Plant Circular RNA Database

Detail information of Os05g0159000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0159000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026713
					
						Alias
						Os_ciR10193
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 3476457-3478160  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os05g0159000						
					
						Parent gene annotation
						
							HECT domain containing protein. (Os05t0159000-01)
							
						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
						Os05t0159000-01:5

General Information
CircRNA Name	Os05g0159000_circ_g.1
ID in PlantcircBase	osa_circ_026713
Alias	Os_ciR10193
Organism	Oryza sativa
Position	chr5: 3476457-3478160 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os05g0159000
Parent gene annotation	HECT domain containing protein. (Os05t0159000-01)
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	Os05t0159000-01:5

			
						 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  
						
							TGCTAAGAAAGTGCTACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAAGATT
GGGGCAAGGATTGGGTTATCTGAACTACTTGCACAGgcggctgacatcattgcagtctgtacat
cactgctggacgcgttgccaaccattacatcacctaccggaagtaagtatcatgccagtaaaaa
tattcccc

									
								

					

						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: 726
Transcript exons: 3476457-3476526,3476808-3476917,3476999-3477303,3477474-
3477570,3478017-3478160
GCGGCTGACATCATTGCAGTCTGTACATCACTGCTGGACGCGTTGCCAACCATTACATCACCTA
CCGGAAGGGCAGATGACGACGATGACACACCCATGGATGATGTCATTAATGGTCTTGATGCTGA
TTTGGAAAAACAAATTACTGCAGCAATTGATTCAAGGTTGCTTCAACATTTGGTGAATGCTCTG
TTCAGAGGCACAATTAGTACAGACTATTCTTATCCAACTGGACCGTCAGATATTGAGGTGGAAG
CTGTAGGATCTATATGTGCTTTTCTTCATGTCACATTCAACACATTGCCTGCAGAGCGGATTAT
GACTGGCCTGGCCTACCGGACTGAAATAGTTCCTGCACTATGGAACTTCATAAAGCGATGTAAT
GAGAACCAAAGCTGGCCACAATTTTCCAAGTTTGTCTCTTCTCCGCCTGCAGATGCCGTGGGTT
GGCTCCTACCTGTATCTGTATTCTGTCCCATATACAAGCACATGTTGAAGATAATTGATAACGG
GGAATTCTATGAACAAGAGAAACCTTTGTCACTTAAAGATTTGAAGTCCTTGGTTTTAATTCTA
AAGAAGGCTTTATGGGAACTTCTATGGGTTATTCCTTCACATGCCTCTCCTGCTAAGAAAGTGC
TACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAAGATTGGGGCAAGGATTGG
GTTATCTGAACTACTTGCACAG
						
					

