Plant Circular RNA Database

Detail information of Os09g0498600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0498600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039704
					
						Alias
						Os_ciR11870
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 19281837-19284090  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0498600						
					
						Parent gene annotation
						
							K Homology, type 1, subgroup domain containing protein. (Os09t04
98600-01);K Homology, type 1 domain containing protein. (Os09t04
98600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Os09t0498600-01:4
Os09t0498600-02:4

General Information
CircRNA Name	Os09g0498600_circ_g.2
ID in PlantcircBase	osa_circ_039704
Alias	Os_ciR11870
Organism	Oryza sativa
Position	chr9: 19281837-19284090 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os09g0498600
Parent gene annotation	K Homology, type 1, subgroup domain containing protein. (Os09t04 98600-01);K Homology, type 1 domain containing protein. (Os09t04 98600-02)
Parent gene strand	+
Alternative splicing	NA
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	Os09t0498600-01:4 Os09t0498600-02:4

			
						 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  
						
							AGTGGCTACACCATCTAATGCAACTGAAGTCATTATTCCCCGCAAGTACATAGGTTTTATTTGT
GGAGCCAATGGCAGTGACCTTGCTGAGATAAAGAAGaattctgagatgatgcattctccagctc
aggatgcagtacttcgggtgcattctagaatctcggagtcatcgatggataaaagttctgctgt
aactgcaa

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							AATTCTGAGATGATGCATTCTCCAGCTCAGGATGCAGTACTTCGGGTGCATTCTAGAATCTCGG
AGTCATCGATGGATAAAAGTTCTGCTGTAACTGCAAGACTTCTTGTACCATCACAGCATATTGG
TTGCTTACTAGGCAAAGGTGGTTCTATCATCGCAGAAATGAGAAAAATAACAGGAGCTGGTATC
CGAATTTTCGGGAATGAACAAATTCCAAGATGTGCACAACGAAATGATGAGCTAGTTCAGGTAT
TTAATGTTATAGTAATCAACCACTCCATTTTATGTTCTTGTGCATGCTATGAATTTTCAGTAAT
AAGTTCCATGTTTTATGTGCGCCGCAGTGGTCTCTTAAGTTTACATGTCCATTCGAAATTTTCA
