Plant Circular RNA Database

Detail information of Os12g0429200_circ_g.20

			
						 General Information
					
						CircRNA Name
						Os12g0429200_circ_g.20
					
						ID in PlantcircBase
						osa_circ_011357
					
						Alias
						Os_ciR1259
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 13776133-13781251  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os12g0429200						
					
						Parent gene annotation
						
							Similar to Relative to SR12 protein (Fragment). (Os12t0429200-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0429200_circ_g.2 Os12g0429200_circ_g.3 Os12g0429200_circ_g.4 Os12g0429200_circ_g.5 Os12g0429200_circ_g.6 Os12g0429200_circ_g.7 Os12g0429200_circ_g.8 Os12g0429200_circ_g.9 Os12g0429200_circ_g.10 Os12g0429200_circ_g.11 Os12g0429200_circ_g.12 Os12g0429200_circ_g.13 Os12g0429200_circ_g.14 Os12g0429200_circ_g.15 Os12g0429200_circ_g.16 Os12g0429200_circ_g.17 Os12g0429200_circ_g.18 Os12g0429200_circ_g.19 Os12g0429200_circ_g.21 Os12g0429200_circ_g.22 Os12g0429200_circ_g.23 Os12g0429200_circ_g.24 Os12g0429200_circ_g.25 Os12g0429200_circ_g.26 Os12g0429200_circ_g.27 Os12g0429200_circ_g.28 Os12g0429200_circ_g.29 Os12g0429200_circ_g.30 						
					
						Support reads
						12/2
					
						Tissues
						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  
						
							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
						Os12t0429200-01:10

General Information
CircRNA Name	Os12g0429200_circ_g.20
ID in PlantcircBase	osa_circ_011357
Alias	Os_ciR1259
Organism	Oryza sativa
Position	chr12: 13776133-13781251 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os12g0429200
Parent gene annotation	Similar to Relative to SR12 protein (Fragment). (Os12t0429200-01 )
Parent gene strand	-
Alternative splicing	Os12g0429200_circ_g.2 Os12g0429200_circ_g.3 Os12g0429200_circ_g.4 Os12g0429200_circ_g.5 Os12g0429200_circ_g.6 Os12g0429200_circ_g.7 Os12g0429200_circ_g.8 Os12g0429200_circ_g.9 Os12g0429200_circ_g.10 Os12g0429200_circ_g.11 Os12g0429200_circ_g.12 Os12g0429200_circ_g.13 Os12g0429200_circ_g.14 Os12g0429200_circ_g.15 Os12g0429200_circ_g.16 Os12g0429200_circ_g.17 Os12g0429200_circ_g.18 Os12g0429200_circ_g.19 Os12g0429200_circ_g.21 Os12g0429200_circ_g.22 Os12g0429200_circ_g.23 Os12g0429200_circ_g.24 Os12g0429200_circ_g.25 Os12g0429200_circ_g.26 Os12g0429200_circ_g.27 Os12g0429200_circ_g.28 Os12g0429200_circ_g.29 Os12g0429200_circ_g.30
Support reads	12/2
Tissues	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	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	Os12t0429200-01:10

			
						 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  
						
							TTACCTGACCTTTGGCTGGCTCATGGCCATTCCAAAAGACATAGGTCTCAATTACATCTGCGCC
ACCCTCCTTGCACTTTGCAATTAAACTAGGCCACATctcttgcattgatcctaactttatatat
tgaggtgagccatccactgcaataagagctggctcacaaagtttgatagcagtgtgtagatctt
tcagatgc

