1t0857000-01);Similar to CPL2 (CTD phosphatase-like 2); double-s
tranded RNA binding. (Os01t0857000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						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
						Os01t0857000-01:2
Os01t0857000-02:2

General Information
CircRNA Name	Os01g0857000_circ_g.7
ID in PlantcircBase	osa_circ_004878
Alias	Os_ciR5115
Organism	Oryza sativa
Position	chr1: 37029418-37030810 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os01g0857000
Parent gene annotation	Double-stranded RNA-binding-like domain containing protein. (Os0 1t0857000-01);Similar to CPL2 (CTD phosphatase-like 2); double-s tranded RNA binding. (Os01t0857000-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	3
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	Os01t0857000-01:2 Os01t0857000-02:2

			
						 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  
						
							CAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCGGCATTGCCACTAG
GTGTAGCTCCTCATCTCCAACTACTACCACTGCGCTctgactttacacatactacacgctctgc
aaggttatgagagcttatcaagttggcttctggatcaagaagcctccacatctcaagagcataa
tctctctc

									
								

					

						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: 682
Transcript exons: 37029418-37029628,37030340-37030810
CTGACTTTACACATACTACACGCTCTGCAAGGTTATGAGAGCTTATCAAGTTGGCTTCTGGATC
AAGAAGCCTCCACATCTCAAGAGCATAATCTCTCTCAGCCATTGTACATACATAGACCTCAAAT
CGTTTGCGTCCCTTAGCAGTCAGGTAACTTCTCAAATCCTCCCAAGCAGGCCTTAGCTTTACAA
AAACACTAGTATCGCGAACCTCTGGATTTATGCGAGTTAGAATCGCATTCCTTTCTGGCAGCCT
GATAACAGGCCGGAGAACACGCTCCTGCCCACCAGAGATAGGCAGAACTTCCTCCTTTTGGGTC
CCAACGATTCTGCCATTATCTGTAACTGTATCTGTGTCAATGAACTCCTTGAGCAGCTCCCTGT
CCTCAATATACCGCTTGATTTCTGCAGACATCCCTGCTATCCTGACGGGGTCGTCTTCAATATC
CATCCTACGGGAAAGCATCTCGATCCGGTCCTCAAAGGACTTCATTGTGTTAGCGACAATAAGG
GTTTCATCGAGATCAAATACGATAGCAAGGCACCGCAAGTTCAGCATCCCAACAGATGCTGCAT
AGATCCCAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCGGCATTGC
CACTAGGTGTAGCTCCTCATCTCCAACTACTACCACTGCGCT
						
					

