Plant Circular RNA Database

Detail information of Os03g0403100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0403100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_020261
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 16428156-16430411  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0403100						
					
						Parent gene annotation
						
							Similar to DNA-directed RNA polymerase subunit. (Os03t0403100-01
)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0403100_circ_g.1 Os03g0403100_circ_g.2 						
					
						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
						Os03t0403100-01:8

General Information
CircRNA Name	Os03g0403100_circ_g.3
ID in PlantcircBase	osa_circ_020261
Alias	NA
Organism	Oryza sativa
Position	chr3: 16428156-16430411 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0403100
Parent gene annotation	Similar to DNA-directed RNA polymerase subunit. (Os03t0403100-01 )
Parent gene strand	+
Alternative splicing	Os03g0403100_circ_g.1 Os03g0403100_circ_g.2
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	Os03t0403100-01:8

			
						 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  
						
							TGTCGATTTTACTTTCCAGAGATTTGCTAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATT
GGAGAGTTCGTAAGCATTTTTGTAAACGAGAAGCAGgttgaaagcgggaatttccgaccaaagt
gcatatacacagctgttatgttaaggcgcatgatggatgcaatcttgaatgccgacacttttga
tgataagg

									
								

					

						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: 777
Transcript exons: 16428156-16428254,16428588-16428647,16428712-16428801,16
429189-16429290,16429373-16429483,16429589-16429705,1643
0130-16430246,16430331-16430411
GTTGAAAGCGGGAATTTCCGACCAAAGTGCATATACACAGCTGTTATGTTAAGGCGCATGATGG
ATGCAATCTTGAATGCCGACACTTTTGATGATAAGGATTATGTAGGAAATAAGAGGCTAGAGCT
GTCTGGTCAACTAATATCCCTGCTTTTTGAGGATTTGTTCAAAACGATGAACTCCAATGCTGTG
GAGCTTATGAACAAAACAAGTGAAAAGATCCATTCTAGCCCATTGGATTTAAGCCTGCATATAA
AGGAAAATATCATAACCCATGGTTTGGAGAGGGCTATTTCCACAGGAAATTGGGATATTAAACG
ATTTAGGATGCATAGAAAAGGTGTATCACAGGTTCTTTCAAGATTATCCTACATGGCATCTTTA
GGCTATATGACAAGGATAACACCACAATTTGAGAAGACCCGGAAAACAAGTGGACCTCGTGCTT
TGCAGCCTAGTCAGTGGGGTATGCTTTGTCCATGTGATACTCCTGAAGGGGAGGCTTGTGGCTT
GACAAAAAATTTAGCTTTGTTGACCCACGTTACAACAGATCAAGAGGAAGGCCCACTCATGAAT
CTCTGTTATAGTCTAGGTGTGGAAGATTTATCACTTCTGTCTGGAGAAGAAATCCATGCATCGG
GTTCGTTTTTGGTCATGTTCAATGGGTTAATACTGGGGAAACACAGACAACCTCAGAGATTTGC
TAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATTGGAGAGTTCGTAAGCATTTTTGTAAAC
GAGAAGCAG
						
					