TCGTTATGCATATAATCTACTAATAACACCTAGTTATAGTGTGTTCTTTGCTTTAATTGTGGTC
TTGTAGCAAAAATTTTAAGTTTGATACAAGTGTTGGTTAATGTAAAGTATCAACACTACTATAA
AGGGTCCCACCTTACTGAATCACATTAAAGGTTCAGTGTTGAGGTGAACTTTGTTTACCAGTAA
TAGCTAAGAGCATAAGGTCTTCAGACTTCAGTGTGATACTGTGAATATGTGATCAATTCAAGTA
TGTTGGGAAATGTCAAGTATGCAAAGCATGCTCTTGAAAAAGATTTCCAAGTGAACTACTTTAT
ACGTATTCAAAGAAGCAAACTACAGAATATCTTTGTCCTGTTAAATTTAAGAAAGCAGAATTGT
TTACTTTGTGGCATATGCTGTAACTCTTTTGTGGTAATTTTGGCCAACCTGTTTCACATCACAA
GTTATCCATTTGAAAAATGATCCACAGTTTATCACAACTAATCAACTCTTTCAAGTGGCTTTCA
TTGAATCTTCCTTTTAAGAAAGTTTACTTAGGTTATTCATAGCTGTGTTATTCTTATTCCCTTG
ACAATTGCTGACCAGGTGTTAAATGTAACTATGGAGTTTCTTCTTACAGGTCACAGGTAGTTTT
CAATCCATTCAGGATGCATTGCTTCATATCACTGGAAGGATTAGAGATGTCATCATTCCCATGA
AGCCACATCCAGGTGGAGGTATGCCCCCATATCCACCTGGTGGAAACGCTCCACCTCACCACCC
AAGACAAGAACCAGCACCACCGCATCCCACTGGAGGCATGCCTCCATATCCTATGCCTTCTTTC
AGAGCTGATCGTCCTATGGGTCCTTTTGATATGGTCGATCATCGACCACCTCCCCCTCATTCAA
TGGAGCACATGGGTGCTGATAGGATGCCCTACTCATATGGTTGTGAACAAGGAGGTGGTCCTCG
ACCTTTTCTGGACCAGCCATCACCAAGTGCCTGGGCTCCTGAGGTAACTTACTATGCGTTTATT
CTAGAATGTAGGAAACACATATATGGGAAATGCAGTTTGGAATTAGGCAGAAGTTCTTCAGCAT
TTTTCCTGGGTGTGCAGTGCACAATGGTCTCTTTCATGAATTTCCACCAACATTCGGGTCCTGC
TGACAAGCGATAGGATGCTTGCCAGCAGGGGTGGATCCAGGACTGGGCAGTCTGGGACAACTCA
GCCTATTTTGGCTCATGTTAACTTAGCATCATAAAAAGATCAAAGCCCATTTGTCGTAAAAAAA
TACATCAAAGTCCAGGACTTGGGTTTGCCTTGCCACCAGAGTTTTATTAGAAAACTGTAAAAGT
TTGCACACCACTTCTCTTGTTGATTTAGGTGTTGTAGGCTTAGAATAAAGTCCCTGATCTTGTG
CAGGCACCAAACAGTGAAGCTCCAAGAAATATGCCTGAGACAGTACCACCTGCAGATTTCAGAA
AGGGAGCAGTGGCAGGGTAAGTTAATTTCCATTTGGTGGTGTTTCTTTCTCTTTGACCTTTCAC
TAAAAGGAAATATTCTCAATTTCTCATTCTGTTAATCTTTTAGGGGCTAAAAGACTTTGAAAAG
TATATGCATGAGAACTTGTGTGGAAAGCAAAAGATTGAATCGAAGCATATATAGTTCTCTTCTA
GCAATGCAACCCATTTTGAAAAACAAAACTAAATGGCAAATTCTCCTTTCTAAAGAAGGTTACT
TAGAACAGTGTTTTGACTTGTTCTTCTCAACAGAACAAATCAAGTGGCTACACCATCTAATGCA
ACTGAAGTCATTATTCCCCGCAAGTACATAGGTTTTATTTGTGGAGCCAATGGCAGTGACCTTG
CTGAGATAAAGAAG
						
