Plant Circular RNA Database

Detail information of Os10g0359500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os10g0359500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_006580
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 11036863-11039316  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os10g0359500						
					
						Parent gene annotation
						
							No apical meristem (NAM) protein domain containing protein. (Os1
0t0359500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0359500_circ_g.1 Os10g0359500_circ_g.2 Os10g0359500_circ_g.4 Os10g0359500_circ_g.5 Os10g0359500_circ_g.6 						
					
						Support reads
						1
					
						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
						Os10t0359500-01:4

General Information
CircRNA Name	Os10g0359500_circ_g.3
ID in PlantcircBase	osa_circ_006580
Alias	NA
Organism	Oryza sativa
Position	chr10: 11036863-11039316 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os10g0359500
Parent gene annotation	No apical meristem (NAM) protein domain containing protein. (Os1 0t0359500-01)
Parent gene strand	-
Alternative splicing	Os10g0359500_circ_g.1 Os10g0359500_circ_g.2 Os10g0359500_circ_g.4 Os10g0359500_circ_g.5 Os10g0359500_circ_g.6
Support reads	1
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	Os10t0359500-01:4

			
						 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  
						
							CCTCTCTGCTAAGAATCGGACAAGCTCCTCATCGCTCCAAAATTTGCTTATGCTGGTGTTAAGT
AATGCTAACCCAGGAACTTTAGAAGACATGATTGTCcttgttcaggtggactgataaccacgca
atctgatttactagctgcagctacgctgaacttgctgtctgtatgttcttcatcagctgcgtta
tggtcatt

									
								

					

						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
						
							CTTGTTCAGGTGGACTGATAACCACGCAATCTGATTTACTAGCTGCAGCTACGCTGAACTTGCT
GTCTGTATGTTCTTCATCAGCTGCGTTATGGTCATTCCTAATCTCCCTCAGAAATGCATCAGAA
TCGAAGTACTCTTCAGAAATCATAGTGCGTTGACTTGAGTATTCCGAAGTTGATGCGGACGAAT
CTGAGTTTAAGAAGTCATTCAATTCTATGTAGCCCTCCCTAGAAGGGGCATGATTAACAGATTG
GTCATCAGCAGCACTAGTTTTTTGCCCGTCCAGTCCTTTGCTGGAAGAGACATCTTGCTCGTTT
ACAGATACAGCCTGGCATATGTAGATTGGATATTCATTAGTATTATCACACATCTAAATATTCA
CAGTTTGTAATGCAGAAGAAAGCAATAAGTAGTAAATGATGATCGGATAGGAGCATGCTCTCAC
AAACAACAGATTTTGTATGGTTATGAAGGAGAAAACCTTAAATACTTCAAAATCAAAATAAAAA
AGTGAATTACAATGACAGGATTGCTGGAGTATTTCTTAATTTTACATGACAGACAATCATGGAT
CAAGGTATACTTTACACTAAAATGAGAAAAAATATGTGCAAAACTAAAAGATCCAGGGTATTGC
TAAGGATGCCTTACATAATAAAGAAAACAATACAAACCTGGTTGCTCCATGCAGCATTTTGCTC
TTCTAGTTCAGCAAGATATTGAAGGTAAAATTCCTTGCGTTCATTAGGAACATTTGCATTCAGA
CATATCTGCTTATCTCCAGCATTTAATATGTCGTCTCCCTGAAAGAATATTGTACACAAATTCT
TGTAGTCCTGTCAAAAATACAAAAGATATCAATCAACAACCCTGGAAAAAAAGCTTATATGCTA
TAGAAAAAAAAATGATATCAATCAACCACCATGGGTTACCTGTGGTAGATTAGCTTCGTCATTC
TGTTCAATCAGATATTCATCCATCACCCACCCAGTTCTCTTACCAGATGGTGCTTCGCCTTCAT
AATGGTCCAGAGAAACTTTCATACCCACAATAACAGTACTTGTCGGTATTCTAACAGTGCCAAC
AACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATTGTGGA
TCATCTGAAAAATTCATGTACCATATGTCCTCTGCAAGAAAAGTTATCTCTGTCAGATTATCTT
TTATTGAGGTTTAACAAGATAATAAGCCATTAAGCACCATTGTGGTTTTCATTGTAGGAATAGC
TTAACTCTAGGATATAGCACCGCTGGTCACAGTGAACTGTGGACTTGTGCTATGCAAAAAAGAG
TAAACTTTAGTTCTGATACCTCAGAAAATTTGCAATCAAATCTTTATTGAAACCAGGCACCAGT
TACCAATTTAAAACATGCAAGAATGTTATTAATATATGATTCCAGTAGATTTATGTACTATGTG
TTATGATGTGGGATACTGAAGAGTGCAGAGACACATATCAACAACTTAGGTGCACATTTTAGTG
TGGAAAGTGAACTGAAGCCCCAAAATCTAAGCACATGATCTGCTTGTATAGTGACTCCAACTAA
AAACAAAAGTTGATAATTAATTGCATATACTGAATTCTGACATCTTCGAAAACTTAATTTTCAC
TTGGAAACAATGATTTTGCATAATTGGAGAATCTAGTAAGGATGGCAGAGTAAGTTCTAGCCAA
GCAACACAGTGAACAGAATTTAATCATCAAAGAGTGTACTTCATACTTTTCCAGCAAAAGCAGG
CAAGCAATTGGTGCACAAGCTAAGAAAAATGAAAAACAAAATGCTCAATTTAATGTGAAGTGCC
AAACTATTTCTCATATAACATCCTGCTATAGTTTATGAGCACTTCATGCTGGCAATTTGTGCCA
TAATCAATGGGGCAGAAGTATGTGTTCCTGCACTTAACATGGCACTTTCATCAGAGCTCAAAAT
ATTTCTTTCTGGCATTGCATAAAATATTGTTTATGCCTTTCAACCCTAAATAGTTATCAATTCT
ATGCAGAATTCATTTTCTTTAGTTGTCTATTGAGAATTAAAATGTTGCAATACTGCTCAACCAT
ACAATACAATGCTGTAAAGTAAGTATATAACAAATCAAAAAGGACAAAACAAAGAAGCCTTCAG
GGTCCATAATGACTGAATTATGAAAGTCAGACCACAAATTCCACATATGCCATAATCTTGTTGG
AAAATACCATTAATTATCCTGTGTATAGATTGGATGCAAACCTGAGTTACGTGGATCAATGAGA
GAAATGTTCATTCCCACAAATACATTCTCTGGCAGAGAGTGTGCTTCTTTCCTCTCTGCTAAGA
ATCGGACAAGCTCCTCATCGCTCCAAAATTTGCTTATGCTGGTGTTAAGTAATGCTAACCCAGG
AACTTTAGAAGACATGATTGTC
						