						Genomic sequence
						
							GTTGAAAGCGGGAATTTCCGACCAAAGTGCATATACACAGCTGTTATGTTAAGGCGCATGATGG
ATGCAATCTTGAATGCCGACACTTTTGATGATAAGGTGAGTTTGCCAGTGCATTGCTTTAATTA
ATGTAAAATTTTCCATCTAACATAAGATAATCCATATTTTTTCCTTCATCAATGCTTTACAAGG
AATGAAAATGTATGTAAATATGGACTTGGTCTATTGAATAATTAACTTGGCTTTCTTAATCACA
CCTTGTCTGACTTATGAACCGCTATGCTCCATTTGATGGTGTCAATGTAGACTTCATGAATCAA
GTGGCAATATTCTTAATTTCAGACTTTAGATAGGTTTCTAAATTGAGTAGCAATTTAACTCATG
ATGGATCATATATTTACCATATGGCATTTTTTGTTGAATTTATTCCAGGATTATGTAGGAAATA
AGAGGCTAGAGCTGTCTGGTCAACTAATATCCCTGCTTTTTGAGGTATTTTCTCTTATCATTTT
AGTGCATGTCATTTTTTATGTTCTCACATCATTCTTTCGTGAAGGATTTGTTCAAAACGATGAA
CTCCAATGCTGTGGAGCTTATGAACAAAACAAGTGAAAAGATCCATTCTAGCCCATTGGATTTA
AGCCTGGTAATGAGAAGCTTATGCATATTTATGGATCATTTTGTGTTTTACAATCTCATACTTG
TATAGTGCACTCAATTAGTTTTTTCACTATTTTCTTTGAACATTTCTCTTTATAATCCTTAGTT
GTGTGCTGGTGCAGTTTAGTACTACTACTCTATTCCTCACGGAACGTGTAGGTTAAAGTAACTG
GTTCCTTGTACTGTGGTTCTTTTTTCCAATTAGGTTTGTTTGGATACTGAAAGATGCACAGGAG
AAATTGGTTACCCTGTTGTTCTTAATGTGCATACTATATTGAAATGAATTTGTTTATCTGCTTA
GACTCTAAGAAGTAAGTGCTTTGTGATGCTCAGACATGGTATCTTAGCTGTAATTTTCTTCATT
ATTCTGCAGCATATAAAGGAAAATATCATAACCCATGGTTTGGAGAGGGCTATTTCCACAGGAA
ATTGGGATATTAAACGATTTAGGATGCATAGAAAAGGTGTATCACAGGTATCTACTCATTCATG
TGTTTTATTTCTCCTCTTTTTTACAGATCTTAAGGGGTCCTATTTTATACTTTCCTTTTATGCA
GGTTCTTTCAAGATTATCCTACATGGCATCTTTAGGCTATATGACAAGGATAACACCACAATTT
GAGAAGACCCGGAAAACAAGTGGACCTCGTGCTTTGCAGCCTAGTCAGGTGGGGGAAAATGGTA
ACGGTGTTTGTACTTCATAAAGAGGCAGTAATTGTCAAAATTTAAAATTTGCCTATCACGTTAT
AGATTTCATACTTTTTCTATAACAGTGGGGTATGCTTTGTCCATGTGATACTCCTGAAGGGGAG
GCTTGTGGCTTGACAAAAAATTTAGCTTTGTTGACCCACGTTACAACAGATCAAGAGGAAGGCC
CACTCATGAATCTCGTATGTCTTCTCTACAATACTAGTCTTGTGTACTCATTTCTGTTGTTGTG
TGAAGTGTAAACCGTGTGTGTCCCTCTGTTGTTCTAATATTATTAAACTGACATTATTTTTATT
GTCCCTTATCCTTTTTCATGGGCTATCCCTTTCATGCACATGCGATTTAAGATAGCTGATGAAA
CTTAGTGCCTTATAATTTTGTAATCAAGAAAGTAAAAGTATGCTGGAATTATTCCCTGCAGCTG
ACTACATTCTACTGCAAAGCACATACTTCATTTTCATTCCTATTTAAGTCTATTTCTGTGAACT
GCCTTGATACTTTCTTTGTTTACTTTCACTTTCGCTCCATCCTTTGATATATGATTGAAGTGTA
ACTTTTCTGCATAATCTTATATCTGTTACTTTTTTTTTGTTTGTTGTTTACTAGTGTTATAGTC
TAGGTGTGGAAGATTTATCACTTCTGTCTGGAGAAGAAATCCATGCATCGGGTTCGTTTTTGGT
CATGTTCAATGGGTTAATACTGGGGAAACACAGACAACCTCAGGTCTTGTTAACTATAAATGTC
ATATTTGTGTTTTACTTATTTGACTTTGTTTATTTTCATTGAGATGTCGATTTTACTTTCCAGA
GATTTGCTAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATTGGAGAGTTCGTAAGCATTTT
TGTAAACGAGAAGCAG
						
					

			
		