						Genomic sequence
						
							GCGGCTGACATCATTGCAGTCTGTACATCACTGCTGGACGCGTTGCCAACCATTACATCACCTA
CCGGAAGTAAGTATCATGCCAGTAAAAATATTCCCCATTATTTGATAATATGACTTGCTAATAT
CATGCAGTAGCATTTTCTATTGCCATTTGTTTCTATCAGAGATTCTTGTGATACTGAGTAACAC
TTGCAACATATCTTCTGAAGTCTAAGTAATACACCTGCAGAAGTTTGTTGGAGGCATGCTTATG
TGGCTCAATATTTGCCCCTAATAAGCTTTTTAGTACCTTTTTGATAATGTACTCTAATAGTCTA
ATGTAAGTTGTATCCTTTTAAATATATGCAGGGGCAGATGACGACGATGACACACCCATGGATG
ATGTCATTAATGGTCTTGATGCTGATTTGGAAAAACAAATTACTGCAGCAATTGATTCAAGGTT
GCTTCAACATTTGGTATGCAGTCCCTTTTCTGGTCAAGATTTAATGGACTCCATACTATTGTTG
CTATTATCTGACAGCTGCTTGGATCATTAGGTGAATGCTCTGTTCAGAGGCACAATTAGTACAG
ACTATTCTTATCCAACTGGACCGTCAGATATTGAGGTGGAAGCTGTAGGATCTATATGTGCTTT
TCTTCATGTCACATTCAACACATTGCCTGCAGAGCGGATTATGACTGGCCTGGCCTACCGGACT
GAAATAGTTCCTGCACTATGGAACTTCATAAAGCGATGTAATGAGAACCAAAGCTGGCCACAAT
TTTCCAAGTTTGTCTCTTCTCCGCCTGCAGATGCCGTGGGTTGGCTCCTACCTGTATCTGTATT
CTGTCCCATATACAAGTAAGGCATATTATTTCATATCACTACAAATTTTCTGGTTATGTCTATA
TATTTATTTTATTTGATTTATTGCTTGAGCCTTTTTCTCTCAAGCAACTATAGTGTGGGAAATT
GAATCTTTTCTCTCAGGTTGTATCTTATATATGGTTTGTTACTTTACCATTTATCAGGCACATG
TTGAAGATAATTGATAACGGGGAATTCTATGAACAAGAGAAACCTTTGTCACTTAAAGATTTGA
AGTCCTTGGTTTTAATTCTAAAGAAGGTATGCATAAGACAATACCATCACTATGCTATTATTAT
GCATAGACTTGATCTGTTGTATTTCTTAAACATTAAAGCTGTAAATTAGTTGCTGTTATCCTCT
CATATTTGGTAACTTCAGTGGAAGTTCTGTTGTTATTCATGGGTTATTTTCTCAATATTTTACA
AGTTAGCTGCTTTCAGTCTTTCACAATAGTACCATGTGGTAAAAATATAGAGAGCAGAGGCCTT
TAGTTATTGCTTCCATCATTTTTTTTTCATGTAATGCTTTGAATGCTAGACTTTAACTCCCGTA
TGTTGCATCCACAATATGTATGATTTTCTTATATCAGTTAATTACATGATCTTAGCTTATGTTG
CATTTGCTGCTTTGATGTCTCTTCATAAATCATAATACACTATCCCACTCCGTCGTTGTCCTCA
CATGGTTAGCACCTCAATATGCAGGCTTTATGGGAACTTCTATGGGTTATTCCTTCACATGCCT
CTCCTGCTAAGAAAGTGCTACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAA
GATTGGGGCAAGGATTGGGTTATCTGAACTACTTGCACAG
						
					

			
		

