Plant Circular RNA Database

Detail information of Os07g0185432_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0185432_circ_g.3
					
						ID in PlantcircBase
						osa_circ_033034
					
						Alias
						Os07circ03918/Os_ciR1887
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 4533203-4535560  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os07g0185432						
					
						Parent gene annotation
						
							Similar to Seed specific protein Bn15D14A. (Os07t0185432-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0185432_circ_igg.1 Os07g0185432_circ_igg.2 Os07g0185432_circ_igg.3 Os07g0185432_circ_igg.4 Os07g0185432_circ_g.1 Os07g0185432_circ_g.2 Os07g0185432_circ_g.4 						
					
						Support reads
						3/6/18
					
						Tissues
						leaf/root/shoot, root, seed
					
						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
						Os07t0185432-00:4

General Information
CircRNA Name	Os07g0185432_circ_g.3
ID in PlantcircBase	osa_circ_033034
Alias	Os07circ03918/Os_ciR1887
Organism	Oryza sativa
Position	chr7: 4533203-4535560 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os07g0185432
Parent gene annotation	Similar to Seed specific protein Bn15D14A. (Os07t0185432-00)
Parent gene strand	+
Alternative splicing	Os07g0185432_circ_igg.1 Os07g0185432_circ_igg.2 Os07g0185432_circ_igg.3 Os07g0185432_circ_igg.4 Os07g0185432_circ_g.1 Os07g0185432_circ_g.2 Os07g0185432_circ_g.4
Support reads	3/6/18
Tissues	leaf/root/shoot, root, seed
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	Os07t0185432-00:4

			
						 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  
						
							AGAAGCTCTGAAACAACTAAGGAAGAATCTGGTTATTAGAGCAAAACCCATGCCAAGCTTCTAT
CAAGAGGGTCCCCCACCTAAGGTTGAACTTAAGAAGagtccatcagtgacacccaggaagcctc
tgcaagctgacagtacttcccatagtcacgaagatgattcatattcggttacttcgtatccttt
cagatatt

									
								

					

						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
						
							AGTCCATCAGTGACACCCAGGAAGCCTCTGCAAGCTGACAGTACTTCCCATAGTCACGAAGATG
ATTCATATTCGGTTACTTCGTATCCTTTCAGATATTGACTTGATTTCTCATGTGTGCCTTATTC
TTCGCAGCCACACCTACACTATTCATAATAGCTACAATTGGGATATAGCTACATGCTTTGAACA
TTTTGTTCCTTGAATTACTAAAACACAGAAAATTTGTCTAACTTTTTCTTTAATGTCTTCAACT
