Plant Circular RNA Database

Detail information of Os10g0521700_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os10g0521700_circ_g.10
					
						ID in PlantcircBase
						osa_circ_007724
					
						Alias
						Os_ciR6859
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 20198730-20200117  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os10g0521700						
					
						Parent gene annotation
						
							Similar to Shaggy-related protein kinase NtK-1 (EC 2.7.1.-). (Os
10t0521700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0521700_circ_g.1 Os10g0521700_circ_g.2 Os10g0521700_circ_g.3 Os10g0521700_circ_g.4 Os10g0521700_circ_g.5 Os10g0521700_circ_g.6 Os10g0521700_circ_g.7 Os10g0521700_circ_g.8 Os10g0521700_circ_g.9 Os10g0521801_circ_g.1 Os10g0521801_circ_g.2 Os10g0521801_circ_g.3 Os10g0521801_circ_g.4 						
					
						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  
						
							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
						Os10t0521700-01:5

General Information
CircRNA Name	Os10g0521700_circ_g.10
ID in PlantcircBase	osa_circ_007724
Alias	Os_ciR6859
Organism	Oryza sativa
Position	chr10: 20198730-20200117 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os10g0521700
Parent gene annotation	Similar to Shaggy-related protein kinase NtK-1 (EC 2.7.1.-). (Os 10t0521700-01)
Parent gene strand	-
Alternative splicing	Os10g0521700_circ_g.1 Os10g0521700_circ_g.2 Os10g0521700_circ_g.3 Os10g0521700_circ_g.4 Os10g0521700_circ_g.5 Os10g0521700_circ_g.6 Os10g0521700_circ_g.7 Os10g0521700_circ_g.8 Os10g0521700_circ_g.9 Os10g0521801_circ_g.1 Os10g0521801_circ_g.2 Os10g0521801_circ_g.3 Os10g0521801_circ_g.4
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	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	Os10t0521700-01:5

			
						 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  
						
							CTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATATCTCCTGCTCCATCCTG
ATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACCcagtagattttgaggtttaatatctcga
tggcagacaccaacaacacgatggatatatgcaagggcacggcacatctatgaaaaatagtaaa
acacatta

									
								

					

						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: 756
Transcript exons: 20198730-20198804,20198908-20199180,20199285-20199344,20
199684-20199776,20199863-20200117
CAGTAGATTTTGAGGTTTAATATCTCGATGGCAGACACCAACAACACGATGGATATATGCAAGG
GCACGGCACATCTGATATGCATACAGCTTAACATGCAATATGGGCACACGCTGGTTCATCCGAT
TGTAGTATTTAGCAACACGATAAACTGTCTCTGAGACATATTCAAGTACAAGGTTGAGGTAAAC
TTCACCCCTCTCAGTCGTCGAAAAGAAGTGATGCTTTAGCTGGACCACATTAGGATGGTCAAGC
AGTTGCATTGTTTGGAGCTCTCTGTTCTTATATCTTTTATCTTGCAGAACCTTCTTAATGGCAA
CAGTCTCTCCAGTTTCCAAGCACTTGGCCTGAAAAACTACACCAAATGAACCAGTACCAACTAC
ACGTTCTGCCATGTATGATACCTTCTGCTTTGGCTTCCCATTTTGACCTCCAATTGATGTCACA
ATAATCTGACCTGTTTCTGTTCCATTTGCATTAACAATAACACCTTCAGATTCCTTATCATTAT
GGCCATCAACTTTATCATCACTTATTGTCATCTCATTCATTTCTTTTGGAAGAATATCCGCACC
TGCTTCTTCAGTTCTACCAGGATTCTTACTAGTAGATGTGCTTGCCTCAGCATCTCTATGAGAT
GAAGATGATTCTTGGTCTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATAT
CTCCTGCTCCATCCTGATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACC
						
					