					

			
		

Sequences
Splice junction sequence	CCTCTCTGCTAAGAATCGGACAAGCTCCTCATCGCTCCAAAATTTGCTTATGCTGGTGTTAAGT AATGCTAACCCAGGAACTTTAGAAGACATGATTGTCcttgttcaggtggactgataaccacgca atctgatttactagctgcagctacgctgaacttgctgtctgtatgttcttcatcagctgcgtta tggtcatt
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	CTTGTTCAGGTGGACTGATAACCACGCAATCTGATTTACTAGCTGCAGCTACGCTGAACTTGCT GTCTGTATGTTCTTCATCAGCTGCGTTATGGTCATTCCTAATCTCCCTCAGAAATGCATCAGAA TCGAAGTACTCTTCAGAAATCATAGTGCGTTGACTTGAGTATTCCGAAGTTGATGCGGACGAAT CTGAGTTTAAGAAGTCATTCAATTCTATGTAGCCCTCCCTAGAAGGGGCATGATTAACAGATTG GTCATCAGCAGCACTAGTTTTTTGCCCGTCCAGTCCTTTGCTGGAAGAGACATCTTGCTCGTTT ACAGATACAGCCTGGCATATGTAGATTGGATATTCATTAGTATTATCACACATCTAAATATTCA CAGTTTGTAATGCAGAAGAAAGCAATAAGTAGTAAATGATGATCGGATAGGAGCATGCTCTCAC AAACAACAGATTTTGTATGGTTATGAAGGAGAAAACCTTAAATACTTCAAAATCAAAATAAAAA AGTGAATTACAATGACAGGATTGCTGGAGTATTTCTTAATTTTACATGACAGACAATCATGGAT CAAGGTATACTTTACACTAAAATGAGAAAAAATATGTGCAAAACTAAAAGATCCAGGGTATTGC TAAGGATGCCTTACATAATAAAGAAAACAATACAAACCTGGTTGCTCCATGCAGCATTTTGCTC TTCTAGTTCAGCAAGATATTGAAGGTAAAATTCCTTGCGTTCATTAGGAACATTTGCATTCAGA CATATCTGCTTATCTCCAGCATTTAATATGTCGTCTCCCTGAAAGAATATTGTACACAAATTCT TGTAGTCCTGTCAAAAATACAAAAGATATCAATCAACAACCCTGGAAAAAAAGCTTATATGCTA TAGAAAAAAAAATGATATCAATCAACCACCATGGGTTACCTGTGGTAGATTAGCTTCGTCATTC TGTTCAATCAGATATTCATCCATCACCCACCCAGTTCTCTTACCAGATGGTGCTTCGCCTTCAT AATGGTCCAGAGAAACTTTCATACCCACAATAACAGTACTTGTCGGTATTCTAACAGTGCCAAC AACTTTCCAGTATCCGGTTTTTGACTTTATAATAGCATTTTCTCCATTCTTAGGGGATTGTGGA TCATCTGAAAAATTCATGTACCATATGTCCTCTGCAAGAAAAGTTATCTCTGTCAGATTATCTT TTATTGAGGTTTAACAAGATAATAAGCCATTAAGCACCATTGTGGTTTTCATTGTAGGAATAGC TTAACTCTAGGATATAGCACCGCTGGTCACAGTGAACTGTGGACTTGTGCTATGCAAAAAAGAG TAAACTTTAGTTCTGATACCTCAGAAAATTTGCAATCAAATCTTTATTGAAACCAGGCACCAGT TACCAATTTAAAACATGCAAGAATGTTATTAATATATGATTCCAGTAGATTTATGTACTATGTG TTATGATGTGGGATACTGAAGAGTGCAGAGACACATATCAACAACTTAGGTGCACATTTTAGTG TGGAAAGTGAACTGAAGCCCCAAAATCTAAGCACATGATCTGCTTGTATAGTGACTCCAACTAA AAACAAAAGTTGATAATTAATTGCATATACTGAATTCTGACATCTTCGAAAACTTAATTTTCAC TTGGAAACAATGATTTTGCATAATTGGAGAATCTAGTAAGGATGGCAGAGTAAGTTCTAGCCAA