						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: 921
Transcript exons: 13776133-13776257,13776385-13776472,13777912-13778017,13
778928-13779016,13779112-13779255,13779859-13779951,1378
0127-13780193,13780936-13781006,13781031-13781072,137811
56-13781251
CTCTTGCATTGATCCTAACTTTATATATTGAGGTGAGCCATCCACTGCAATAAGAGCTGGCTCA
CAAAGTTTGATAGCAGTGTGTAGATCTTTCAGATGCCCCCACTTAGGCTGCCTTAATATACCAT
ACTCATCGATTGGAGCATCATAATCGTAGCTTGTTATCTGAAGTGGACCACCAGCTGTCCGTGC
AAAATTTGTTCCACCAAAGTACATGTAATAATTTTGTAAGCTTCCACCTCTTTGGTAGAAACGA
GCAACAGCAAAAGCACTGTCTTCAGCTGGCCTGTGAGGTAATGCTCCACCCCAATCAGCATACC
ATCCATCCCAATCTTCAGTCCATATTGTTGGTTTATTGTAAGAATTTGGCTTGAAACCATCGCA
ATAAAATGCATTGCATGTATCGATAATTTCTTCTGGAGCATCAGTCTGCCTGCACATCACCCAA
GGAATGCCAGTGTCAAGCCCAATTGCCATCTGAGCGGCCCATTGCATATATCTCTTCCCTGCTT
GGCCATAATTTCCTTGAATATTCCCATACTCGTTTTCAATCTGTTGTAATATAATGGGACCACC
TTGCCAAGAATAAAGTTTCTCCTCTTTCATTAAAGTGACAATTTTTGTCACGAAAGTCTGCATT
TCAGCCTTGAATGGTTCATTGTCAGTTCGGAATTCTATGCCAGGGATGTCACGTAACCAAACTG
GGAAACCACCGAAATTCCATTCTGCACAAGCATATGGGCCGATACGAAGAAAAAGAAATAGACC
TTCGGCAGCAACCAGCTTCGCAAATTTCACAAGATCAAATCTTTCTTCAAAGTAATACTGACCT
TTGGCTGGCTCATGGCCATTCCAAAAGACATAGGTCTCAATTACATCTGCGCCACCCTCCTTGC
ACTTTGCAATTAAACTAGGCCACAT
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTACCTGACCTTTGGCTGGCTCATGGCCATTCCAAAAGACATAGGTCTCAATTACATCTGCGCC ACCCTCCTTGCACTTTGCAATTAAACTAGGCCACATctcttgcattgatcctaactttatatat tgaggtgagccatccactgcaataagagctggctcacaaagtttgatagcagtgtgtagatctt tcagatgc
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: 921 Transcript exons: 13776133-13776257,13776385-13776472,13777912-13778017,13 778928-13779016,13779112-13779255,13779859-13779951,1378 0127-13780193,13780936-13781006,13781031-13781072,137811 56-13781251 CTCTTGCATTGATCCTAACTTTATATATTGAGGTGAGCCATCCACTGCAATAAGAGCTGGCTCA CAAAGTTTGATAGCAGTGTGTAGATCTTTCAGATGCCCCCACTTAGGCTGCCTTAATATACCAT ACTCATCGATTGGAGCATCATAATCGTAGCTTGTTATCTGAAGTGGACCACCAGCTGTCCGTGC AAAATTTGTTCCACCAAAGTACATGTAATAATTTTGTAAGCTTCCACCTCTTTGGTAGAAACGA GCAACAGCAAAAGCACTGTCTTCAGCTGGCCTGTGAGGTAATGCTCCACCCCAATCAGCATACC ATCCATCCCAATCTTCAGTCCATATTGTTGGTTTATTGTAAGAATTTGGCTTGAAACCATCGCA ATAAAATGCATTGCATGTATCGATAATTTCTTCTGGAGCATCAGTCTGCCTGCACATCACCCAA GGAATGCCAGTGTCAAGCCCAATTGCCATCTGAGCGGCCCATTGCATATATCTCTTCCCTGCTT GGCCATAATTTCCTTGAATATTCCCATACTCGTTTTCAATCTGTTGTAATATAATGGGACCACC TTGCCAAGAATAAAGTTTCTCCTCTTTCATTAAAGTGACAATTTTTGTCACGAAAGTCTGCATT TCAGCCTTGAATGGTTCATTGTCAGTTCGGAATTCTATGCCAGGGATGTCACGTAACCAAACTG GGAAACCACCGAAATTCCATTCTGCACAAGCATATGGGCCGATACGAAGAAAAAGAAATAGACC TTCGGCAGCAACCAGCTTCGCAAATTTCACAAGATCAAATCTTTCTTCAAAGTAATACTGACCT TTGGCTGGCTCATGGCCATTCCAAAAGACATAGGTCTCAATTACATCTGCGCCACCCTCCTTGC ACTTTGCAATTAAACTAGGCCACAT
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227621311