						Genomic sequence
						
							CAGTAGATTTTGAGGTTTAATATCTCGATGGCAGACACCAACAACACGATGGATATATGCAAGG
GCACGGCACATCTATGAAAAATAGTAAAACACATTAGAACAAATAATTTCTTTAGAATCATGGA
TTTAACAGTTTGAAATGATCTACAAAGCTAAAATTATAACTTATACAGACCTGATATGCATACA
GCTTAACATGCAATATGGGCACACGCTGGTTCATCCGATTGTAGTATTTAGCAACACGATAAAC
TGTCTCTGAGACATATTCAAGTACAAGGTTGAGGTAAACTTCACCCCTCTCAGTCGTCGAAAAG
AAGTGATGCTTTAGCTGGACCACATTAGGATGGTCAAGCAGTTGCATTGTTTGGAGCTCTCTGT
TCTTATATCTTTTATCTTGCAGAACCTTCTTAATGGCAACAGTCTCTCCAGTTTCCAAGCACTT
GGCCTGTTTGTATCAATAACTGGTCAATAACTTTATGCCCAAATATTGTAAATTTCCATCATGA
CGAGGAGTAGCGATACAGAATGGCAAAATGTGAAATAATATACCTGAAAAACTACACCAAATGA
ACCAGTACCAACTACACGTTCTGCCATGTATGATACCTTCTGTAAAACAATTAGCACACATTAA
TGTTTGACCCTGCCTGTATGTAAAGAATGTAGTATAGCAAACATCCAAGAGAACGCTACTTTTT
CCTAAGCAAAAATACACAACCATCAGGAAGAAATAACACCCGCAATACTGATGGAATGCATTGC
ATCATAGTGTGTTTTTTTTCTTTTTTTTTGGGGGGTGGGGGGGGAGGGGGGTTGAAGGAAGGAA
TCTCCCAGTTTTCAGGGCATGAAGATATTTTCAGTGCTGATGCATTGTATTAATATCCAGCAGA
TCCAGCAGAACGCATGAGAGAGAATGGTGCAGATAAACATAATGGGTTGATGCATCACCTGCTT
TGGCTTCCCATTTTGACCTCCAATTGATGTCACAATAATCTGACCTGTTTCTGTTCCATTTGCA
TTAACAATAACACCTTCAGATTCCTATAATCAGAAAAACTACGACATAAGTAACGAAAGTAGGG
TGGCATTATGTCAAGAAGTGACAAGTCAAATGGTATCAAAATAACCTTATCATTATGGCCATCA
ACTTTATCATCACTTATTGTCATCTCATTCATTTCTTTTGGAAGAATATCCGCACCTGCTTCTT
CAGTTCTACCAGGATTCTTACTAGTAGATGTGCTTGCCTCAGCATCTCTATGAGATGAAGATGA
TTCTTGGTCTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATATCTCCTGCT
CCATCCTGATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACC
						
					

			
		

Sequences
Splice junction sequence	CTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATATCTCCTGCTCCATCCTG ATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACCcagtagattttgaggtttaatatctcga tggcagacaccaacaacacgatggatatatgcaagggcacggcacatctatgaaaaatagtaaa acacatta
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: 756 Transcript exons: 20198730-20198804,20198908-20199180,20199285-20199344,20 199684-20199776,20199863-20200117 CAGTAGATTTTGAGGTTTAATATCTCGATGGCAGACACCAACAACACGATGGATATATGCAAGG GCACGGCACATCTGATATGCATACAGCTTAACATGCAATATGGGCACACGCTGGTTCATCCGAT TGTAGTATTTAGCAACACGATAAACTGTCTCTGAGACATATTCAAGTACAAGGTTGAGGTAAAC TTCACCCCTCTCAGTCGTCGAAAAGAAGTGATGCTTTAGCTGGACCACATTAGGATGGTCAAGC AGTTGCATTGTTTGGAGCTCTCTGTTCTTATATCTTTTATCTTGCAGAACCTTCTTAATGGCAA CAGTCTCTCCAGTTTCCAAGCACTTGGCCTGAAAAACTACACCAAATGAACCAGTACCAACTAC ACGTTCTGCCATGTATGATACCTTCTGCTTTGGCTTCCCATTTTGACCTCCAATTGATGTCACA ATAATCTGACCTGTTTCTGTTCCATTTGCATTAACAATAACACCTTCAGATTCCTTATCATTAT GGCCATCAACTTTATCATCACTTATTGTCATCTCATTCATTTCTTTTGGAAGAATATCCGCACC TGCTTCTTCAGTTCTACCAGGATTCTTACTAGTAGATGTGCTTGCCTCAGCATCTCTATGAGAT GAAGATGATTCTTGGTCTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATAT CTCCTGCTCCATCCTGATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACC
Genomic sequence	CAGTAGATTTTGAGGTTTAATATCTCGATGGCAGACACCAACAACACGATGGATATATGCAAGG GCACGGCACATCTATGAAAAATAGTAAAACACATTAGAACAAATAATTTCTTTAGAATCATGGA TTTAACAGTTTGAAATGATCTACAAAGCTAAAATTATAACTTATACAGACCTGATATGCATACA GCTTAACATGCAATATGGGCACACGCTGGTTCATCCGATTGTAGTATTTAGCAACACGATAAAC TGTCTCTGAGACATATTCAAGTACAAGGTTGAGGTAAACTTCACCCCTCTCAGTCGTCGAAAAG AAGTGATGCTTTAGCTGGACCACATTAGGATGGTCAAGCAGTTGCATTGTTTGGAGCTCTCTGT TCTTATATCTTTTATCTTGCAGAACCTTCTTAATGGCAACAGTCTCTCCAGTTTCCAAGCACTT GGCCTGTTTGTATCAATAACTGGTCAATAACTTTATGCCCAAATATTGTAAATTTCCATCATGA CGAGGAGTAGCGATACAGAATGGCAAAATGTGAAATAATATACCTGAAAAACTACACCAAATGA ACCAGTACCAACTACACGTTCTGCCATGTATGATACCTTCTGTAAAACAATTAGCACACATTAA TGTTTGACCCTGCCTGTATGTAAAGAATGTAGTATAGCAAACATCCAAGAGAACGCTACTTTTT CCTAAGCAAAAATACACAACCATCAGGAAGAAATAACACCCGCAATACTGATGGAATGCATTGC ATCATAGTGTGTTTTTTTTCTTTTTTTTTGGGGGGTGGGGGGGGAGGGGGGTTGAAGGAAGGAA TCTCCCAGTTTTCAGGGCATGAAGATATTTTCAGTGCTGATGCATTGTATTAATATCCAGCAGA TCCAGCAGAACGCATGAGAGAGAATGGTGCAGATAAACATAATGGGTTGATGCATCACCTGCTT TGGCTTCCCATTTTGACCTCCAATTGATGTCACAATAATCTGACCTGTTTCTGTTCCATTTGCA TTAACAATAACACCTTCAGATTCCTATAATCAGAAAAACTACGACATAAGTAACGAAAGTAGGG TGGCATTATGTCAAGAAGTGACAAGTCAAATGGTATCAAAATAACCTTATCATTATGGCCATCA ACTTTATCATCACTTATTGTCATCTCATTCATTTCTTTTGGAAGAATATCCGCACCTGCTTCTT CAGTTCTACCAGGATTCTTACTAGTAGATGTGCTTGCCTCAGCATCTCTATGAGATGAAGATGA TTCTTGGTCTACGCGCATAGGTTTGTCATCAGTTAGATGTGGCTCAATGACTATATCTCCTGCT CCATCCTGATCGAATTTTGGTCTTTTGGTGCCAGAATCACCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.495116718

