Plant Circular RNA Database

Detail information of Os04g0394700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0394700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_023647
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 19413146-19414756  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0394700						
					
						Parent gene annotation
						
							BAR domain containing protein. (Os04t0394700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0394700_circ_g.2 Os04g0394700_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os04t0394700-01:7

General Information
CircRNA Name	Os04g0394700_circ_g.1
ID in PlantcircBase	osa_circ_023647
Alias	NA
Organism	Oryza sativa
Position	chr4: 19413146-19414756 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0394700
Parent gene annotation	BAR domain containing protein. (Os04t0394700-01)
Parent gene strand	+
Alternative splicing	Os04g0394700_circ_g.2 Os04g0394700_circ_g.3
Support reads	1
Tissues	shoot
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	Os04t0394700-01:7

			
						 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  
						
							CTCTTACCAGGGCAATCAAAGTGATGACAGTGAGTTAAGTTTTGACTATGAGATAAATGACAGG
GATAAGGACTTCCCCGCTTCCAGAAGTTCAATGGATgaaatggaggaaatgaggaattgttatg
acagcttgctttcagctgcagctgcaacaatgaacagtgtatatggtaggttatgatcttttca
tatgtgaa

									
								

					

						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: 750
Transcript exons: 19413146-19413218,19413342-19413419,19413678-19413739,19
413859-19413927,19414127-19414155,19414239-19414446,1941
4526-19414756
GAAATGGAGGAAATGAGGAATTGTTATGACAGCTTGCTTTCAGCTGCAGCTGCAACAATGAACA
GTGTATATGAGTTTGCAGAAGCTATGGAGGAAATGGGAACTTGCTTACTTGAGAAAACTGCATT
GAATTATGATGATGATGACAGTGGCAGAGTTCTGATGATGCTAGGAAAGGCCCAATTCGAACTG
CAGAAGTTTGTTGATAACTATCGTACAAATATCATAAATACCATCACAAACCCATCAGAGTCAC
TTCTCAAAGAGCTACAAGTTGTAGAGGAAATGAAGGAACTCTGTGATCATAAAAGACAGGAATA
TGAAGCCATGCGAGCAGCCTATAGAGAGAAAGGACGGTCAAGGCATTCCAAAACCGAAACATTA
TCCTCGGAACAGCTGCAAGCTTATTTTCTTGACTATCAAGAGGATGCAGCATTGTTTATATTCC
GATTGAAATCATTGAAGCAAGGTCAATTCCGTAGTATTTTAACACAGGCTGCTCGCCACCATTC
TGCTCAGTTGAGTTTTTTCAGGCGAGGGTTGAAGTATCTAGAGGCTCTGGAACCTCATGTAAAA
GCAGTTGCTGAGAAACAGCACATTGAATACCCTTTAAATGGACTAGATGACGACACAGATAATG
ATGAGTACAGCTCTTACCAGGGCAATCAAAGTGATGACAGTGAGTTAAGTTTTGACTATGAGAT
AAATGACAGGGATAAGGACTTCCCCGCTTCCAGAAGTTCAATGGAT
						
					

