Plant Circular RNA Database

Detail information of Os12g0528300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0528300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_011843
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 20833667-20835418  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0528300						
					
						Parent gene annotation
						
							Similar to Adaptor complexes medium subunit family protein, expr
essed. (Os12t0528300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0528300_circ_g.2 Os12g0528300_circ_g.3 						
					
						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  
						
							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
						Os12t0528300-01:3

General Information
CircRNA Name	Os12g0528300_circ_g.1
ID in PlantcircBase	osa_circ_011843
Alias	NA
Organism	Oryza sativa
Position	chr12: 20833667-20835418 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0528300
Parent gene annotation	Similar to Adaptor complexes medium subunit family protein, expr essed. (Os12t0528300-01)
Parent gene strand	+
Alternative splicing	Os12g0528300_circ_g.2 Os12g0528300_circ_g.3
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	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	Os12t0528300-01:3

			
						 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  
						
							TGCCAATTTGGATGACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAA
GAGCCATTGTCCTGGCAAGCTTATAATTATGCTAAGggaaggcacggcgcgtggttctggaatc
cgtacgagcatgtcatctgctgggtcggattcgtgggttgatgatccaatcactcgccacatta
tatcactc

									
								

					

						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: 1494
Transcript exons: 20833667-20833980,20834130-20834413,20834523-20835418
GGAAGGCACGGCGCGTGGTTCTGGAATCCGTACGAGCATGTCATCTGCTGGGTCGGATTCGTGG
GTTGATGATCCAATCACTCGCCACATTATATCACTCCATATTGATAAAGAGGAAGGAGAGGGGT
TTATGCTGTGGCCTGTGGTTCTTCAGAAGCGGGGTAGCTATTATATCCTTGTGTTGCCTTTGGT
GGATCCTCAATCATTTAAAGCATATGAAAGCCTCTTGAAAAGGTCGGACTGCGGGAGTTCTGCC
AAGGAGAAGGGCAATCTTTCTTCCATTCTGCTCAACCTTCCATGCATAACAGGGTAATGGCATT
AATGGTTGCACATGTTATTGGGGACATAATTACTGGTGATACCGCTGAGCCTGAGGTGATCGTT
AGTACTGGCCCCTCTGTTGGTGGGCTGTTAGATTCATTGACAGGAAGTATAGGTATTTCTGCTC
GACCAAAACCTATTGCTGCACCTGTCGCAGCCCCGACCGCATCAATTTCTTCACCTGTTGGTGC
TCCTCAGTCGGAGTCTCTGAAAGGTGGTATGAGGCCTTTTGACAAGGATTTACTACGGAATTTC
ATCCTTGGTGCGATGCCTTTTGGAACACCTCAGGATCTTAATTATGCCAATGTTACTTCGGTAA
GAACAACTGGGTTTTCCGCTGATCCTCTACCTACAGACCAGAAGCAGCCTGCCTGGAAACCTTA
TCTGTACAAAGGGAGACAAAGGACTCTCTTCTCAAGCCTAGAGACTTTAAATGCTGCACTATAT
GACCGTGATGATGTGCAAGATTTCCTTTCGGTTTCTGGACAAGTGACATGTAGGGCTGAGCTAG
AAGGTTTACCTGATGTTTCTTTGCCATTGTCTGGGTTAAAAGCTGCTCGTGTGGAGGTTTCATC
GTTCCATCACTGTGTGCAAGCTTCAGAGCCTACCAATGATAAGCAAACTCTAATATTTCAACCA
CCACTAGGAAATTTTGTTTTGATGCACTATCAAGCTTCATGCAACATGGACCCACCTGTTAAAG
GTTTCTACCAGTTGTCTATGGTGTCTGAGAATGAAGGTGCTTTTCTATTTAAGCTGAGATTGAT
GGAGGGTTACAAATCTCCCTTTCTTATGGAATTTTGCATGGTTACAATGCCGTTTCCTCGAAGA
CGAGTTGCATCATATGATGGAAATCCATCTGTTGGGACAGTTTCAATGACAGAACATTCAATTG
AATGGAGAATCGTTTCAAGCGGTCGGGGCCTCAGTGGAAGGAGCATTGAGGCTACCTTCTCTGG
TACTGTTAGATTCCATCCTATAACAATCCAGCGAGTAAATTCATCATTTCGATCAGTTCCAAGC
ACTGCATTTGTTGAAGATAGTGATAGTGAACAAGACAATACTAAGAATGGTGCCAATTTGGATG
ACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAAGAGCCATTGTCCTG
GCAAGCTTATAATTATGCTAAG
						