					

			
		

Sequences
Splice junction sequence	AGTGGCTACACCATCTAATGCAACTGAAGTCATTATTCCCCGCAAGTACATAGGTTTTATTTGT GGAGCCAATGGCAGTGACCTTGCTGAGATAAAGAAGaattctgagatgatgcattctccagctc aggatgcagtacttcgggtgcattctagaatctcggagtcatcgatggataaaagttctgctgt aactgcaa
Assembled circRNA sequence	NA 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	NA
Genomic sequence	AATTCTGAGATGATGCATTCTCCAGCTCAGGATGCAGTACTTCGGGTGCATTCTAGAATCTCGG AGTCATCGATGGATAAAAGTTCTGCTGTAACTGCAAGACTTCTTGTACCATCACAGCATATTGG TTGCTTACTAGGCAAAGGTGGTTCTATCATCGCAGAAATGAGAAAAATAACAGGAGCTGGTATC CGAATTTTCGGGAATGAACAAATTCCAAGATGTGCACAACGAAATGATGAGCTAGTTCAGGTAT TTAATGTTATAGTAATCAACCACTCCATTTTATGTTCTTGTGCATGCTATGAATTTTCAGTAAT AAGTTCCATGTTTTATGTGCGCCGCAGTGGTCTCTTAAGTTTACATGTCCATTCGAAATTTTCA TCGTTATGCATATAATCTACTAATAACACCTAGTTATAGTGTGTTCTTTGCTTTAATTGTGGTC TTGTAGCAAAAATTTTAAGTTTGATACAAGTGTTGGTTAATGTAAAGTATCAACACTACTATAA AGGGTCCCACCTTACTGAATCACATTAAAGGTTCAGTGTTGAGGTGAACTTTGTTTACCAGTAA TAGCTAAGAGCATAAGGTCTTCAGACTTCAGTGTGATACTGTGAATATGTGATCAATTCAAGTA TGTTGGGAAATGTCAAGTATGCAAAGCATGCTCTTGAAAAAGATTTCCAAGTGAACTACTTTAT ACGTATTCAAAGAAGCAAACTACAGAATATCTTTGTCCTGTTAAATTTAAGAAAGCAGAATTGT TTACTTTGTGGCATATGCTGTAACTCTTTTGTGGTAATTTTGGCCAACCTGTTTCACATCACAA GTTATCCATTTGAAAAATGATCCACAGTTTATCACAACTAATCAACTCTTTCAAGTGGCTTTCA TTGAATCTTCCTTTTAAGAAAGTTTACTTAGGTTATTCATAGCTGTGTTATTCTTATTCCCTTG ACAATTGCTGACCAGGTGTTAAATGTAACTATGGAGTTTCTTCTTACAGGTCACAGGTAGTTTT CAATCCATTCAGGATGCATTGCTTCATATCACTGGAAGGATTAGAGATGTCATCATTCCCATGA AGCCACATCCAGGTGGAGGTATGCCCCCATATCCACCTGGTGGAAACGCTCCACCTCACCACCC AAGACAAGAACCAGCACCACCGCATCCCACTGGAGGCATGCCTCCATATCCTATGCCTTCTTTC AGAGCTGATCGTCCTATGGGTCCTTTTGATATGGTCGATCATCGACCACCTCCCCCTCATTCAA TGGAGCACATGGGTGCTGATAGGATGCCCTACTCATATGGTTGTGAACAAGGAGGTGGTCCTCG ACCTTTTCTGGACCAGCCATCACCAAGTGCCTGGGCTCCTGAGGTAACTTACTATGCGTTTATT CTAGAATGTAGGAAACACATATATGGGAAATGCAGTTTGGAATTAGGCAGAAGTTCTTCAGCAT TTTTCCTGGGTGTGCAGTGCACAATGGTCTCTTTCATGAATTTCCACCAACATTCGGGTCCTGC TGACAAGCGATAGGATGCTTGCCAGCAGGGGTGGATCCAGGACTGGGCAGTCTGGGACAACTCA GCCTATTTTGGCTCATGTTAACTTAGCATCATAAAAAGATCAAAGCCCATTTGTCGTAAAAAAA TACATCAAAGTCCAGGACTTGGGTTTGCCTTGCCACCAGAGTTTTATTAGAAAACTGTAAAAGT TTGCACACCACTTCTCTTGTTGATTTAGGTGTTGTAGGCTTAGAATAAAGTCCCTGATCTTGTG CAGGCACCAAACAGTGAAGCTCCAAGAAATATGCCTGAGACAGTACCACCTGCAGATTTCAGAA AGGGAGCAGTGGCAGGGTAAGTTAATTTCCATTTGGTGGTGTTTCTTTCTCTTTGACCTTTCAC TAAAAGGAAATATTCTCAATTTCTCATTCTGTTAATCTTTTAGGGGCTAAAAGACTTTGAAAAG TATATGCATGAGAACTTGTGTGGAAAGCAAAAGATTGAATCGAAGCATATATAGTTCTCTTCTA GCAATGCAACCCATTTTGAAAAACAAAACTAAATGGCAAATTCTCCTTTCTAAAGAAGGTTACT TAGAACAGTGTTTTGACTTGTTCTTCTCAACAGAACAAATCAAGTGGCTACACCATCTAATGCA ACTGAAGTCATTATTCCCCGCAAGTACATAGGTTTTATTTGTGGAGCCAATGGCAGTGACCTTG CTGAGATAAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121336106

Conservation Information
Conserved circRNAs	NA
PMCS	0.121336106

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19281847-19284087(+)
19281889-19283202(-)
						