CTTCATAACTGGTGGAAAACTAGAAATATATCATGTTCTCTTTATTTCTATTGGGCTTTCCTGA
GCTTCATTCATCCAGAACTGTAACTTCAGCAAGGACTGGAAAAATTAAGAAGACAACAGTTCCT
GTCGCACCTACTTTTATATGTGGTAATCGTCTTGAGAAGAGGGGAGAGGTACGTATTTAATTTC
ATCATACTGTAGAGAAATGGCTTTGTAAGTTAAAGGGGACAGCATTGTAATAATTATTCTAGTA
CCGTTCAGTTTTACACAAAATTGGAAGAAAAACGCAAGGCCTTGGAAGAGGAGAAACTAGAAGC
TGAGGCAAGAAAAAAGGTAGGTTTTGTTTCTTTTGTCATTTGATTCTTTTAGAGCCATTGTGAT
AGTGGCATACAGAGCAACACAATTATTCATGCTCGGTTTTTCCTATATAATGTAAATCTGTAAA
GTAGCCTTTCTGATGTCATGTCTGAATTGTGTTTTGCTTCAGACATTTTTTACCTCCTCATGAA
TCATGTCTTATCTTTTGAAATTTTGTTATTTGAAATTCAAAAATCTACAGTTCAAATGTTTAAT
TCACACCATTCTATCTAGTTTCACTTTTATGTAAATGGAATCTCAAAGCGTTTTTCGGACTTTG
CAAAAAAGATGAAATAACTGGAATTGCTTTCAGTAGACCATCCCAATTTGGTAGTCTAGTAAAT
GATCCCCAAGACCCCAACTATCATGGCTTTCAATCACCGTTAACGTTGAACTTGAGAACCCTGC
CAGATGACACAACAAAACATGCTGAAAATTCTAGTCTCCCATTGTGATATGGAGCTGTTTAGTA
GTTCAATTGTTTCTGCTTTTTTAAATAGAATAAAGTACATGGGCGGTCCTTAAACTTGTATGGG
TGTGTCATCTAGGTCCCTAAAGTCTCAAAATGCAGATCCAGGTCCTAGAACTTATTAAAGTGTC
AAATAGGTCCCAAATCACCACAGCCCCTCTAGGATCGTACGTACCGCTGATGTGGCATGCCACA
CGGATATGACATGGCATAATCTTAACTGAGAAATGGGACTCACTTAAAAAATTTTCTTTTTTTC
TTCTTTTCTTTTCTTTTTCTTTTTCTTTTTCTTTTCCTTTCTTCTTCCTCTCGCTGCAACTGTA
GGCCAGCACCGCACGGGGTGCTAGGGTCATAGAGTAAGAAGAAGAAAAGAAAAAAAAGAGAAGG
AGAAGAAAGAAAAGGGAAATTTTTAAGTGGGTCCCATTTTTCAGTCAAGATGATGCCACATCAC
ACCCGTGTGGCATGCCACATCAGTGCCACGAAGGATCCTAGAGGAGCTGTGATGAATTGGAACC
TAGATGACACACTTTGACAACTTCTGGGACTTAGATATGCATTTTGAGAGTTTAGGGATCTAAA
TGACACACCTCTATAAGTTTAAGGACCGCCTGTGCACTTTACTCTTTTAAATATATAAGCACCC
ATACCAGATTTTGCTCTTGTTCAGCAAATTAGTTTGCCTTTAATCATGAAATGTCCATCTTGAT
TTGTTTTGGAAAAACTGATGGTCAGAAATCAGTTAGTGTAACTTGACTTGTGGAGGAAACAAGT
ATCATATGTAGGTATCATCCCTTTACAAGACACCGACAGCTGACAGCCCAAGTTTTTTCTCTCT
CTCTAATAGACAGCCCTAATGATATTTCTTACCATGATCAGGGTAGCCCTACAGAGTATTTGAC
ATTGATTATGGCCTGTTACCTGTTATTAGACACCACATGTATAATTTGGATTCACTGAATGGTT
TGTGCTACGTCTTGTTACTGATGACTGTTAATCATTATGTTGCTTTTTCTACACTGTTAGAAAT
TTTATGACATGGCAGTTAGCGTAGTAGACAAGTTGGATCAATTTATTAATTTAACTTTGCATTA
GCAGGGTCATTTTCCCTTTTGCTAATTATTGTTGCCATACCTTCTCACTGTCCAAGTATCAACT
TTTATAGGAAGAGCAAGAAGAAGCTCTGAAACAACTAAGGAAGAATCTGGTTATTAGAGCAAAA
CCCATGCCAAGCTTCTATCAAGAGGGTCCCCCACCTAAGGTTGAACTTAAGAAG
						