						Genomic sequence
						
							CTGACTTTACACATACTACACGCTCTGCAAGGTTATGAGAGCTTATCAAGTTGGCTTCTGGATC
AAGAAGCCTCCACATCTCAAGAGCATAATCTCTCTCAGCCATTGTACATACATAGACCTCAAAT
CGTTTGCGTCCCTTAGCAGTCAGGTAACTTCTCAAATCCTCCCAAGCAGGCCTTAGCTTTACAA
AAACACTAGTATCGCGAACCTGAGCAGAGTATTAAAATCAGACAGGGGATAAGGTAATCACCTC
AAAAAAGGGAACTAATTACAGAATTCTACAATAATTAAAAACTCTAGTTATCTCAAAATTTTGA
ATAACTAGACATATGAGAATTATACTGAGCCCATTTTCAGTCCAGAATGACTTAATCAGCTTGA
TTAATCGTCTCAGATAAGCATTACAAAAATAATTACTAAAATAGAATCTCTTTTTTCTAATTGG
CAGCAAACATATGAGCTGATAATAACACATTGTGTGTAGGTTGTCAAACTTTGTGTTAATTGTT
ATTTCATCATTTCCCAAACCATCAGGCTACAAGTTCATTTCTGCATCTGTTTTATTCATAAACA
TCACATGTACAAAGCAAATTATGTAACTATGCAGATCATACAGACCTGTAGGTAGAAACAATGA
GCCTGAACAAATATGTCTTATCCGAGGATCAAAACTGCAGCAATTACAAGTCATTTATAGAACT
TATTTTTGTACCATCGCTAATAACCAAATAGACATACAGCATGCCTTTTGTGGGCAGCAAATTG
GAGCCCAGTTCTATTTTTCCAACCCAGGAATAGGTCCAACTGATTTCAAAGTGTAATTCTAGAT
AACCCCAGGCCAAAAACATGCACACAGGCAAACGATAACAACATTTCATTTAAATGAAATATAT
TTATACATGATCTATCTGAATTGTACCTCTGGATTTATGCGAGTTAGAATCGCATTCCTTTCTG
GCAGCCTGATAACAGGCCGGAGAACACGCTCCTGCCCACCAGAGATAGGCAGAACTTCCTCCTT
TTGGGTCCCAACGATTCTGCCATTATCTGTAACTGTATCTGTGTCAATGAACTCCTTGAGCAGC
TCCCTGTCCTCAATATACCGCTTGATTTCTGCAGACATCCCTGCTATCCTGACGGGGTCGTCTT
CAATATCCATCCTACGGGAAAGCATCTCGATCCGGTCCTCAAAGGACTTCATTGTGTTAGCGAC
AATAAGGGTTTCATCGAGATCAAATACGATAGCAAGGCACCGCAAGTTCAGCATCCCAACAGAT
GCTGCATAGATCCCAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCG
GCATTGCCACTAGGTGTAGCTCCTCATCTCCAACTACTACCACTGCGCT
						
					

			
		

Sequences
Splice junction sequence	CAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCGGCATTGCCACTAG GTGTAGCTCCTCATCTCCAACTACTACCACTGCGCTctgactttacacatactacacgctctgc aaggttatgagagcttatcaagttggcttctggatcaagaagcctccacatctcaagagcataa tctctctc
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: 682 Transcript exons: 37029418-37029628,37030340-37030810 CTGACTTTACACATACTACACGCTCTGCAAGGTTATGAGAGCTTATCAAGTTGGCTTCTGGATC AAGAAGCCTCCACATCTCAAGAGCATAATCTCTCTCAGCCATTGTACATACATAGACCTCAAAT CGTTTGCGTCCCTTAGCAGTCAGGTAACTTCTCAAATCCTCCCAAGCAGGCCTTAGCTTTACAA AAACACTAGTATCGCGAACCTCTGGATTTATGCGAGTTAGAATCGCATTCCTTTCTGGCAGCCT GATAACAGGCCGGAGAACACGCTCCTGCCCACCAGAGATAGGCAGAACTTCCTCCTTTTGGGTC CCAACGATTCTGCCATTATCTGTAACTGTATCTGTGTCAATGAACTCCTTGAGCAGCTCCCTGT CCTCAATATACCGCTTGATTTCTGCAGACATCCCTGCTATCCTGACGGGGTCGTCTTCAATATC CATCCTACGGGAAAGCATCTCGATCCGGTCCTCAAAGGACTTCATTGTGTTAGCGACAATAAGG GTTTCATCGAGATCAAATACGATAGCAAGGCACCGCAAGTTCAGCATCCCAACAGATGCTGCAT AGATCCCAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCGGCATTGC CACTAGGTGTAGCTCCTCATCTCCAACTACTACCACTGCGCT
Genomic sequence	CTGACTTTACACATACTACACGCTCTGCAAGGTTATGAGAGCTTATCAAGTTGGCTTCTGGATC AAGAAGCCTCCACATCTCAAGAGCATAATCTCTCTCAGCCATTGTACATACATAGACCTCAAAT CGTTTGCGTCCCTTAGCAGTCAGGTAACTTCTCAAATCCTCCCAAGCAGGCCTTAGCTTTACAA AAACACTAGTATCGCGAACCTGAGCAGAGTATTAAAATCAGACAGGGGATAAGGTAATCACCTC AAAAAAGGGAACTAATTACAGAATTCTACAATAATTAAAAACTCTAGTTATCTCAAAATTTTGA ATAACTAGACATATGAGAATTATACTGAGCCCATTTTCAGTCCAGAATGACTTAATCAGCTTGA TTAATCGTCTCAGATAAGCATTACAAAAATAATTACTAAAATAGAATCTCTTTTTTCTAATTGG CAGCAAACATATGAGCTGATAATAACACATTGTGTGTAGGTTGTCAAACTTTGTGTTAATTGTT ATTTCATCATTTCCCAAACCATCAGGCTACAAGTTCATTTCTGCATCTGTTTTATTCATAAACA TCACATGTACAAAGCAAATTATGTAACTATGCAGATCATACAGACCTGTAGGTAGAAACAATGA GCCTGAACAAATATGTCTTATCCGAGGATCAAAACTGCAGCAATTACAAGTCATTTATAGAACT TATTTTTGTACCATCGCTAATAACCAAATAGACATACAGCATGCCTTTTGTGGGCAGCAAATTG GAGCCCAGTTCTATTTTTCCAACCCAGGAATAGGTCCAACTGATTTCAAAGTGTAATTCTAGAT AACCCCAGGCCAAAAACATGCACACAGGCAAACGATAACAACATTTCATTTAAATGAAATATAT TTATACATGATCTATCTGAATTGTACCTCTGGATTTATGCGAGTTAGAATCGCATTCCTTTCTG GCAGCCTGATAACAGGCCGGAGAACACGCTCCTGCCCACCAGAGATAGGCAGAACTTCCTCCTT TTGGGTCCCAACGATTCTGCCATTATCTGTAACTGTATCTGTGTCAATGAACTCCTTGAGCAGC TCCCTGTCCTCAATATACCGCTTGATTTCTGCAGACATCCCTGCTATCCTGACGGGGTCGTCTT CAATATCCATCCTACGGGAAAGCATCTCGATCCGGTCCTCAAAGGACTTCATTGTGTTAGCGAC AATAAGGGTTTCATCGAGATCAAATACGATAGCAAGGCACCGCAAGTTCAGCATCCCAACAGAT GCTGCATAGATCCCAGAGCGTACTGAACAGCACCAAAAGCATGGCACCTTCTCCACCTTGCTCG GCATTGCCACTAGGTGTAGCTCCTCATCTCCAACTACTACCACTGCGCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.193788418