Sequences
Splice junction sequence	TGCTAAGAAAGTGCTACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAAGATT GGGGCAAGGATTGGGTTATCTGAACTACTTGCACAGgcggctgacatcattgcagtctgtacat cactgctggacgcgttgccaaccattacatcacctaccggaagtaagtatcatgccagtaaaaa tattcccc
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: 726 Transcript exons: 3476457-3476526,3476808-3476917,3476999-3477303,3477474- 3477570,3478017-3478160 GCGGCTGACATCATTGCAGTCTGTACATCACTGCTGGACGCGTTGCCAACCATTACATCACCTA CCGGAAGGGCAGATGACGACGATGACACACCCATGGATGATGTCATTAATGGTCTTGATGCTGA TTTGGAAAAACAAATTACTGCAGCAATTGATTCAAGGTTGCTTCAACATTTGGTGAATGCTCTG TTCAGAGGCACAATTAGTACAGACTATTCTTATCCAACTGGACCGTCAGATATTGAGGTGGAAG CTGTAGGATCTATATGTGCTTTTCTTCATGTCACATTCAACACATTGCCTGCAGAGCGGATTAT GACTGGCCTGGCCTACCGGACTGAAATAGTTCCTGCACTATGGAACTTCATAAAGCGATGTAAT GAGAACCAAAGCTGGCCACAATTTTCCAAGTTTGTCTCTTCTCCGCCTGCAGATGCCGTGGGTT GGCTCCTACCTGTATCTGTATTCTGTCCCATATACAAGCACATGTTGAAGATAATTGATAACGG GGAATTCTATGAACAAGAGAAACCTTTGTCACTTAAAGATTTGAAGTCCTTGGTTTTAATTCTA AAGAAGGCTTTATGGGAACTTCTATGGGTTATTCCTTCACATGCCTCTCCTGCTAAGAAAGTGC TACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAAGATTGGGGCAAGGATTGG GTTATCTGAACTACTTGCACAG
Genomic sequence	GCGGCTGACATCATTGCAGTCTGTACATCACTGCTGGACGCGTTGCCAACCATTACATCACCTA CCGGAAGTAAGTATCATGCCAGTAAAAATATTCCCCATTATTTGATAATATGACTTGCTAATAT CATGCAGTAGCATTTTCTATTGCCATTTGTTTCTATCAGAGATTCTTGTGATACTGAGTAACAC TTGCAACATATCTTCTGAAGTCTAAGTAATACACCTGCAGAAGTTTGTTGGAGGCATGCTTATG TGGCTCAATATTTGCCCCTAATAAGCTTTTTAGTACCTTTTTGATAATGTACTCTAATAGTCTA ATGTAAGTTGTATCCTTTTAAATATATGCAGGGGCAGATGACGACGATGACACACCCATGGATG ATGTCATTAATGGTCTTGATGCTGATTTGGAAAAACAAATTACTGCAGCAATTGATTCAAGGTT GCTTCAACATTTGGTATGCAGTCCCTTTTCTGGTCAAGATTTAATGGACTCCATACTATTGTTG CTATTATCTGACAGCTGCTTGGATCATTAGGTGAATGCTCTGTTCAGAGGCACAATTAGTACAG ACTATTCTTATCCAACTGGACCGTCAGATATTGAGGTGGAAGCTGTAGGATCTATATGTGCTTT TCTTCATGTCACATTCAACACATTGCCTGCAGAGCGGATTATGACTGGCCTGGCCTACCGGACT GAAATAGTTCCTGCACTATGGAACTTCATAAAGCGATGTAATGAGAACCAAAGCTGGCCACAAT TTTCCAAGTTTGTCTCTTCTCCGCCTGCAGATGCCGTGGGTTGGCTCCTACCTGTATCTGTATT CTGTCCCATATACAAGTAAGGCATATTATTTCATATCACTACAAATTTTCTGGTTATGTCTATA TATTTATTTTATTTGATTTATTGCTTGAGCCTTTTTCTCTCAAGCAACTATAGTGTGGGAAATT GAATCTTTTCTCTCAGGTTGTATCTTATATATGGTTTGTTACTTTACCATTTATCAGGCACATG TTGAAGATAATTGATAACGGGGAATTCTATGAACAAGAGAAACCTTTGTCACTTAAAGATTTGA AGTCCTTGGTTTTAATTCTAAAGAAGGTATGCATAAGACAATACCATCACTATGCTATTATTAT GCATAGACTTGATCTGTTGTATTTCTTAAACATTAAAGCTGTAAATTAGTTGCTGTTATCCTCT CATATTTGGTAACTTCAGTGGAAGTTCTGTTGTTATTCATGGGTTATTTTCTCAATATTTTACA AGTTAGCTGCTTTCAGTCTTTCACAATAGTACCATGTGGTAAAAATATAGAGAGCAGAGGCCTT TAGTTATTGCTTCCATCATTTTTTTTTCATGTAATGCTTTGAATGCTAGACTTTAACTCCCGTA TGTTGCATCCACAATATGTATGATTTTCTTATATCAGTTAATTACATGATCTTAGCTTATGTTG CATTTGCTGCTTTGATGTCTCTTCATAAATCATAATACACTATCCCACTCCGTCGTTGTCCTCA CATGGTTAGCACCTCAATATGCAGGCTTTATGGGAACTTCTATGGGTTATTCCTTCACATGCCT CTCCTGCTAAGAAAGTGCTACCCAACCCTTCTGGATTTAAGAAGTTGTCAATTGAGAATGTCAA GATTGGGGCAAGGATTGGGTTATCTGAACTACTTGCACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.235693858