GCAACACAGTGAACAGAATTTAATCATCAAAGAGTGTACTTCATACTTTTCCAGCAAAAGCAGG CAAGCAATTGGTGCACAAGCTAAGAAAAATGAAAAACAAAATGCTCAATTTAATGTGAAGTGCC AAACTATTTCTCATATAACATCCTGCTATAGTTTATGAGCACTTCATGCTGGCAATTTGTGCCA TAATCAATGGGGCAGAAGTATGTGTTCCTGCACTTAACATGGCACTTTCATCAGAGCTCAAAAT ATTTCTTTCTGGCATTGCATAAAATATTGTTTATGCCTTTCAACCCTAAATAGTTATCAATTCT ATGCAGAATTCATTTTCTTTAGTTGTCTATTGAGAATTAAAATGTTGCAATACTGCTCAACCAT ACAATACAATGCTGTAAAGTAAGTATATAACAAATCAAAAAGGACAAAACAAAGAAGCCTTCAG GGTCCATAATGACTGAATTATGAAAGTCAGACCACAAATTCCACATATGCCATAATCTTGTTGG AAAATACCATTAATTATCCTGTGTATAGATTGGATGCAAACCTGAGTTACGTGGATCAATGAGA GAAATGTTCATTCCCACAAATACATTCTCTGGCAGAGAGTGTGCTTCTTTCCTCTCTGCTAAGA ATCGGACAAGCTCCTCATCGCTCCAAAATTTGCTTATGCTGGTGTTAAGTAATGCTAACCCAGG AACTTTAGAAGACATGATTGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.200073204

Conservation Information
Conserved circRNAs	NA
PMCS	0.200073204

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11038031-11036877(+)
11039311-11039287(-)
						
						Potential amino acid sequence
						
							MYHMSSELRGSMREMFIPTNTFSGRECASFLSAKNRTSSSSLQNLLMLVLSNANPGTLEDMIVL
VQVD*(+)
MSSKVPGLALLNTSISKFWSDEELVRFLAERKEAHSLPENVFVGMNISLIDPRNSEDIWYMNFS
DDPQSPKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLI
EQNDEANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQ
AVSVNEQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISE
EYFDSDAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQGQSCLLKFLG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11038031-11036877(+) 11039311-11039287(-)
Potential amino acid sequence	MYHMSSELRGSMREMFIPTNTFSGRECASFLSAKNRTSSSSLQNLLMLVLSNANPGTLEDMIVL VQVD(+) MSSKVPGLALLNTSISKFWSDEELVRFLAERKEAHSLPENVFVGMNISLIDPRNSEDIWYMNFS DDPQSPKNGENAIIKSKTGYWKVVGTVRIPTSTVIVGMKVSLDHYEGEAPSGKRTGWVMDEYLI EQNDEANLPQDYKNLCTIFFQGDDILNAGDKQICLNANVPNERKEFYLQYLAELEEQNAAWSNQ AVSVNEQDVSSSKGLDGQKTSAADDQSVNHAPSREGYIELNDFLNSDSSASTSEYSSQRTMISE EYFDSDAFLREIRNDHNAADEEHTDSKFSVAAASKSDCVVISPPEQGQSCLLKFLG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0359500_circ_g.3

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