Plant Circular RNA Database

Detail information of Os05g0247900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0247900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_027171
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 8968017-8970481  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0247900						
					
						Parent gene annotation
						
							DEAD-like helicase, N-terminal domain containing protein. (Os05t
0247900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0247900_circ_g.2 						
					
						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
						Os05t0247900-01:4

General Information
CircRNA Name	Os05g0247900_circ_g.1
ID in PlantcircBase	osa_circ_027171
Alias	NA
Organism	Oryza sativa
Position	chr5: 8968017-8970481 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0247900
Parent gene annotation	DEAD-like helicase, N-terminal domain containing protein. (Os05t 0247900-01)
Parent gene strand	-
Alternative splicing	Os05g0247900_circ_g.2
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	Os05t0247900-01:4

			
						 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  
						
							TATCTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTGCTTCTCAATTTCGTCTTT
CAGGTTTGGCTTTATCAGCTCCAGATGGTTACTGATcacaatggtacaaattcttgttctcgtt
atgtattgctgtcattgaggatttcatttgatcttgcgtaccaaatatatttgtatcaactatt
tctcgaat

									
								

					

						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: 886
Transcript exons: 8968017-8968251,8969166-8969441,8969531-8969657,8970234-
8970481
CACAATGGTACAAATTCTTGTTCTCGTTATGTATTGCTGTCATTGAGGATTTCATTTGATCTTG
CGTACCAAATATATTTGTATCAACTATTTCTCGAATTCCTATTGTTTCAGCTGTATTACCCTTC
CCATGTTCTCCATGCATTTCAATGATCTCACTGGTGAAAAGCTTATCAGACAAGTCGCGAAACA
GATTGCATATCCCAAAGAGCTCACCTTGAAATTTTTTGTCATCCTGCACTCCTTCAAAGTAACG
TTTTTCTATTTTTCCAGAGACCGCAATATTGGAAAGCTGTTGCTTATATATTTGTCGAGAATAA
ATAAGCTCTTCAAGGGAACCAGCACCAAGTAGGCGAAATACAGTGACATGCCGCCTCTGTCCAA
ATCGAAATGACCTGTCTTGCGCTTGCAAGTCTTGCGCAGGGTTCCAACTTGGGTCAAAAATCAC
CACACGATTAGCACTGACCAGGTTGACACCTAAATTTCCTGCCCGTGTAGATATAAGGAAAACC
TGTTTGCTTGGGCATCTATTGAACTCATCAATTAGTAATTGGCGTGCATTCATGGGAGTCGTTC
CATCAAAGCGAGAAAAGCAGTAACCCTTCCGTATAAGAAATTTCTCTAGTATGTCAAGCATCCT
GACTGAATAGCTGAAAAGAAGAATTTTGTCACCCTGCAGAGTCCATAATGACAATAGTCTTTCC
AACGCACGCATCTTTCCACAATGTTCTGCATCACTGAGACCCATGAAGTTTTCACTTTTAGCAC
CTCCACCAACTAATTCAATATCTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTG
CTTCTCAATTTCGTCTTTCAGGTTTGGCTTTATCAGCTCCAGATGGTTACTGAT
						
					

