Plant Circular RNA Database

Detail information of Os03g0138100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0138100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_017842
					
						Alias
						Os_ciR8645
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 2104473-2105800  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0138100						
					
						Parent gene annotation
						
							Similar to RNA recognition motif family protein, expressed. (Os0
3t0138100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0138100_circ_g.1 Os03g0138100_circ_g.3 Os03g0138100_circ_g.4 Os03g0138100_circ_g.5 Os03g0138100_circ_g.6 Os03g0138100_circ_g.7 						
					
						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
						Os03t0138100-01:6

General Information
CircRNA Name	Os03g0138100_circ_g.2
ID in PlantcircBase	osa_circ_017842
Alias	Os_ciR8645
Organism	Oryza sativa
Position	chr3: 2104473-2105800 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os03g0138100
Parent gene annotation	Similar to RNA recognition motif family protein, expressed. (Os0 3t0138100-01)
Parent gene strand	-
Alternative splicing	Os03g0138100_circ_g.1 Os03g0138100_circ_g.3 Os03g0138100_circ_g.4 Os03g0138100_circ_g.5 Os03g0138100_circ_g.6 Os03g0138100_circ_g.7
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	Os03t0138100-01:6

			
						 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  
						
							TGAGAATGGACTGGCTCTGGCAAGTTACCTTGTGTGGTGAATCTGCAACAACATCGGATATCAA
TTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATGcttgcacactccacacgtacatcttcca
atatttcctccagctcagattttgagagtagcaaatactcttcttggtcaaactacattattta
atgtttgt

									
								

					

						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: 485
Transcript exons: 2104473-2104552,2104811-2104903,2104987-2105094,2105225-
2105314,2105447-2105488,2105729-2105800
CTTGCACACTCCACACGTACATCTTCCAATATTTCCTCCAGCTCAGATTTTGAGAGTAGCAAAT
ACTCTTCTTGGTCAAACACATTTTTTAGCTGCAGGACTTTTGTTGGTTCTTCAAGTAGTGATTT
GGCACTGTCAGGAATTCCATAAAATGGGGAAGCTTCATTAAAAGCCTGCTCGGTAGAGTTAGGG
AACACATTAACAGCAGTTAGGATGCCTCCACCAAGCTTCATCCCATTGAGGCCAGCACATGCCT
TCGATGTAATGGAGTGATCAATGTACTCAAGAAATGCACATGCCCCACCAAGGTATTCATTAAA
AAGAAAGCGGTAAGCAGCCAACGGACCAAATGAACTAACAATTTCCATGAGCATCTCAGATGAA
ATCACTCCAGAAATCCCAGCGATGAAAATCTTGTGTGGTGAATCTGCAACAACATCGGATATCA
ATTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATG
						
					

