Plant Circular RNA Database

Detail information of Os06g0563250_circ_g.13

			
						 General Information
					
						CircRNA Name
						Os06g0563250_circ_g.13
					
						ID in PlantcircBase
						osa_circ_031185
					
						Alias
						Os_ciR4329
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 21659836-21661227  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0563250						
					
						Parent gene annotation
						
							Hypothetical gene. (Os06t0563250-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0563250_circ_g.1 Os06g0563250_circ_g.2 Os06g0563250_circ_g.3 Os06g0563250_circ_g.4 Os06g0563250_circ_g.5 Os06g0563250_circ_g.6 Os06g0563250_circ_g.7 Os06g0563250_circ_g.8 Os06g0563250_circ_g.9 Os06g0563250_circ_g.10 Os06g0563250_circ_g.11 Os06g0563250_circ_g.12 Os06g0563300_circ_g.1 						
					
						Support reads
						6/3
					
						Tissues
						root/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
						Os06t0563250-01:4

General Information
CircRNA Name	Os06g0563250_circ_g.13
ID in PlantcircBase	osa_circ_031185
Alias	Os_ciR4329
Organism	Oryza sativa
Position	chr6: 21659836-21661227 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0563250
Parent gene annotation	Hypothetical gene. (Os06t0563250-01)
Parent gene strand	-
Alternative splicing	Os06g0563250_circ_g.1 Os06g0563250_circ_g.2 Os06g0563250_circ_g.3 Os06g0563250_circ_g.4 Os06g0563250_circ_g.5 Os06g0563250_circ_g.6 Os06g0563250_circ_g.7 Os06g0563250_circ_g.8 Os06g0563250_circ_g.9 Os06g0563250_circ_g.10 Os06g0563250_circ_g.11 Os06g0563250_circ_g.12 Os06g0563300_circ_g.1
Support reads	6/3
Tissues	root/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	Os06t0563250-01:4

			
						 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  
						
							TATTTTTGCATCTGTATTGCAGTAATTTATTTCGGGTTTTTGGCTGTACTCCTGGGAGCACAGA
AGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAGatttgaggaacatgaagcacctggatca
agatccttctttacagagataatcgcatcaatatcggatataaaattttcaagggatggaagat
acatcctt

									
								

					

						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: 363
Transcript exons: 21659836-21659959,21660818-21660886,21660966-21661057,21
661150-21661227
ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAGATAATCGCATCAATATCG
GATATAAAATTTTCAAGGGATGGAAGATACATCCTTAGTCGCGATTATATGACTCTCAAGCTAT
GGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAA
GTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGTCTTAGTGGGGAT
GGACTCCATGTTGCAACTGGTTCATATGGTAATTTATTTCGGGTTTTTGGCTGTACTCCTGGGA
GCACAGAAGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAG
						
					

						Genomic sequence
						
							ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAGATAATCGCATCAATATCG
GATATAAAATTTTCAAGGGATGGAAGATACATCCTTAGTCGCGATTATATGACTCTCAAGGTAA
TACCTTCCCTTCGTATAGTTACCCACAAATAAAAAACTACTTATTTAGTTTTGACACATCAGAT
ATCATTCTGTAACTTCTTACCGCGTAACATTTGAATGTTTTGTACATAGAGATCTAATTTCTGG
GTGAATTATAATCTAGATCTGTTAATTGTTAGGTAAAAATAAAGAGCACACTTTCATATGCTGC
ACTCCTAGCATTTATTCACTAGCATATTTTAGTGTTTGAATTGTTTCTTCGAGGTTGAACTTGC
ATTTGAAATAAAATAAGTCAGGTGTTAATGATGTTTATATATATAAAAATGGTATTGTGGCCTA
TTTGTCTAGTAACACATGCTTGGTTAGGAATTCTTCGATGCTTTTCATTGTCCTTATTAATTAG
CAGGAAATAGATTGTCGGGCTAGTATGTTTCTCCTTAACGCCAGGCCTCTTGCAGTCTGTTCTG
CCTTTAATGGTTGATTGACTGCTGATAGTTGGTTTATAGAAATAAATGTTGCCTAACTAGTAAC
CTCCGTCCCAAAATATAGCAATCTAGTACTGGATGGGACATATCCTAGAGGCTGGTAGTACTGG
GATTTGTCCAATCTGGTACTAGGTTGCTATATTTTGGGACGGAGAGAGTAGTAAATATTCAGTG
ACTAAGAAAATATGGTAACACCTTTTCTTTTGCTAAAATATTTATTTATATTAAATGTGAAATT
TGCTTGTCCTGTTTTGCCTTATGCATTGAAGTTTATGATACCATTTTATTTTTGCATGGCTTAT
GATGAGCATATTTGACTTGTTAATAAGGTAAATTTTAGGTAAAGCGGAATAATTTGGTTTGAGT
TTAATATCTGTCTTTTCCTCAGCTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTC
CAGGTTCATGAACATTTAAGGCCCAAGGTGAGACTTTGTCAACCGAATGACTAAAAAGAAGCCA
TATGATGACTGATACATAATCTAGCTGTACTCTAATTTTCAGTTATGTGATCTGTATGAGAACG
ACTCAATATTTGACAAATTTGAGTGTTGTCTTAGTGGGGATGGACTCCATGTTGCAACTGGTTC
ATATGGGTATTACCTTGCTCTTGTTCTTAGCTACATATGAAAATGTTATACTTAGAAATCATGT
CTGCTGACACCTTATTTTTGCATCTGTATTGCAGTAATTTATTTCGGGTTTTTGGCTGTACTCC
TGGGAGCACAGAAGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAG
						