Conservation Information
Conserved circRNAs	NA
PMCS	0.193788418

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							37030697-37029452(+)
37030767-37030787(-)
						
						Potential amino acid sequence
						
							MLHRSQSVLNSTKSMAPSPPCSALPLGVAPHLQLLPLRSDFTHTTRSARL*(+)
MPSKVEKVPCFWCCSVRSGIYAASVGMLNLRCLAIVFDLDETLIVANTMKSFEDRIEMLSRRMD
IEDDPVRIAGMSAEIKRYIEDRELLKEFIDTDTVTDNGRIVGTQKEEVLPISGGQERVLRPVIR
LPERNAILTRINPEVRDTSVFVKLRPAWEDLRSYLTAKGRKRFEVYVCTMAERDYALEMWRLLD
PEANLISSHNLAERVVCVKSERSGSSWR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	37030697-37029452(+) 37030767-37030787(-)
Potential amino acid sequence	MLHRSQSVLNSTKSMAPSPPCSALPLGVAPHLQLLPLRSDFTHTTRSARL(+) MPSKVEKVPCFWCCSVRSGIYAASVGMLNLRCLAIVFDLDETLIVANTMKSFEDRIEMLSRRMD IEDDPVRIAGMSAEIKRYIEDRELLKEFIDTDTVTDNGRIVGTQKEEVLPISGGQERVLRPVIR LPERNAILTRINPEVRDTSVFVKLRPAWEDLRSYLTAKGRKRFEVYVCTMAERDYALEMWRLLD PEANLISSHNLAERVVCVKSERSGSSWR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0857000_circ_g.7

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