						Genomic sequence
						
							CTTGCACACTCCACACGTACATCTTCCAATATTTCCTCCAGCTCAGATTTTGAGAGTAGCAAAT
ACTCTTCTTGGTCAAACTACATTATTTAATGTTTGTAAACAACTCACGAGTTTGTACGTAATAA
ATGTGAAAGACAGTTGTTAGTTCTGTTGACTGACTAATAAAAGTGGCATGCATCAAAGATACAA
TGGTGGGTTCCTATATCATTTGGAGCACACGTACAATAACAACAGTCCATAATGCATGGAGGAA
ACATGTTACGCTGCTAATGGTTTTGATACATAGAGAGATGCTTGAGGAAAAACTTATGAACAGA
GTTGACACTACGACATACCACATTTTTTAGCTGCAGGACTTTTGTTGGTTCTTCAAGTAGTGAT
TTGGCACTGTCAGGAATTCCATAAAATGGGGAAGCTTCATTAAAAGCCTGAAATTTCAAAGGAA
ACAGAGTGGGACTTAATTCAATGAAATGGAAATGACAGAAAATGAATGAATCTAAAATGTTTGA
ACCTGCTCGGTAGAGTTAGGGAACACATTAACAGCAGTTAGGATGCCTCCACCAAGCTTCATCC
CATTGAGGCCAGCACATGCCTTCGATGTAATGGAGTGATCAATGTACTGCACACATCAAATTGA
TAAGAAATCAGCTTAAGTAATATATTCATCTGGTCTAGTTTTTTTTTTATCTTCTCCATCAATG
ACATGTTTGAAAAAAAACGATTTAGTTTAGTACCAGAGCTTTCCATACCTCAAGAAATGCACAT
GCCCCACCAAGGTATTCATTAAAAAGAAAGCGGTAAGCAGCCAACGGACCAAATGAACTAACAA
TTTCCATGAGCTGAAAGAGGACAATGTAGAAGCTTCTGAGGGATAACCGGATAACAGCTAATAA
CCACAATACCACATGCAGAGCATGATCACTGGATTAAAACAAGTTATGCAAATATACTGGTGGA
TGCTTTTGTATTACCATCTCAGATGAAATCACTCCAGAAATCCCAGCGATGAAAATCTGCAAAA
GTTAAAAAAGTTGAGACATCCGATGAAAGCTACTAAAGTTCCTAGATAATCAAACCTATATGTT
TTATATTAACTTCAATTAACAGCGGATGTACGATATCCATGTATCAAATATTTGGCCAGAAAAG
TAAGAATTTCTATCAATCAGAAAATGCAAATATTTTTTCACCGCCTCTGGAAATATAGTCATCC
ATATCATAGATATGAGAATGGACTGGCTCTGGCAAGTTACCTTGTGTGGTGAATCTGCAACAAC
ATCGGATATCAATTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATG
						
					

			
		

Sequences
Splice junction sequence	TGAGAATGGACTGGCTCTGGCAAGTTACCTTGTGTGGTGAATCTGCAACAACATCGGATATCAA TTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATGcttgcacactccacacgtacatcttcca atatttcctccagctcagattttgagagtagcaaatactcttcttggtcaaactacattattta atgtttgt
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: 485 Transcript exons: 2104473-2104552,2104811-2104903,2104987-2105094,2105225- 2105314,2105447-2105488,2105729-2105800 CTTGCACACTCCACACGTACATCTTCCAATATTTCCTCCAGCTCAGATTTTGAGAGTAGCAAAT ACTCTTCTTGGTCAAACACATTTTTTAGCTGCAGGACTTTTGTTGGTTCTTCAAGTAGTGATTT GGCACTGTCAGGAATTCCATAAAATGGGGAAGCTTCATTAAAAGCCTGCTCGGTAGAGTTAGGG AACACATTAACAGCAGTTAGGATGCCTCCACCAAGCTTCATCCCATTGAGGCCAGCACATGCCT TCGATGTAATGGAGTGATCAATGTACTCAAGAAATGCACATGCCCCACCAAGGTATTCATTAAA AAGAAAGCGGTAAGCAGCCAACGGACCAAATGAACTAACAATTTCCATGAGCATCTCAGATGAA ATCACTCCAGAAATCCCAGCGATGAAAATCTTGTGTGGTGAATCTGCAACAACATCGGATATCA ATTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATG
Genomic sequence	CTTGCACACTCCACACGTACATCTTCCAATATTTCCTCCAGCTCAGATTTTGAGAGTAGCAAAT ACTCTTCTTGGTCAAACTACATTATTTAATGTTTGTAAACAACTCACGAGTTTGTACGTAATAA ATGTGAAAGACAGTTGTTAGTTCTGTTGACTGACTAATAAAAGTGGCATGCATCAAAGATACAA TGGTGGGTTCCTATATCATTTGGAGCACACGTACAATAACAACAGTCCATAATGCATGGAGGAA ACATGTTACGCTGCTAATGGTTTTGATACATAGAGAGATGCTTGAGGAAAAACTTATGAACAGA GTTGACACTACGACATACCACATTTTTTAGCTGCAGGACTTTTGTTGGTTCTTCAAGTAGTGAT TTGGCACTGTCAGGAATTCCATAAAATGGGGAAGCTTCATTAAAAGCCTGAAATTTCAAAGGAA ACAGAGTGGGACTTAATTCAATGAAATGGAAATGACAGAAAATGAATGAATCTAAAATGTTTGA ACCTGCTCGGTAGAGTTAGGGAACACATTAACAGCAGTTAGGATGCCTCCACCAAGCTTCATCC CATTGAGGCCAGCACATGCCTTCGATGTAATGGAGTGATCAATGTACTGCACACATCAAATTGA TAAGAAATCAGCTTAAGTAATATATTCATCTGGTCTAGTTTTTTTTTTATCTTCTCCATCAATG ACATGTTTGAAAAAAAACGATTTAGTTTAGTACCAGAGCTTTCCATACCTCAAGAAATGCACAT GCCCCACCAAGGTATTCATTAAAAAGAAAGCGGTAAGCAGCCAACGGACCAAATGAACTAACAA TTTCCATGAGCTGAAAGAGGACAATGTAGAAGCTTCTGAGGGATAACCGGATAACAGCTAATAA CCACAATACCACATGCAGAGCATGATCACTGGATTAAAACAAGTTATGCAAATATACTGGTGGA TGCTTTTGTATTACCATCTCAGATGAAATCACTCCAGAAATCCCAGCGATGAAAATCTGCAAAA GTTAAAAAAGTTGAGACATCCGATGAAAGCTACTAAAGTTCCTAGATAATCAAACCTATATGTT TTATATTAACTTCAATTAACAGCGGATGTACGATATCCATGTATCAAATATTTGGCCAGAAAAG TAAGAATTTCTATCAATCAGAAAATGCAAATATTTTTTCACCGCCTCTGGAAATATAGTCATCC ATATCATAGATATGAGAATGGACTGGCTCTGGCAAGTTACCTTGTGTGGTGAATCTGCAACAAC ATCGGATATCAATTTAATCTCTTCAGAAGGCTTCTTAGGAGCAACATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.243896436