					

						Genomic sequence
						
							GGAAGGCACGGCGCGTGGTTCTGGAATCCGTACGAGCATGTCATCTGCTGGGTCGGATTCGTGG
GTTGATGATCCAATCACTCGCCACATTATATCACTCCATATTGATAAAGAGGAAGGAGAGGGGT
TTATGCTGTGGCCTGTGGTTCTTCAGAAGCGGGGTAGCTATTATATCCTTGTGTTGCCTTTGGT
GGATCCTCAATCATTTAAAGCATATGAAAGCCTCTTGAAAAGGTCGGACTGCGGGAGTTCTGCC
AAGGAGAAGGGCAATCTTTCTTCCATTCTGCTCAACCTTCCATGCATAACAGGGTAATGTAAGT
TTGCCTACCTATCATGTTGTCTGAGTCTCACCATCTTTCCGAGATTACATGGAAATGTTTTTGT
CAGTGCTATACTGCTAAAGTCATCAACCAATTTATGGGTGTTCATGGCTTGCACTCTTACACTT
CATTTTCCATGGCAGGGCATTAATGGTTGCACATGTTATTGGGGACATAATTACTGGTGATACC
GCTGAGCCTGAGGTGATCGTTAGTACTGGCCCCTCTGTTGGTGGGCTGTTAGATTCATTGACAG
GAAGTATAGGTATTTCTGCTCGACCAAAACCTATTGCTGCACCTGTCGCAGCCCCGACCGCATC
AATTTCTTCACCTGTTGGTGCTCCTCAGTCGGAGTCTCTGAAAGGTGGTATGAGGCCTTTTGAC
AAGGATTTACTACGGAATTTCATCCTTGGTGCGATGCCTTTTGGTTAGTATCAACATAGCCTTC
TATCATGGAGCTAACATACTATGCTCATCAATTTCTTTTTGGATCTGTTTATGCATTTGCCAAC
TTAGCTAGCAATAAAATTTGACAGGAACACCTCAGGATCTTAATTATGCCAATGTTACTTCGGT
AAGAACAACTGGGTTTTCCGCTGATCCTCTACCTACAGACCAGAAGCAGCCTGCCTGGAAACCT
TATCTGTACAAAGGGAGACAAAGGACTCTCTTCTCAAGCCTAGAGACTTTAAATGCTGCACTAT
ATGACCGTGATGATGTGCAAGATTTCCTTTCGGTTTCTGGACAAGTGACATGTAGGGCTGAGCT
AGAAGGTTTACCTGATGTTTCTTTGCCATTGTCTGGGTTAAAAGCTGCTCGTGTGGAGGTTTCA
TCGTTCCATCACTGTGTGCAAGCTTCAGAGCCTACCAATGATAAGCAAACTCTAATATTTCAAC
CACCACTAGGAAATTTTGTTTTGATGCACTATCAAGCTTCATGCAACATGGACCCACCTGTTAA
AGGTTTCTACCAGTTGTCTATGGTGTCTGAGAATGAAGGTGCTTTTCTATTTAAGCTGAGATTG
ATGGAGGGTTACAAATCTCCCTTTCTTATGGAATTTTGCATGGTTACAATGCCGTTTCCTCGAA
GACGAGTTGCATCATATGATGGAAATCCATCTGTTGGGACAGTTTCAATGACAGAACATTCAAT
TGAATGGAGAATCGTTTCAAGCGGTCGGGGCCTCAGTGGAAGGAGCATTGAGGCTACCTTCTCT
GGTACTGTTAGATTCCATCCTATAACAATCCAGCGAGTAAATTCATCATTTCGATCAGTTCCAA
GCACTGCATTTGTTGAAGATAGTGATAGTGAACAAGACAATACTAAGAATGGTGCCAATTTGGA
TGACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAAGAGCCATTGTCC
TGGCAAGCTTATAATTATGCTAAG
						