Conservation Information
Conserved circRNAs	NA
PMCS	0.495116718

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20200047-20198732(+)
20200029-20198732(-)
20198932-20200062(-)
						
						Potential amino acid sequence
						
							MWLNDYISCSILIEFWSFGARITTQ*(+)
MRVDQESSSSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNA
NGTETGQIIVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYK
NRELQTMQLLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVK
LYAYQMCRALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVD
QESSSSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTE
TGQIIVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNREL
QTMQLLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAY
QMCRALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVDQESS
SSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTETGQI
IVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNRELQTMQ
LLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAYQMCR
ALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVDQESSSSHR
DAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTETGQIIVTS
IGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNRELQTMQLLDH
PNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAYQMCRALAY
IHRVVGVCHRDIKPQNLL(-)
MLSCMHIRCAVPLHISIVLLVSAIEILNLKIYWVVILAPKDQNSIRMEQEI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20200047-20198732(+) 20200029-20198732(-) 20198932-20200062(-)
Potential amino acid sequence	MWLNDYISCSILIEFWSFGARITTQ(+) MRVDQESSSSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNA NGTETGQIIVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYK NRELQTMQLLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVK LYAYQMCRALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVD QESSSSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTE TGQIIVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNREL QTMQLLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAY QMCRALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVDQESS SSHRDAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTETGQI IVTSIGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNRELQTMQ LLDHPNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAYQMCR ALAYIHRVVGVCHRDIKPQNLLGGDSGTKRPKFDQDGAGDIVIEPHLTDDKPMRVDQESSSSHR DAEASTSTSKNPGRTEEAGADILPKEMNEMTISDDKVDGHNDKESEGVIVNANGTETGQIIVTS IGGQNGKPKQKVSYMAERVVGTGSFGVVFQAKCLETGETVAIKKVLQDKRYKNRELQTMQLLDH PNVVQLKHHFFSTTERGEVYLNLVLEYVSETVYRVAKYYNRMNQRVPILHVKLYAYQMCRALAY IHRVVGVCHRDIKPQNLL(-) MLSCMHIRCAVPLHISIVLLVSAIEILNLKIYWVVILAPKDQNSIRMEQEI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os10g0521700_circ_g.10

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