Conservation Information
Conserved circRNAs	NA
PMCS	0.243896436

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2105311-2104896(+)
2105799-2104877(+)
2105451-2105763(-)
2104817-2105789(-)
						
						Potential amino acid sequence
						
							MSISDEITPEIPAMKILCGESATTSDINLISSEGFLGATCLHTPHVHLPIFPPAQILRVANTLL
GQTHFLAAGLLLVLQVVIWHCQEFHKMGKLH*(+)
MLAHSTRTSSNISSSSDFESSKYSSWSNTFFSCRTFVGSSSSDLALSGIP*(+)
MLMEIVSSFGPLAAYRFLFNEYLGGACAFLEYIDHSITSKACAGLNGMKLGGGILTAVNVFPNS
TEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEILEDVRVECASMLL
LRSLLKRLN*(-)
MCLTKKSICYSQNLSWRKYWKMYVWSVQACCS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2105311-2104896(+) 2105799-2104877(+) 2105451-2105763(-) 2104817-2105789(-)
Potential amino acid sequence	MSISDEITPEIPAMKILCGESATTSDINLISSEGFLGATCLHTPHVHLPIFPPAQILRVANTLL GQTHFLAAGLLLVLQVVIWHCQEFHKMGKLH(+) MLAHSTRTSSNISSSSDFESSKYSSWSNTFFSCRTFVGSSSSDLALSGIP(+) MLMEIVSSFGPLAAYRFLFNEYLGGACAFLEYIDHSITSKACAGLNGMKLGGGILTAVNVFPNS TEQAFNEASPFYGIPDSAKSLLEEPTKVLQLKNVFDQEEYLLLSKSELEEILEDVRVECASMLL LRSLLKRLN(-) MCLTKKSICYSQNLSWRKYWKMYVWSVQACCS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0138100_circ_g.2

Address

Any questions?

Supported by