					

			
		

Sequences
Splice junction sequence	TGCCAATTTGGATGACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAA GAGCCATTGTCCTGGCAAGCTTATAATTATGCTAAGggaaggcacggcgcgtggttctggaatc cgtacgagcatgtcatctgctgggtcggattcgtgggttgatgatccaatcactcgccacatta tatcactc
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: 1494 Transcript exons: 20833667-20833980,20834130-20834413,20834523-20835418 GGAAGGCACGGCGCGTGGTTCTGGAATCCGTACGAGCATGTCATCTGCTGGGTCGGATTCGTGG GTTGATGATCCAATCACTCGCCACATTATATCACTCCATATTGATAAAGAGGAAGGAGAGGGGT TTATGCTGTGGCCTGTGGTTCTTCAGAAGCGGGGTAGCTATTATATCCTTGTGTTGCCTTTGGT GGATCCTCAATCATTTAAAGCATATGAAAGCCTCTTGAAAAGGTCGGACTGCGGGAGTTCTGCC AAGGAGAAGGGCAATCTTTCTTCCATTCTGCTCAACCTTCCATGCATAACAGGGTAATGGCATT AATGGTTGCACATGTTATTGGGGACATAATTACTGGTGATACCGCTGAGCCTGAGGTGATCGTT AGTACTGGCCCCTCTGTTGGTGGGCTGTTAGATTCATTGACAGGAAGTATAGGTATTTCTGCTC GACCAAAACCTATTGCTGCACCTGTCGCAGCCCCGACCGCATCAATTTCTTCACCTGTTGGTGC TCCTCAGTCGGAGTCTCTGAAAGGTGGTATGAGGCCTTTTGACAAGGATTTACTACGGAATTTC ATCCTTGGTGCGATGCCTTTTGGAACACCTCAGGATCTTAATTATGCCAATGTTACTTCGGTAA GAACAACTGGGTTTTCCGCTGATCCTCTACCTACAGACCAGAAGCAGCCTGCCTGGAAACCTTA TCTGTACAAAGGGAGACAAAGGACTCTCTTCTCAAGCCTAGAGACTTTAAATGCTGCACTATAT GACCGTGATGATGTGCAAGATTTCCTTTCGGTTTCTGGACAAGTGACATGTAGGGCTGAGCTAG AAGGTTTACCTGATGTTTCTTTGCCATTGTCTGGGTTAAAAGCTGCTCGTGTGGAGGTTTCATC GTTCCATCACTGTGTGCAAGCTTCAGAGCCTACCAATGATAAGCAAACTCTAATATTTCAACCA CCACTAGGAAATTTTGTTTTGATGCACTATCAAGCTTCATGCAACATGGACCCACCTGTTAAAG GTTTCTACCAGTTGTCTATGGTGTCTGAGAATGAAGGTGCTTTTCTATTTAAGCTGAGATTGAT GGAGGGTTACAAATCTCCCTTTCTTATGGAATTTTGCATGGTTACAATGCCGTTTCCTCGAAGA CGAGTTGCATCATATGATGGAAATCCATCTGTTGGGACAGTTTCAATGACAGAACATTCAATTG AATGGAGAATCGTTTCAAGCGGTCGGGGCCTCAGTGGAAGGAGCATTGAGGCTACCTTCTCTGG TACTGTTAGATTCCATCCTATAACAATCCAGCGAGTAAATTCATCATTTCGATCAGTTCCAAGC ACTGCATTTGTTGAAGATAGTGATAGTGAACAAGACAATACTAAGAATGGTGCCAATTTGGATG ACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAAGAGCCATTGTCCTG GCAAGCTTATAATTATGCTAAG