						Genomic sequence
						
							CACAATGGTACAAATTCTTGTTCTCGTTATGTATTGCTGTCATTGAGGATTTCATTTGATCTTG
CGTACCAAATATATTTGTATCAACTATTTCTCGAATTCCTATTGTTTCAGCTGTATTACCCTTC
CCATGTTCTCCATGCATTTCAATGATCTCACTGGTGAAAAGCTTATCAGACAAGTCGCGAAACA
GATTGCATATCCCAAAGAGCTCACCTTGAAATTTTTTGTCATCCTAAAATCATATAATTATACA
ATTTATATAAACAAAGCACCAAAGCCAAGTGTGATTATTCTTAAAACGTGAAAGGTATATGTGC
TGGTAAATGACTAAGAAACTTCAAGAGAGTGACGCATAACTTCATGACTTCTGAACTGTCGAAA
TGTAATCTAGTGAATTGATAGATGCCTTATTCTAAAAAAAAGTATTCATGTTAACACAGAATTT
GGAAAGTCATGAGGTAAGGTGAGAAAACTATCTAGTTAAAAAAGGCAGCATTGCCCTAGATTTA
ATACATGTAGTGACACATCATTTTACTATTCAGGTGCCATAGGACACTGCAACAGAAAATAATG
AATCTACCTTAAGTGCTGTATGTGTATTATGAGTGCAACCATTCTCTTATGCCTATGACTGCTA
AGCTAGGAACCAAAATAGGAAGTACATTAACATATGGTGATGTATGCAACAATGTAGGAATAGT
GCAAGGCAGTTCATGTGTCACGTGTTTGATTCTGCTAAATTGCTACTCTTAACAACAAATATTA
ATATCAGTATCATGTGGATTACACAATGTCTACGCTTGTTTGTTAACAATACATCATCCAGGTA
GTTTGCATCAACTTACAAACTCTAAATTCTCTGGTGAGTATATTAAACTGCATAATCAAATGGT
CGAAATACAATAATTTTCTGAATAAAATATGAATGTTATGATTGTAATAATCAGTCCAAATACA
AGCACGGGAGAAACACGTATTTTGGGAAATGGAAAAAATATAAGGACCTAAATGACTAGGTAAT
TCAGGGAAATGATTTTAGAACAGGAAAAGGGAATCATATTAGGATGGTCCACAATTGTACCACC
CTTCAAGTAATTGAAACAATCAATCCAATTTCATCAAAATGCATTAGTTTTACAACATTACCTG
CACTCCTTCAAAGTAACGTTTTTCTATTTTTCCAGAGACCGCAATATTGGAAAGCTGTTGCTTA
TATATTTGTCGAGAATAAATAAGCTCTTCAAGGGAACCAGCACCAAGTAGGCGAAATACAGTGA
CATGCCGCCTCTGTCCAAATCGAAATGACCTGTCTTGCGCTTGCAAGTCTTGCGCAGGGTTCCA
ACTTGGGTCAAAAATCACCACACGATTAGCACTGACCAGGTTGACACCTAAATTTCCTGCCCGT
GTAGATATAAGGAAAACCTGTAGAAAAGCAATTCACCATTTGACGATGCTAATCTAAAAAGTTC
TTTTGGCAGCGAGTACTGAAATGCACATCAACAGGAAGTTACCTGTTTGCTTGGGCATCTATTG
AACTCATCAATTAGTAATTGGCGTGCATTCATGGGAGTCGTTCCATCAAAGCGAGAAAAGCAGT
AACCCTTCCGTATAAGAAATTTCTCTAGTATGTCAAGCATCCTGGTTGTCAATTTATGCATGAA
CAAGTGATTACACATGCAGAAGATATAACATCAAGCAGCATATCTAAATCGCAAGTACTGTCAA
GAAACGTTCCAAGAAGCAAACGCAGTGAACAAGAACTAAGATAGATGCTTAAGAGAAAAATAAG
CTATTCGATACAAGCAAGTTTTGTTTTAACTTACTTTCAGGTCTAAATAAATAGGTTTAGTTTG
TGTTCAGTGTAACCTGTCTAATCACATTCCCTAAAAGTGTATTTAAAGAAAGGCAAGTAGAAGG
AAGTTTACATCTATTCAATGATTTAACGCTCTATACTGTCAAAGGTATATAAACCACAACTTCA
GCAAAAACTGGAGCATGATGGGCTTGTGAGAAATTATACCCACTACAGTAAGTAATGATATTTT
ATGAACATTTAGTAACAATCAATTCCAAGGTCTTACATCAATAAGAGCTTTTTGTTCAACATCA
AATATGGTTTAAAACAAAGAAATTTTCTGACTTGTGAGATATGTTATTCTTGCTTTAATCTTCA
TGCTTACTGAAGCATTGGACACATTGGGGATAACCACTCACCTGACTGAATAGCTGAAAAGAAG
AATTTTGTCACCCTGCAGAGTCCATAATGACAATAGTCTTTCCAACGCACGCATCTTTCCACAA
TGTTCTGCATCACTGAGACCCATGAAGTTTTCACTTTTAGCACCTCCACCAACTAATTCAATAT
CTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTGCTTCTCAATTTCGTCTTTCAG
GTTTGGCTTTATCAGCTCCAGATGGTTACTGAT
						
					

			
		