						Potential amino acid sequence
						
							MMHSPAQDAVLRVHSRISESSMDKSSAVTARLLVPSQHIGCLLGKGGSIIAEMRKITGAGIRIF
GNEQIPRCAQRNDELVQVTGSFQSIQDALLHITGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHH
PRQEPAPPHPTGGMPPYPMPSFRADRPMGPFDMVDHRPPPPHSMEHMGADRMPYSYGCEQGGGP
RPFLDQPSPSAWAPEAPNSEAPRNMPETVPPADFRKGAVAGTNQVATPSNATEVIIPRKYIGFI
CGANGSDLAEIKKNSEMMHSPAQDAVLRVHSRISESSMDKSSAVTARLLVPSQHIGCLLGKGGS
IIAEMRKITGAGIRIFGNEQIPRCAQRNDELVQVTGSFQSIQDALLHITGRIRDVIIPMKPHPG
GGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPPYPMPSFRADRPMGPFDMVDHRPPPPHSMEHMG
ADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEAPNSEAPRNMPETVPPADFRKGAVAGTNQVATP
SNATEVIIPRKYIGFICGANGSDLAEIKKNSEMMHSPAQDAVLRVHSRISESSMDKSSAVTARL
LVPSQHIGCLLGKGGSIIAEMRKITGAGIRIFGNEQIPRCAQRNDELVQVTGSFQSIQDALLHI
TGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPPYPMPSFRADRPMGPFD
MVDHRPPPPHSMEHMGADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEAPNSEAPRNMPETVPPA
DFRKGAVAGTNQVATPSNATEVIIPRKYIGFICGANGSDLAEIKKNSEMMHSPAQDAVLRVHSR
ISESSMDKSSAVTARLLVPSQHIGCLLGKGGSIIAEMRKITGAGIRIFGNEQIPRCAQRNDELV
QVTGSFQSIQDALLHITGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPP
YPMPSFRADRPMGPFDMVDHRPPPPHSMEHMGADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEA
PNSEAPRNMPETVPPADFRKGAVAGTNQVATPSNATEVIIPRKYIGFICGANGSDLAEIKK(+)
MHPKYCILSWRMHHLRILLYLSKVTAIGSTNKTYVLAGNNDFSCIRWCSHLICSCHCSLSEICR
WYCLRHISWSFTVWCLRSPGTW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19281847-19284087(+) 19281889-19283202(-)
Potential amino acid sequence	MMHSPAQDAVLRVHSRISESSMDKSSAVTARLLVPSQHIGCLLGKGGSIIAEMRKITGAGIRIF GNEQIPRCAQRNDELVQVTGSFQSIQDALLHITGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHH PRQEPAPPHPTGGMPPYPMPSFRADRPMGPFDMVDHRPPPPHSMEHMGADRMPYSYGCEQGGGP RPFLDQPSPSAWAPEAPNSEAPRNMPETVPPADFRKGAVAGTNQVATPSNATEVIIPRKYIGFI CGANGSDLAEIKKNSEMMHSPAQDAVLRVHSRISESSMDKSSAVTARLLVPSQHIGCLLGKGGS IIAEMRKITGAGIRIFGNEQIPRCAQRNDELVQVTGSFQSIQDALLHITGRIRDVIIPMKPHPG GGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPPYPMPSFRADRPMGPFDMVDHRPPPPHSMEHMG ADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEAPNSEAPRNMPETVPPADFRKGAVAGTNQVATP SNATEVIIPRKYIGFICGANGSDLAEIKKNSEMMHSPAQDAVLRVHSRISESSMDKSSAVTARL LVPSQHIGCLLGKGGSIIAEMRKITGAGIRIFGNEQIPRCAQRNDELVQVTGSFQSIQDALLHI TGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPPYPMPSFRADRPMGPFD MVDHRPPPPHSMEHMGADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEAPNSEAPRNMPETVPPA DFRKGAVAGTNQVATPSNATEVIIPRKYIGFICGANGSDLAEIKKNSEMMHSPAQDAVLRVHSR ISESSMDKSSAVTARLLVPSQHIGCLLGKGGSIIAEMRKITGAGIRIFGNEQIPRCAQRNDELV QVTGSFQSIQDALLHITGRIRDVIIPMKPHPGGGMPPYPPGGNAPPHHPRQEPAPPHPTGGMPP YPMPSFRADRPMGPFDMVDHRPPPPHSMEHMGADRMPYSYGCEQGGGPRPFLDQPSPSAWAPEA PNSEAPRNMPETVPPADFRKGAVAGTNQVATPSNATEVIIPRKYIGFICGANGSDLAEIKK(+) MHPKYCILSWRMHHLRILLYLSKVTAIGSTNKTYVLAGNNDFSCIRWCSHLICSCHCSLSEICR WYCLRHISWSFTVWCLRSPGTW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0498600_circ_g.2

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