Sequences
Splice junction sequence	TGTCGATTTTACTTTCCAGAGATTTGCTAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATT GGAGAGTTCGTAAGCATTTTTGTAAACGAGAAGCAGgttgaaagcgggaatttccgaccaaagt gcatatacacagctgttatgttaaggcgcatgatggatgcaatcttgaatgccgacacttttga tgataagg
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: 777 Transcript exons: 16428156-16428254,16428588-16428647,16428712-16428801,16 429189-16429290,16429373-16429483,16429589-16429705,1643 0130-16430246,16430331-16430411 GTTGAAAGCGGGAATTTCCGACCAAAGTGCATATACACAGCTGTTATGTTAAGGCGCATGATGG ATGCAATCTTGAATGCCGACACTTTTGATGATAAGGATTATGTAGGAAATAAGAGGCTAGAGCT GTCTGGTCAACTAATATCCCTGCTTTTTGAGGATTTGTTCAAAACGATGAACTCCAATGCTGTG GAGCTTATGAACAAAACAAGTGAAAAGATCCATTCTAGCCCATTGGATTTAAGCCTGCATATAA AGGAAAATATCATAACCCATGGTTTGGAGAGGGCTATTTCCACAGGAAATTGGGATATTAAACG ATTTAGGATGCATAGAAAAGGTGTATCACAGGTTCTTTCAAGATTATCCTACATGGCATCTTTA GGCTATATGACAAGGATAACACCACAATTTGAGAAGACCCGGAAAACAAGTGGACCTCGTGCTT TGCAGCCTAGTCAGTGGGGTATGCTTTGTCCATGTGATACTCCTGAAGGGGAGGCTTGTGGCTT GACAAAAAATTTAGCTTTGTTGACCCACGTTACAACAGATCAAGAGGAAGGCCCACTCATGAAT CTCTGTTATAGTCTAGGTGTGGAAGATTTATCACTTCTGTCTGGAGAAGAAATCCATGCATCGG GTTCGTTTTTGGTCATGTTCAATGGGTTAATACTGGGGAAACACAGACAACCTCAGAGATTTGC TAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATTGGAGAGTTCGTAAGCATTTTTGTAAAC GAGAAGCAG
Genomic sequence	GTTGAAAGCGGGAATTTCCGACCAAAGTGCATATACACAGCTGTTATGTTAAGGCGCATGATGG ATGCAATCTTGAATGCCGACACTTTTGATGATAAGGTGAGTTTGCCAGTGCATTGCTTTAATTA ATGTAAAATTTTCCATCTAACATAAGATAATCCATATTTTTTCCTTCATCAATGCTTTACAAGG AATGAAAATGTATGTAAATATGGACTTGGTCTATTGAATAATTAACTTGGCTTTCTTAATCACA CCTTGTCTGACTTATGAACCGCTATGCTCCATTTGATGGTGTCAATGTAGACTTCATGAATCAA GTGGCAATATTCTTAATTTCAGACTTTAGATAGGTTTCTAAATTGAGTAGCAATTTAACTCATG ATGGATCATATATTTACCATATGGCATTTTTTGTTGAATTTATTCCAGGATTATGTAGGAAATA AGAGGCTAGAGCTGTCTGGTCAACTAATATCCCTGCTTTTTGAGGTATTTTCTCTTATCATTTT AGTGCATGTCATTTTTTATGTTCTCACATCATTCTTTCGTGAAGGATTTGTTCAAAACGATGAA CTCCAATGCTGTGGAGCTTATGAACAAAACAAGTGAAAAGATCCATTCTAGCCCATTGGATTTA AGCCTGGTAATGAGAAGCTTATGCATATTTATGGATCATTTTGTGTTTTACAATCTCATACTTG TATAGTGCACTCAATTAGTTTTTTCACTATTTTCTTTGAACATTTCTCTTTATAATCCTTAGTT GTGTGCTGGTGCAGTTTAGTACTACTACTCTATTCCTCACGGAACGTGTAGGTTAAAGTAACTG GTTCCTTGTACTGTGGTTCTTTTTTCCAATTAGGTTTGTTTGGATACTGAAAGATGCACAGGAG AAATTGGTTACCCTGTTGTTCTTAATGTGCATACTATATTGAAATGAATTTGTTTATCTGCTTA GACTCTAAGAAGTAAGTGCTTTGTGATGCTCAGACATGGTATCTTAGCTGTAATTTTCTTCATT ATTCTGCAGCATATAAAGGAAAATATCATAACCCATGGTTTGGAGAGGGCTATTTCCACAGGAA ATTGGGATATTAAACGATTTAGGATGCATAGAAAAGGTGTATCACAGGTATCTACTCATTCATG TGTTTTATTTCTCCTCTTTTTTACAGATCTTAAGGGGTCCTATTTTATACTTTCCTTTTATGCA GGTTCTTTCAAGATTATCCTACATGGCATCTTTAGGCTATATGACAAGGATAACACCACAATTT GAGAAGACCCGGAAAACAAGTGGACCTCGTGCTTTGCAGCCTAGTCAGGTGGGGGAAAATGGTA ACGGTGTTTGTACTTCATAAAGAGGCAGTAATTGTCAAAATTTAAAATTTGCCTATCACGTTAT AGATTTCATACTTTTTCTATAACAGTGGGGTATGCTTTGTCCATGTGATACTCCTGAAGGGGAG GCTTGTGGCTTGACAAAAAATTTAGCTTTGTTGACCCACGTTACAACAGATCAAGAGGAAGGCC CACTCATGAATCTCGTATGTCTTCTCTACAATACTAGTCTTGTGTACTCATTTCTGTTGTTGTG TGAAGTGTAAACCGTGTGTGTCCCTCTGTTGTTCTAATATTATTAAACTGACATTATTTTTATT GTCCCTTATCCTTTTTCATGGGCTATCCCTTTCATGCACATGCGATTTAAGATAGCTGATGAAA CTTAGTGCCTTATAATTTTGTAATCAAGAAAGTAAAAGTATGCTGGAATTATTCCCTGCAGCTG ACTACATTCTACTGCAAAGCACATACTTCATTTTCATTCCTATTTAAGTCTATTTCTGTGAACT GCCTTGATACTTTCTTTGTTTACTTTCACTTTCGCTCCATCCTTTGATATATGATTGAAGTGTA ACTTTTCTGCATAATCTTATATCTGTTACTTTTTTTTTGTTTGTTGTTTACTAGTGTTATAGTC TAGGTGTGGAAGATTTATCACTTCTGTCTGGAGAAGAAATCCATGCATCGGGTTCGTTTTTGGT CATGTTCAATGGGTTAATACTGGGGAAACACAGACAACCTCAGGTCTTGTTAACTATAAATGTC ATATTTGTGTTTTACTTATTTGACTTTGTTTATTTTCATTGAGATGTCGATTTTACTTTCCAGA GATTTGCTAATGCTATGAGAAAATTGCGTCGTTCGGGTATAATTGGAGAGTTCGTAAGCATTTT TGTAAACGAGAAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.236902346