					

			
		

Sequences
Splice junction sequence	TATTTTTGCATCTGTATTGCAGTAATTTATTTCGGGTTTTTGGCTGTACTCCTGGGAGCACAGA AGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAGatttgaggaacatgaagcacctggatca agatccttctttacagagataatcgcatcaatatcggatataaaattttcaagggatggaagat acatcctt
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: 363 Transcript exons: 21659836-21659959,21660818-21660886,21660966-21661057,21 661150-21661227 ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAGATAATCGCATCAATATCG GATATAAAATTTTCAAGGGATGGAAGATACATCCTTAGTCGCGATTATATGACTCTCAAGCTAT GGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAA GTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGTCTTAGTGGGGAT GGACTCCATGTTGCAACTGGTTCATATGGTAATTTATTTCGGGTTTTTGGCTGTACTCCTGGGA GCACAGAAGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAG
Genomic sequence	ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAGATAATCGCATCAATATCG GATATAAAATTTTCAAGGGATGGAAGATACATCCTTAGTCGCGATTATATGACTCTCAAGGTAA TACCTTCCCTTCGTATAGTTACCCACAAATAAAAAACTACTTATTTAGTTTTGACACATCAGAT ATCATTCTGTAACTTCTTACCGCGTAACATTTGAATGTTTTGTACATAGAGATCTAATTTCTGG GTGAATTATAATCTAGATCTGTTAATTGTTAGGTAAAAATAAAGAGCACACTTTCATATGCTGC ACTCCTAGCATTTATTCACTAGCATATTTTAGTGTTTGAATTGTTTCTTCGAGGTTGAACTTGC ATTTGAAATAAAATAAGTCAGGTGTTAATGATGTTTATATATATAAAAATGGTATTGTGGCCTA TTTGTCTAGTAACACATGCTTGGTTAGGAATTCTTCGATGCTTTTCATTGTCCTTATTAATTAG CAGGAAATAGATTGTCGGGCTAGTATGTTTCTCCTTAACGCCAGGCCTCTTGCAGTCTGTTCTG CCTTTAATGGTTGATTGACTGCTGATAGTTGGTTTATAGAAATAAATGTTGCCTAACTAGTAAC CTCCGTCCCAAAATATAGCAATCTAGTACTGGATGGGACATATCCTAGAGGCTGGTAGTACTGG GATTTGTCCAATCTGGTACTAGGTTGCTATATTTTGGGACGGAGAGAGTAGTAAATATTCAGTG ACTAAGAAAATATGGTAACACCTTTTCTTTTGCTAAAATATTTATTTATATTAAATGTGAAATT TGCTTGTCCTGTTTTGCCTTATGCATTGAAGTTTATGATACCATTTTATTTTTGCATGGCTTAT GATGAGCATATTTGACTTGTTAATAAGGTAAATTTTAGGTAAAGCGGAATAATTTGGTTTGAGT TTAATATCTGTCTTTTCCTCAGCTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTC CAGGTTCATGAACATTTAAGGCCCAAGGTGAGACTTTGTCAACCGAATGACTAAAAAGAAGCCA TATGATGACTGATACATAATCTAGCTGTACTCTAATTTTCAGTTATGTGATCTGTATGAGAACG ACTCAATATTTGACAAATTTGAGTGTTGTCTTAGTGGGGATGGACTCCATGTTGCAACTGGTTC ATATGGGTATTACCTTGCTCTTGTTCTTAGCTACATATGAAAATGTTATACTTAGAAATCATGT CTGCTGACACCTTATTTTTGCATCTGTATTGCAGTAATTTATTTCGGGTTTTTGGCTGTACTCC TGGGAGCACAGAAGCGACCACTTTGGAGGCAAGCAGAAACCCCATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006798* 						
					
						PMCS
						0.261917505

Conservation Information
Conserved circRNAs	osi_circ_006798*
PMCS	0.261917505

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21659949-21661224(+)
21659933-21660867(-)
21659850-21661156(-)
						
						Potential amino acid sequence
						
							MTLKLWDLNMDSGPVSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVF
GCTPGSTEATTLEASRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWD
LNMDSGPVSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGST
EATTLEASRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWDLNMDSGP
VSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGSTEATTLEA
SRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWDLNMDSGPVSTFQVH
EHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGSTEATTLEASRNPM(+
)
MYLPSLENFISDIDAIISVKKDLDPGASCSSNLMGFLLASKVVASVLPGVQPKTRNKLPYEPVA
TWSPSPLRQHSNLSNIESFSYRSHNLGLKCS*(-)
MFLKSHGVSACLQSGRFCAPRSTAKNPK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21659949-21661224(+) 21659933-21660867(-) 21659850-21661156(-)
Potential amino acid sequence	MTLKLWDLNMDSGPVSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVF GCTPGSTEATTLEASRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWD LNMDSGPVSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGST EATTLEASRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWDLNMDSGP VSTFQVHEHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGSTEATTLEA SRNPMRFEEHEAPGSRSFFTEIIASISDIKFSRDGRYILSRDYMTLKLWDLNMDSGPVSTFQVH EHLRPKLCDLYENDSIFDKFECCLSGDGLHVATGSYGNLFRVFGCTPGSTEATTLEASRNPM(+ ) MYLPSLENFISDIDAIISVKKDLDPGASCSSNLMGFLLASKVVASVLPGVQPKTRNKLPYEPVA TWSPSPLRQHSNLSNIESFSYRSHNLGLKCS(-) MFLKSHGVSACLQSGRFCAPRSTAKNPK(-)
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 Os06g0563250_circ_g.13

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