Conservation Information
Conserved circRNAs	NA
PMCS	0.227621311

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13781253-13776135(-)
						
						Potential amino acid sequence
						
							MWPSLIAKCKEGGADVIETYVFWNGHEPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYAC
AEWNFGGFPVWLRDIPGIEFRTDNEPFKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEY
GNIQGNYGQAGKRYMQWAAQMAIGLDTGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPT
IWTEDWDGWYADWGGALPHRPAEDSAFAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSY
DYDAPIDEYGILRQPKWGHLKDLHTAIKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGG
ADVIETYVFWNGHEPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLR
DIPGIEFRTDNEPFKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKR
YMQWAAQMAIGLDTGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADW
GGALPHRPAEDSAFAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILR
QPKWGHLKDLHTAIKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGGADVIETYVFWNGH
EPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLRDIPGIEFRTDNEP
FKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKRYMQWAAQMAIGLD
TGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADWGGALPHRPAEDSA
FAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILRQPKWGHLKDLHTA
IKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGGADVIETYVFWNGHEPAKGQYYFEERF
DLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLRDIPGIEFRTDNEPFKAEMQTFVTKIV
TLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKRYMQWAAQMAIGLDTGIPWVMCRQTDA
PEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADWGGALPHRPAEDSAFAVARFYQRGGSL
QNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILRQPKWGHLKDLHTAIKLCEPALIAVDG
SPQYIKLGSMQE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13781253-13776135(-)
Potential amino acid sequence	MWPSLIAKCKEGGADVIETYVFWNGHEPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYAC AEWNFGGFPVWLRDIPGIEFRTDNEPFKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEY GNIQGNYGQAGKRYMQWAAQMAIGLDTGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPT IWTEDWDGWYADWGGALPHRPAEDSAFAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSY DYDAPIDEYGILRQPKWGHLKDLHTAIKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGG ADVIETYVFWNGHEPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLR DIPGIEFRTDNEPFKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKR YMQWAAQMAIGLDTGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADW GGALPHRPAEDSAFAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILR QPKWGHLKDLHTAIKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGGADVIETYVFWNGH EPAKGQYYFEERFDLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLRDIPGIEFRTDNEP FKAEMQTFVTKIVTLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKRYMQWAAQMAIGLD TGIPWVMCRQTDAPEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADWGGALPHRPAEDSA FAVARFYQRGGSLQNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILRQPKWGHLKDLHTA IKLCEPALIAVDGSPQYIKLGSMQEMWPSLIAKCKEGGADVIETYVFWNGHEPAKGQYYFEERF DLVKFAKLVAAEGLFLFLRIGPYACAEWNFGGFPVWLRDIPGIEFRTDNEPFKAEMQTFVTKIV TLMKEEKLYSWQGGPIILQQIENEYGNIQGNYGQAGKRYMQWAAQMAIGLDTGIPWVMCRQTDA PEEIIDTCNAFYCDGFKPNSYNKPTIWTEDWDGWYADWGGALPHRPAEDSAFAVARFYQRGGSL QNYYMYFGGTNFARTAGGPLQITSYDYDAPIDEYGILRQPKWGHLKDLHTAIKLCEPALIAVDG SPQYIKLGSMQE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0429200_circ_g.20

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