						Genomic sequence
						
							GAAATGGAGGAAATGAGGAATTGTTATGACAGCTTGCTTTCAGCTGCAGCTGCAACAATGAACA
GTGTATATGGTAGGTTATGATCTTTTCATATGTGAAGTTACATTTCTAATAAACAACATTGCCT
CCATTGGTATAACGGAATAGCTTATTCATGTAACAGTTTCATAATTAGTTGTAATCAAACACAT
GCAGAGTTTGCAGAAGCTATGGAGGAAATGGGAACTTGCTTACTTGAGAAAACTGCATTGAATT
ATGATGATGATGACAGTGGTGAGTTGTCTGGGTCTATACGCTATAAGATGTGGAAGCTTGTAAG
GGAGCAATTATTATTAGCGGTGTTTGTAGGACAGTACATTTCTAGACATAGAGTTGGTCTGGCA
TGTTTCCACACTTCTGTTTTTCCTTCGAAATTGCCAGGCTGTTCATTAAGATCATCAAATGAAG
AATTCCTGTGTTATTTTTTCCTTAGTTATAGAAGTATTTGGTCTTCTTTGCTGTATTTATTTTG
TTTTGCACTTTTACCTGCAGGCAGAGTTCTGATGATGCTAGGAAAGGCCCAATTCGAACTGCAG
AAGTTTGTTGATAACTATGTAAATTTCTTTGCTACTCTTGTAAAACTGCACTGAAATTTAGTCT
CACACCTGTTTAAGAGAATCACAATTTTTTCCAAACTTTGTTAAGTCTGACTATATTTTATTAA
TGTTTTCAGCGTACAAATATCATAAATACCATCACAAACCCATCAGAGTCACTTCTCAAAGAGC
TACAAGTTGTAGAGGTTCGATCTATTTCAGTTTTCCCCTGATCCTTCCTAAGTATTGTACATTA
TGGATGCTCATATTCAAGCAGGATTATTGTTAATTTGGTGCCATATATTACTCATATTTTTTTC
TGAATAAAAATGAGTTACATTCCTTTTGCTTAATTTGTGATTTTTATAATATGATGTCGTTTAC
ATTGCATTCTTACTGACGCAGGAAATGAAGGAACTCTGTGATCATAAAAGGTACACAATCTACT
TGAATTTAATCACATGTATATTGCTTCTGTGGTCTCTTCTAAATGCTACCATATTATTTTGGGC
TTCAGACAGGAATATGAAGCCATGCGAGCAGCCTATAGAGAGAAAGGACGGTCAAGGCATTCCA
AAACCGAAACATTATCCTCGGAACAGCTGCAAGCTTATTTTCTTGACTATCAAGAGGATGCAGC
ATTGTTTATATTCCGATTGAAATCATTGAAGCAAGGTCAATTCCGTAGTATTTTAACACAGGCT
GCTCGCCACCATTCTGCTCAGGTACTTTAACACTACTTCACATAAAACTAATATTGACTCACAC
ACAGTAGCATGCACTTACCATTATTTGGACTTTTAGTTGAGTTTTTTCAGGCGAGGGTTGAAGT
ATCTAGAGGCTCTGGAACCTCATGTAAAAGCAGTTGCTGAGAAACAGCACATTGAATACCCTTT
AAATGGACTAGATGACGACACAGATAATGATGAGTACAGCTCTTACCAGGGCAATCAAAGTGAT
GACAGTGAGTTAAGTTTTGACTATGAGATAAATGACAGGGATAAGGACTTCCCCGCTTCCAGAA
GTTCAATGGAT
						
					

			
		

Sequences
Splice junction sequence	CTCTTACCAGGGCAATCAAAGTGATGACAGTGAGTTAAGTTTTGACTATGAGATAAATGACAGG GATAAGGACTTCCCCGCTTCCAGAAGTTCAATGGATgaaatggaggaaatgaggaattgttatg acagcttgctttcagctgcagctgcaacaatgaacagtgtatatggtaggttatgatcttttca tatgtgaa
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: 750 Transcript exons: 19413146-19413218,19413342-19413419,19413678-19413739,19 413859-19413927,19414127-19414155,19414239-19414446,1941 4526-19414756 GAAATGGAGGAAATGAGGAATTGTTATGACAGCTTGCTTTCAGCTGCAGCTGCAACAATGAACA GTGTATATGAGTTTGCAGAAGCTATGGAGGAAATGGGAACTTGCTTACTTGAGAAAACTGCATT GAATTATGATGATGATGACAGTGGCAGAGTTCTGATGATGCTAGGAAAGGCCCAATTCGAACTG CAGAAGTTTGTTGATAACTATCGTACAAATATCATAAATACCATCACAAACCCATCAGAGTCAC TTCTCAAAGAGCTACAAGTTGTAGAGGAAATGAAGGAACTCTGTGATCATAAAAGACAGGAATA TGAAGCCATGCGAGCAGCCTATAGAGAGAAAGGACGGTCAAGGCATTCCAAAACCGAAACATTA TCCTCGGAACAGCTGCAAGCTTATTTTCTTGACTATCAAGAGGATGCAGCATTGTTTATATTCC GATTGAAATCATTGAAGCAAGGTCAATTCCGTAGTATTTTAACACAGGCTGCTCGCCACCATTC TGCTCAGTTGAGTTTTTTCAGGCGAGGGTTGAAGTATCTAGAGGCTCTGGAACCTCATGTAAAA GCAGTTGCTGAGAAACAGCACATTGAATACCCTTTAAATGGACTAGATGACGACACAGATAATG ATGAGTACAGCTCTTACCAGGGCAATCAAAGTGATGACAGTGAGTTAAGTTTTGACTATGAGAT AAATGACAGGGATAAGGACTTCCCCGCTTCCAGAAGTTCAATGGAT
Genomic sequence	GAAATGGAGGAAATGAGGAATTGTTATGACAGCTTGCTTTCAGCTGCAGCTGCAACAATGAACA GTGTATATGGTAGGTTATGATCTTTTCATATGTGAAGTTACATTTCTAATAAACAACATTGCCT CCATTGGTATAACGGAATAGCTTATTCATGTAACAGTTTCATAATTAGTTGTAATCAAACACAT GCAGAGTTTGCAGAAGCTATGGAGGAAATGGGAACTTGCTTACTTGAGAAAACTGCATTGAATT ATGATGATGATGACAGTGGTGAGTTGTCTGGGTCTATACGCTATAAGATGTGGAAGCTTGTAAG GGAGCAATTATTATTAGCGGTGTTTGTAGGACAGTACATTTCTAGACATAGAGTTGGTCTGGCA TGTTTCCACACTTCTGTTTTTCCTTCGAAATTGCCAGGCTGTTCATTAAGATCATCAAATGAAG AATTCCTGTGTTATTTTTTCCTTAGTTATAGAAGTATTTGGTCTTCTTTGCTGTATTTATTTTG TTTTGCACTTTTACCTGCAGGCAGAGTTCTGATGATGCTAGGAAAGGCCCAATTCGAACTGCAG AAGTTTGTTGATAACTATGTAAATTTCTTTGCTACTCTTGTAAAACTGCACTGAAATTTAGTCT CACACCTGTTTAAGAGAATCACAATTTTTTCCAAACTTTGTTAAGTCTGACTATATTTTATTAA TGTTTTCAGCGTACAAATATCATAAATACCATCACAAACCCATCAGAGTCACTTCTCAAAGAGC TACAAGTTGTAGAGGTTCGATCTATTTCAGTTTTCCCCTGATCCTTCCTAAGTATTGTACATTA TGGATGCTCATATTCAAGCAGGATTATTGTTAATTTGGTGCCATATATTACTCATATTTTTTTC TGAATAAAAATGAGTTACATTCCTTTTGCTTAATTTGTGATTTTTATAATATGATGTCGTTTAC ATTGCATTCTTACTGACGCAGGAAATGAAGGAACTCTGTGATCATAAAAGGTACACAATCTACT TGAATTTAATCACATGTATATTGCTTCTGTGGTCTCTTCTAAATGCTACCATATTATTTTGGGC TTCAGACAGGAATATGAAGCCATGCGAGCAGCCTATAGAGAGAAAGGACGGTCAAGGCATTCCA AAACCGAAACATTATCCTCGGAACAGCTGCAAGCTTATTTTCTTGACTATCAAGAGGATGCAGC ATTGTTTATATTCCGATTGAAATCATTGAAGCAAGGTCAATTCCGTAGTATTTTAACACAGGCT GCTCGCCACCATTCTGCTCAGGTACTTTAACACTACTTCACATAAAACTAATATTGACTCACAC ACAGTAGCATGCACTTACCATTATTTGGACTTTTAGTTGAGTTTTTTCAGGCGAGGGTTGAAGT ATCTAGAGGCTCTGGAACCTCATGTAAAAGCAGTTGCTGAGAAACAGCACATTGAATACCCTTT AAATGGACTAGATGACGACACAGATAATGATGAGTACAGCTCTTACCAGGGCAATCAAAGTGAT GACAGTGAGTTAAGTTTTGACTATGAGATAAATGACAGGGATAAGGACTTCCCCGCTTCCAGAA GTTCAATGGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005415* 						
					