Conservation Information
Conserved circRNAs	NA
PMCS	0.235693858

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3476835-3478157(+)
3478052-3476999(+)
3476849-3477509(-)
						
						Potential amino acid sequence
						
							MDDVINGLDADLEKQITAAIDSRLLQHLVNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHV
TFNTLPAERIMTGLAYRTEIVPALWNFIKRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPI
YKHMLKIIDNGEFYEQEKPLSLKDLKSLVLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLS
IENVKIGARIGLSELLAQAADIIAVCTSLLDALPTITSPTGRADDDDDTPMDDVINGLDADLEK
QITAAIDSRLLQHLVNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGL
AYRTEIVPALWNFIKRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFY
EQEKPLSLKDLKSLVLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSE
LLAQAADIIAVCTSLLDALPTITSPTGRADDDDDTPMDDVINGLDADLEKQITAAIDSRLLQHL
VNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGLAYRTEIVPALWNFI
KRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFYEQEKPLSLKDLKSL
VLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSELLAQAADIIAVCTS
LLDALPTITSPTGRADDDDDTPMDDVINGLDADLEKQITAAIDSRLLQHLVNALFRGTISTDYS
YPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGLAYRTEIVPALWNFIKRCNENQSWPQFSK
FVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFYEQEKPLSLKDLKSLVLILKKALWELLWV
IPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSELLAQ(+)
MPLLLRKCYPTLLDLRSCQLRMSRLGQGLGYLNYLHRRLTSLQSVHHCWTRCQPLHHLPEGQMT
TMTHPWMMSLMVLMLIWKNKLLQQLIQGCFNIW*(+)
MTSSMGVSSSSSALPVGDVMVGNASSSDVQTAMMSAACASSSDNPILAPILTFSIDNFLNPEGL
GSTFLAGEACEGITHRSSHKAFFRIKTKDFKSLSDKGFSCS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3476835-3478157(+) 3478052-3476999(+) 3476849-3477509(-)
Potential amino acid sequence	MDDVINGLDADLEKQITAAIDSRLLQHLVNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHV TFNTLPAERIMTGLAYRTEIVPALWNFIKRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPI YKHMLKIIDNGEFYEQEKPLSLKDLKSLVLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLS IENVKIGARIGLSELLAQAADIIAVCTSLLDALPTITSPTGRADDDDDTPMDDVINGLDADLEK QITAAIDSRLLQHLVNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGL AYRTEIVPALWNFIKRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFY EQEKPLSLKDLKSLVLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSE LLAQAADIIAVCTSLLDALPTITSPTGRADDDDDTPMDDVINGLDADLEKQITAAIDSRLLQHL VNALFRGTISTDYSYPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGLAYRTEIVPALWNFI KRCNENQSWPQFSKFVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFYEQEKPLSLKDLKSL VLILKKALWELLWVIPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSELLAQAADIIAVCTS LLDALPTITSPTGRADDDDDTPMDDVINGLDADLEKQITAAIDSRLLQHLVNALFRGTISTDYS YPTGPSDIEVEAVGSICAFLHVTFNTLPAERIMTGLAYRTEIVPALWNFIKRCNENQSWPQFSK FVSSPPADAVGWLLPVSVFCPIYKHMLKIIDNGEFYEQEKPLSLKDLKSLVLILKKALWELLWV IPSHASPAKKVLPNPSGFKKLSIENVKIGARIGLSELLAQ(+) MPLLLRKCYPTLLDLRSCQLRMSRLGQGLGYLNYLHRRLTSLQSVHHCWTRCQPLHHLPEGQMT TMTHPWMMSLMVLMLIWKNKLLQQLIQGCFNIW(+) MTSSMGVSSSSSALPVGDVMVGNASSSDVQTAMMSAACASSSDNPILAPILTFSIDNFLNPEGL GSTFLAGEACEGITHRSSHKAFFRIKTKDFKSLSDKGFSCS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os05g0159000_circ_g.1

Address

Any questions?

Supported by