Sequences
Splice junction sequence	TATCTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTGCTTCTCAATTTCGTCTTT CAGGTTTGGCTTTATCAGCTCCAGATGGTTACTGATcacaatggtacaaattcttgttctcgtt atgtattgctgtcattgaggatttcatttgatcttgcgtaccaaatatatttgtatcaactatt tctcgaat
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: 886 Transcript exons: 8968017-8968251,8969166-8969441,8969531-8969657,8970234- 8970481 CACAATGGTACAAATTCTTGTTCTCGTTATGTATTGCTGTCATTGAGGATTTCATTTGATCTTG CGTACCAAATATATTTGTATCAACTATTTCTCGAATTCCTATTGTTTCAGCTGTATTACCCTTC CCATGTTCTCCATGCATTTCAATGATCTCACTGGTGAAAAGCTTATCAGACAAGTCGCGAAACA GATTGCATATCCCAAAGAGCTCACCTTGAAATTTTTTGTCATCCTGCACTCCTTCAAAGTAACG TTTTTCTATTTTTCCAGAGACCGCAATATTGGAAAGCTGTTGCTTATATATTTGTCGAGAATAA ATAAGCTCTTCAAGGGAACCAGCACCAAGTAGGCGAAATACAGTGACATGCCGCCTCTGTCCAA ATCGAAATGACCTGTCTTGCGCTTGCAAGTCTTGCGCAGGGTTCCAACTTGGGTCAAAAATCAC CACACGATTAGCACTGACCAGGTTGACACCTAAATTTCCTGCCCGTGTAGATATAAGGAAAACC TGTTTGCTTGGGCATCTATTGAACTCATCAATTAGTAATTGGCGTGCATTCATGGGAGTCGTTC CATCAAAGCGAGAAAAGCAGTAACCCTTCCGTATAAGAAATTTCTCTAGTATGTCAAGCATCCT GACTGAATAGCTGAAAAGAAGAATTTTGTCACCCTGCAGAGTCCATAATGACAATAGTCTTTCC AACGCACGCATCTTTCCACAATGTTCTGCATCACTGAGACCCATGAAGTTTTCACTTTTAGCAC CTCCACCAACTAATTCAATATCTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTG CTTCTCAATTTCGTCTTTCAGGTTTGGCTTTATCAGCTCCAGATGGTTACTGAT
Genomic sequence	CACAATGGTACAAATTCTTGTTCTCGTTATGTATTGCTGTCATTGAGGATTTCATTTGATCTTG CGTACCAAATATATTTGTATCAACTATTTCTCGAATTCCTATTGTTTCAGCTGTATTACCCTTC CCATGTTCTCCATGCATTTCAATGATCTCACTGGTGAAAAGCTTATCAGACAAGTCGCGAAACA GATTGCATATCCCAAAGAGCTCACCTTGAAATTTTTTGTCATCCTAAAATCATATAATTATACA ATTTATATAAACAAAGCACCAAAGCCAAGTGTGATTATTCTTAAAACGTGAAAGGTATATGTGC TGGTAAATGACTAAGAAACTTCAAGAGAGTGACGCATAACTTCATGACTTCTGAACTGTCGAAA TGTAATCTAGTGAATTGATAGATGCCTTATTCTAAAAAAAAGTATTCATGTTAACACAGAATTT GGAAAGTCATGAGGTAAGGTGAGAAAACTATCTAGTTAAAAAAGGCAGCATTGCCCTAGATTTA ATACATGTAGTGACACATCATTTTACTATTCAGGTGCCATAGGACACTGCAACAGAAAATAATG AATCTACCTTAAGTGCTGTATGTGTATTATGAGTGCAACCATTCTCTTATGCCTATGACTGCTA AGCTAGGAACCAAAATAGGAAGTACATTAACATATGGTGATGTATGCAACAATGTAGGAATAGT GCAAGGCAGTTCATGTGTCACGTGTTTGATTCTGCTAAATTGCTACTCTTAACAACAAATATTA ATATCAGTATCATGTGGATTACACAATGTCTACGCTTGTTTGTTAACAATACATCATCCAGGTA GTTTGCATCAACTTACAAACTCTAAATTCTCTGGTGAGTATATTAAACTGCATAATCAAATGGT CGAAATACAATAATTTTCTGAATAAAATATGAATGTTATGATTGTAATAATCAGTCCAAATACA AGCACGGGAGAAACACGTATTTTGGGAAATGGAAAAAATATAAGGACCTAAATGACTAGGTAAT TCAGGGAAATGATTTTAGAACAGGAAAAGGGAATCATATTAGGATGGTCCACAATTGTACCACC CTTCAAGTAATTGAAACAATCAATCCAATTTCATCAAAATGCATTAGTTTTACAACATTACCTG CACTCCTTCAAAGTAACGTTTTTCTATTTTTCCAGAGACCGCAATATTGGAAAGCTGTTGCTTA TATATTTGTCGAGAATAAATAAGCTCTTCAAGGGAACCAGCACCAAGTAGGCGAAATACAGTGA CATGCCGCCTCTGTCCAAATCGAAATGACCTGTCTTGCGCTTGCAAGTCTTGCGCAGGGTTCCA ACTTGGGTCAAAAATCACCACACGATTAGCACTGACCAGGTTGACACCTAAATTTCCTGCCCGT GTAGATATAAGGAAAACCTGTAGAAAAGCAATTCACCATTTGACGATGCTAATCTAAAAAGTTC TTTTGGCAGCGAGTACTGAAATGCACATCAACAGGAAGTTACCTGTTTGCTTGGGCATCTATTG AACTCATCAATTAGTAATTGGCGTGCATTCATGGGAGTCGTTCCATCAAAGCGAGAAAAGCAGT AACCCTTCCGTATAAGAAATTTCTCTAGTATGTCAAGCATCCTGGTTGTCAATTTATGCATGAA CAAGTGATTACACATGCAGAAGATATAACATCAAGCAGCATATCTAAATCGCAAGTACTGTCAA GAAACGTTCCAAGAAGCAAACGCAGTGAACAAGAACTAAGATAGATGCTTAAGAGAAAAATAAG CTATTCGATACAAGCAAGTTTTGTTTTAACTTACTTTCAGGTCTAAATAAATAGGTTTAGTTTG TGTTCAGTGTAACCTGTCTAATCACATTCCCTAAAAGTGTATTTAAAGAAAGGCAAGTAGAAGG AAGTTTACATCTATTCAATGATTTAACGCTCTATACTGTCAAAGGTATATAAACCACAACTTCA GCAAAAACTGGAGCATGATGGGCTTGTGAGAAATTATACCCACTACAGTAAGTAATGATATTTT ATGAACATTTAGTAACAATCAATTCCAAGGTCTTACATCAATAAGAGCTTTTTGTTCAACATCA AATATGGTTTAAAACAAAGAAATTTTCTGACTTGTGAGATATGTTATTCTTGCTTTAATCTTCA TGCTTACTGAAGCATTGGACACATTGGGGATAACCACTCACCTGACTGAATAGCTGAAAAGAAG AATTTTGTCACCCTGCAGAGTCCATAATGACAATAGTCTTTCCAACGCACGCATCTTTCCACAA TGTTCTGCATCACTGAGACCCATGAAGTTTTCACTTTTAGCACCTCCACCAACTAATTCAATAT CTGTGTCAAAGACAGCAGCTGCAAGCTCAGCATCTTTCTTCTGCTTCTCAATTTCGTCTTTCAG GTTTGGCTTTATCAGCTCCAGATGGTTACTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.258420676