						PMCS
						0.164830685

Conservation Information
Conserved circRNAs	osi_circ_005415*
PMCS	0.164830685

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19413150-19414753(+)
						
						Potential amino acid sequence
						
							MEEMRNCYDSLLSAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQ
KFVDNYRTNIINTITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLS
SEQLQAYFLDYQEDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKA
VAEKQHIEYPLNGLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRN
CYDSLLSAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNY
RTNIINTITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQA
YFLDYQEDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQH
IEYPLNGLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRNCYDSLL
SAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNYRTNIIN
TITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQAYFLDYQ
EDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQHIEYPLN
GLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRNCYDSLLSAAAAT
MNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNYRTNIINTITNPS
ESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQAYFLDYQEDAALF
IFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQHIEYPLNGLDDDT
DNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMD(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19413150-19414753(+)
Potential amino acid sequence	MEEMRNCYDSLLSAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQ KFVDNYRTNIINTITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLS SEQLQAYFLDYQEDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKA VAEKQHIEYPLNGLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRN CYDSLLSAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNY RTNIINTITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQA YFLDYQEDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQH IEYPLNGLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRNCYDSLL SAAAATMNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNYRTNIIN TITNPSESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQAYFLDYQ EDAALFIFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQHIEYPLN GLDDDTDNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMDEMEEMRNCYDSLLSAAAAT MNSVYEFAEAMEEMGTCLLEKTALNYDDDDSGRVLMMLGKAQFELQKFVDNYRTNIINTITNPS ESLLKELQVVEEMKELCDHKRQEYEAMRAAYREKGRSRHSKTETLSSEQLQAYFLDYQEDAALF IFRLKSLKQGQFRSILTQAARHHSAQLSFFRRGLKYLEALEPHVKAVAEKQHIEYPLNGLDDDT DNDEYSSYQGNQSDDSELSFDYEINDRDKDFPASRSSMD(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0394700_circ_g.1

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