					

			
		

Sequences
Splice junction sequence	AGAAGCTCTGAAACAACTAAGGAAGAATCTGGTTATTAGAGCAAAACCCATGCCAAGCTTCTAT CAAGAGGGTCCCCCACCTAAGGTTGAACTTAAGAAGagtccatcagtgacacccaggaagcctc tgcaagctgacagtacttcccatagtcacgaagatgattcatattcggttacttcgtatccttt cagatatt
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	AGTCCATCAGTGACACCCAGGAAGCCTCTGCAAGCTGACAGTACTTCCCATAGTCACGAAGATG ATTCATATTCGGTTACTTCGTATCCTTTCAGATATTGACTTGATTTCTCATGTGTGCCTTATTC TTCGCAGCCACACCTACACTATTCATAATAGCTACAATTGGGATATAGCTACATGCTTTGAACA TTTTGTTCCTTGAATTACTAAAACACAGAAAATTTGTCTAACTTTTTCTTTAATGTCTTCAACT CTTCATAACTGGTGGAAAACTAGAAATATATCATGTTCTCTTTATTTCTATTGGGCTTTCCTGA GCTTCATTCATCCAGAACTGTAACTTCAGCAAGGACTGGAAAAATTAAGAAGACAACAGTTCCT GTCGCACCTACTTTTATATGTGGTAATCGTCTTGAGAAGAGGGGAGAGGTACGTATTTAATTTC ATCATACTGTAGAGAAATGGCTTTGTAAGTTAAAGGGGACAGCATTGTAATAATTATTCTAGTA CCGTTCAGTTTTACACAAAATTGGAAGAAAAACGCAAGGCCTTGGAAGAGGAGAAACTAGAAGC TGAGGCAAGAAAAAAGGTAGGTTTTGTTTCTTTTGTCATTTGATTCTTTTAGAGCCATTGTGAT AGTGGCATACAGAGCAACACAATTATTCATGCTCGGTTTTTCCTATATAATGTAAATCTGTAAA GTAGCCTTTCTGATGTCATGTCTGAATTGTGTTTTGCTTCAGACATTTTTTACCTCCTCATGAA TCATGTCTTATCTTTTGAAATTTTGTTATTTGAAATTCAAAAATCTACAGTTCAAATGTTTAAT TCACACCATTCTATCTAGTTTCACTTTTATGTAAATGGAATCTCAAAGCGTTTTTCGGACTTTG CAAAAAAGATGAAATAACTGGAATTGCTTTCAGTAGACCATCCCAATTTGGTAGTCTAGTAAAT GATCCCCAAGACCCCAACTATCATGGCTTTCAATCACCGTTAACGTTGAACTTGAGAACCCTGC CAGATGACACAACAAAACATGCTGAAAATTCTAGTCTCCCATTGTGATATGGAGCTGTTTAGTA GTTCAATTGTTTCTGCTTTTTTAAATAGAATAAAGTACATGGGCGGTCCTTAAACTTGTATGGG TGTGTCATCTAGGTCCCTAAAGTCTCAAAATGCAGATCCAGGTCCTAGAACTTATTAAAGTGTC AAATAGGTCCCAAATCACCACAGCCCCTCTAGGATCGTACGTACCGCTGATGTGGCATGCCACA CGGATATGACATGGCATAATCTTAACTGAGAAATGGGACTCACTTAAAAAATTTTCTTTTTTTC TTCTTTTCTTTTCTTTTTCTTTTTCTTTTTCTTTTCCTTTCTTCTTCCTCTCGCTGCAACTGTA GGCCAGCACCGCACGGGGTGCTAGGGTCATAGAGTAAGAAGAAGAAAAGAAAAAAAAGAGAAGG AGAAGAAAGAAAAGGGAAATTTTTAAGTGGGTCCCATTTTTCAGTCAAGATGATGCCACATCAC ACCCGTGTGGCATGCCACATCAGTGCCACGAAGGATCCTAGAGGAGCTGTGATGAATTGGAACC TAGATGACACACTTTGACAACTTCTGGGACTTAGATATGCATTTTGAGAGTTTAGGGATCTAAA TGACACACCTCTATAAGTTTAAGGACCGCCTGTGCACTTTACTCTTTTAAATATATAAGCACCC ATACCAGATTTTGCTCTTGTTCAGCAAATTAGTTTGCCTTTAATCATGAAATGTCCATCTTGAT TTGTTTTGGAAAAACTGATGGTCAGAAATCAGTTAGTGTAACTTGACTTGTGGAGGAAACAAGT ATCATATGTAGGTATCATCCCTTTACAAGACACCGACAGCTGACAGCCCAAGTTTTTTCTCTCT CTCTAATAGACAGCCCTAATGATATTTCTTACCATGATCAGGGTAGCCCTACAGAGTATTTGAC ATTGATTATGGCCTGTTACCTGTTATTAGACACCACATGTATAATTTGGATTCACTGAATGGTT TGTGCTACGTCTTGTTACTGATGACTGTTAATCATTATGTTGCTTTTTCTACACTGTTAGAAAT TTTATGACATGGCAGTTAGCGTAGTAGACAAGTTGGATCAATTTATTAATTTAACTTTGCATTA GCAGGGTCATTTTCCCTTTTGCTAATTATTGTTGCCATACCTTCTCACTGTCCAAGTATCAACT TTTATAGGAAGAGCAAGAAGAAGCTCTGAAACAACTAAGGAAGAATCTGGTTATTAGAGCAAAA CCCATGCCAAGCTTCTATCAAGAGGGTCCCCCACCTAAGGTTGAACTTAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007070* osi_circ_017597 						
					
						PMCS
						0.105397028

Conservation Information
Conserved circRNAs	osi_circ_007070* osi_circ_017597
PMCS	0.105397028

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4535511-4535557(+)
4533274-4535555(-)
						
						Potential amino acid sequence
						
							MPSFYQEGPPPKVELKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAP
TFICGNRLEKRGEFYTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQE
GPPPKVELKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAPTFICGNR
LEKRGEFYTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQEGPPPKVE
LKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAPTFICGNRLEKRGEF
YTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQEGPPPKVELKK(+)
MNHLRDYGKYCQLAEASWVSLMDSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4535511-4535557(+) 4533274-4535555(-)
Potential amino acid sequence	MPSFYQEGPPPKVELKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAP TFICGNRLEKRGEFYTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQE GPPPKVELKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAPTFICGNR LEKRGEFYTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQEGPPPKVE LKKSPSVTPRKPLQADSTSHSHEDDSYSVTSTVTSARTGKIKKTTVPVAPTFICGNRLEKRGEF YTKLEEKRKALEEEKLEAEARKKEEQEEALKQLRKNLVIRAKPMPSFYQEGPPPKVELKK(+) MNHLRDYGKYCQLAEASWVSLMDSS*(-)
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 Os07g0185432_circ_g.3

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