Conservation Information
Conserved circRNAs	NA
PMCS	0.258420676

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8970471-8968166(+)
8970343-8968059(+)
8970345-8970476(-)
						
						Potential amino acid sequence
						
							MVTDHNGTNSCSRYVLLSLRISFDLAYQIYLYQLFLEFLLFQLYYPSHVLHAFQ*(+)
MKFSLLAPPPTNSISVSKTAAASSASFFCFSISSFRFGFISSRWLLITMVQILVLVMYCCH*(+
)
MGLSDAEHCGKMRALERLLSLWTLQGDKILLFSYSVRMLDILEKFLIRKGYCFSRFDGTTPMNA
RQLLIDEFNRCPSKQVFLISTRAGNLGVNLVSANRVVIFDPSWNPAQDLQAQDRSFRFGQRRHV
TVFRLLGAGSLEELIYSRQIYKQQLSNIAVSGKIEKRYFEGVQDDKKFQGELFGICNLFRDLSD
KLFTSEIIEMHGEHGKGNTAETIGIREIVDTNIFGTQDQMKSSMTAIHNENKNLYHCDQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8970471-8968166(+) 8970343-8968059(+) 8970345-8970476(-)
Potential amino acid sequence	MVTDHNGTNSCSRYVLLSLRISFDLAYQIYLYQLFLEFLLFQLYYPSHVLHAFQ(+) MKFSLLAPPPTNSISVSKTAAASSASFFCFSISSFRFGFISSRWLLITMVQILVLVMYCCH(+ ) MGLSDAEHCGKMRALERLLSLWTLQGDKILLFSYSVRMLDILEKFLIRKGYCFSRFDGTTPMNA RQLLIDEFNRCPSKQVFLISTRAGNLGVNLVSANRVVIFDPSWNPAQDLQAQDRSFRFGQRRHV TVFRLLGAGSLEELIYSRQIYKQQLSNIAVSGKIEKRYFEGVQDDKKFQGELFGICNLFRDLSD KLFTSEIIEMHGEHGKGNTAETIGIREIVDTNIFGTQDQMKSSMTAIHNENKNLYHCDQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0247900_circ_g.1

Address

Any questions?

Supported by