Conservation Information
Conserved circRNAs	NA
PMCS	0.236902346

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16428202-16430408(+)
16428216-16430245(-)
						
						Potential amino acid sequence
						
							MLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEKIHSSPL
DLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEKTRK
TSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVEDLSLLSG
EEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNFRPKCIY
TAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEKIHS
SPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEK
TRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVEDLSL
LSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNFRPK
CIYTAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEK
IHSSPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQ
FEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVED
LSLLSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNF
RPKCIYTAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKT
SEKIHSSPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRI
TPQFEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLG
VEDLSLLSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQ(+)
MRLNITAVYMHFGRKFPLSTCFSFTKMLTNSPIIPERRNFLIALANL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16428202-16430408(+) 16428216-16430245(-)
Potential amino acid sequence	MLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEKIHSSPL DLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEKTRK TSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVEDLSLLSG EEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNFRPKCIY TAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEKIHS SPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQFEK TRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVEDLSL LSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNFRPK CIYTAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKTSEK IHSSPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRITPQ FEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLGVED LSLLSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQVESGNF RPKCIYTAVMLRRMMDAILNADTFDDKDYVGNKRLELSGQLISLLFEDLFKTMNSNAVELMNKT SEKIHSSPLDLSLHIKENIITHGLERAISTGNWDIKRFRMHRKGVSQVLSRLSYMASLGYMTRI TPQFEKTRKTSGPRALQPSQWGMLCPCDTPEGEACGLTKNLALLTHVTTDQEEGPLMNLCYSLG VEDLSLLSGEEIHASGSFLVMFNGLILGKHRQPQRFANAMRKLRRSGIIGEFVSIFVNEKQ(+) MRLNITAVYMHFGRKFPLSTCFSFTKMLTNSPIIPERRNFLIALANL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0403100_circ_g.3

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