Genomic sequence	GGAAGGCACGGCGCGTGGTTCTGGAATCCGTACGAGCATGTCATCTGCTGGGTCGGATTCGTGG GTTGATGATCCAATCACTCGCCACATTATATCACTCCATATTGATAAAGAGGAAGGAGAGGGGT TTATGCTGTGGCCTGTGGTTCTTCAGAAGCGGGGTAGCTATTATATCCTTGTGTTGCCTTTGGT GGATCCTCAATCATTTAAAGCATATGAAAGCCTCTTGAAAAGGTCGGACTGCGGGAGTTCTGCC AAGGAGAAGGGCAATCTTTCTTCCATTCTGCTCAACCTTCCATGCATAACAGGGTAATGTAAGT TTGCCTACCTATCATGTTGTCTGAGTCTCACCATCTTTCCGAGATTACATGGAAATGTTTTTGT CAGTGCTATACTGCTAAAGTCATCAACCAATTTATGGGTGTTCATGGCTTGCACTCTTACACTT CATTTTCCATGGCAGGGCATTAATGGTTGCACATGTTATTGGGGACATAATTACTGGTGATACC GCTGAGCCTGAGGTGATCGTTAGTACTGGCCCCTCTGTTGGTGGGCTGTTAGATTCATTGACAG GAAGTATAGGTATTTCTGCTCGACCAAAACCTATTGCTGCACCTGTCGCAGCCCCGACCGCATC AATTTCTTCACCTGTTGGTGCTCCTCAGTCGGAGTCTCTGAAAGGTGGTATGAGGCCTTTTGAC AAGGATTTACTACGGAATTTCATCCTTGGTGCGATGCCTTTTGGTTAGTATCAACATAGCCTTC TATCATGGAGCTAACATACTATGCTCATCAATTTCTTTTTGGATCTGTTTATGCATTTGCCAAC TTAGCTAGCAATAAAATTTGACAGGAACACCTCAGGATCTTAATTATGCCAATGTTACTTCGGT AAGAACAACTGGGTTTTCCGCTGATCCTCTACCTACAGACCAGAAGCAGCCTGCCTGGAAACCT TATCTGTACAAAGGGAGACAAAGGACTCTCTTCTCAAGCCTAGAGACTTTAAATGCTGCACTAT ATGACCGTGATGATGTGCAAGATTTCCTTTCGGTTTCTGGACAAGTGACATGTAGGGCTGAGCT AGAAGGTTTACCTGATGTTTCTTTGCCATTGTCTGGGTTAAAAGCTGCTCGTGTGGAGGTTTCA TCGTTCCATCACTGTGTGCAAGCTTCAGAGCCTACCAATGATAAGCAAACTCTAATATTTCAAC CACCACTAGGAAATTTTGTTTTGATGCACTATCAAGCTTCATGCAACATGGACCCACCTGTTAA AGGTTTCTACCAGTTGTCTATGGTGTCTGAGAATGAAGGTGCTTTTCTATTTAAGCTGAGATTG ATGGAGGGTTACAAATCTCCCTTTCTTATGGAATTTTGCATGGTTACAATGCCGTTTCCTCGAA GACGAGTTGCATCATATGATGGAAATCCATCTGTTGGGACAGTTTCAATGACAGAACATTCAAT TGAATGGAGAATCGTTTCAAGCGGTCGGGGCCTCAGTGGAAGGAGCATTGAGGCTACCTTCTCT GGTACTGTTAGATTCCATCCTATAACAATCCAGCGAGTAAATTCATCATTTCGATCAGTTCCAA GCACTGCATTTGTTGAAGATAGTGATAGTGAACAAGACAATACTAAGAATGGTGCCAATTTGGA TGACTACCTCATGGAAAAAATGAATAAGGACCTTCAAGCAGTTAACTTGGAAGAGCCATTGTCC TGGCAAGCTTATAATTATGCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.593799521

Conservation Information
Conserved circRNAs	NA
PMCS	0.593799521

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20833965-20833732(+)
20835412-20833976(+)
20833758-20835259(-)
						
						Potential amino acid sequence
						
							MHNRVMALMVAHVIGDIITGDTAEPEVIVSTGPSVGGLLDSLTGSIGISARPKPIAAPVAAPTA
SISSPVGAPQSESLKGGMRPFDKDLLRNFILGAMPFGTPQDLNYANVTSVRTTGFSADPLPTDQ
KQPAWKPYLYKGRQRTLFSSLETLNAALYDRDDVQDFLSVSGQVTCRAELEGLPDVSLPLSGLK
AARVEVSSFHHCVQASEPTNDKQTLIFQPPLGNFVLMHYQASCNMDPPVKGFYQLSMVSENEGA
FLFKLRLMEGYKSPFLMEFCMVTMPFPRRRVASYDGNPSVGTVSMTEHSIEWRIVSSGRGLSGR
SIEATFSGTVRFHPITIQRVNSSFRSVPSTAFVEDSDSEQDNTKNGANLDDYLMEKMNKDLQAV
NLEEPLSWQAYNYAKGRHGAWFWNPYEHVICWVGFVG*(+)
MLREGTARGSGIRTSMSSAGSDSWVDDPITRHIISLHIDKEEGEGFMLWPVVLQKRGSYYILVL
PLVDPQSFKAYESLLKRSDCGSSAKEKGNLSSILLNLPCITG*(+)
MWRVIGSSTHESDPADDMLVRIPEPRAVPSLSIIISLPGQWLFQVNCLKVLIHFFHEVVIQIGT
ILSIVLFTITIFNKCSAWN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20833965-20833732(+) 20835412-20833976(+) 20833758-20835259(-)
Potential amino acid sequence	MHNRVMALMVAHVIGDIITGDTAEPEVIVSTGPSVGGLLDSLTGSIGISARPKPIAAPVAAPTA SISSPVGAPQSESLKGGMRPFDKDLLRNFILGAMPFGTPQDLNYANVTSVRTTGFSADPLPTDQ KQPAWKPYLYKGRQRTLFSSLETLNAALYDRDDVQDFLSVSGQVTCRAELEGLPDVSLPLSGLK AARVEVSSFHHCVQASEPTNDKQTLIFQPPLGNFVLMHYQASCNMDPPVKGFYQLSMVSENEGA FLFKLRLMEGYKSPFLMEFCMVTMPFPRRRVASYDGNPSVGTVSMTEHSIEWRIVSSGRGLSGR SIEATFSGTVRFHPITIQRVNSSFRSVPSTAFVEDSDSEQDNTKNGANLDDYLMEKMNKDLQAV NLEEPLSWQAYNYAKGRHGAWFWNPYEHVICWVGFVG(+) MLREGTARGSGIRTSMSSAGSDSWVDDPITRHIISLHIDKEEGEGFMLWPVVLQKRGSYYILVL PLVDPQSFKAYESLLKRSDCGSSAKEKGNLSSILLNLPCITG(+) MWRVIGSSTHESDPADDMLVRIPEPRAVPSLSIIISLPGQWLFQVNCLKVLIHFFHEVVIQIGT ILSIVLFTITIFNKCSAWN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0528300_circ_g.1

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