Plant Circular RNA Database

Detail information of Os05g0446800_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os05g0446800_circ_g.4
					
						ID in PlantcircBase
						osa_circ_028079
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 21905109-21906531  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0446800						
					
						Parent gene annotation
						
							Similar to Arginyl-tRNA--protein transferase 1 (EC 2.3.2.8) (R-t
ransferase 1) (Arginyltransferase 1) (Arginine-tRNA--protein tra
nsferase 1). Splice isoform ATE1-2. (Os05t0446800-01);Similar to
 Arginyl-tRNA--protein transferase 1 (EC 2.3.2.8) (R-transferase
 1) (Arginyltransferase 1) (Arginine-tRNA--protein transferase 1
). Splice isoform ATE1-2. (Os05t0446800-02);Similar to Arginyl-t
RNA--protein transferase 1 (EC 2.3.2.8) (R-transferase 1) (Argin
yltransferase 1) (Arginine-tRNA--protein transferase 1). Splice 
isoform ATE1-2. (Os05t0446800-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os05t0446800-01:2
Os05t0446800-02:2
Os05t0446800-03:2

General Information
CircRNA Name	Os05g0446800_circ_g.4
ID in PlantcircBase	osa_circ_028079
Alias	NA
Organism	Oryza sativa
Position	chr5: 21905109-21906531 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0446800
Parent gene annotation	Similar to Arginyl-tRNA--protein transferase 1 (EC 2.3.2.8) (R-t ransferase 1) (Arginyltransferase 1) (Arginine-tRNA--protein tra nsferase 1). Splice isoform ATE1-2. (Os05t0446800-01);Similar to Arginyl-tRNA--protein transferase 1 (EC 2.3.2.8) (R-transferase 1) (Arginyltransferase 1) (Arginine-tRNA--protein transferase 1 ). Splice isoform ATE1-2. (Os05t0446800-02);Similar to Arginyl-t RNA--protein transferase 1 (EC 2.3.2.8) (R-transferase 1) (Argin yltransferase 1) (Arginine-tRNA--protein transferase 1). Splice isoform ATE1-2. (Os05t0446800-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	shoot
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	Os05t0446800-01:2 Os05t0446800-02:2 Os05t0446800-03:2

			
						 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  
						
							TTTGCCTTCAAGCGTATTGTATATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAA
AACAACCAGATCTCCTCCACCCACGGTCAAGAAGAGtcgaaacggactggacagagaagttctg
atggtcgatacgcagctttgtatctcatcttattgcaggaatgtatgtaataaccaagataata
atattgaa

									
								

					

						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: 1309
Transcript exons: 21905109-21906266,21906381-21906531
TCGAAACGGACTGGACAGAGAAGTTCTGATGGTCGATACGCAGCTTTGTATCTCATCTTATTGC
AGGAATGTATGTAATAACCAAGATAATAATATTGAAGGTTGGGGCAGTGCTCCTGTGTTGTCTT
GACCCAATCTATCTCCTTCAGAGCTGTATACTTTCCAAGAGATAGGAAAGCAAAGTCAGGATCC
CAGAACAAATACTTGCTTGACAGGCACTTAGGAAGGATATCAACTACACCAACTGCCACAAGTT
TTCCATCAATTCTGTACTGCTGGTGAAATGAACCAAATCCACAAGGTGGAACTGTATTATCACC
ACTCCGCGGGGGAACAAACACGATTGGTGTATCCACTAGAAATCTCTTGTATGAGCTTTCTGAA
ACTTTCTTCTCCTTGTGCACTTTTGTCTGATATCTTTGATATAAAGCAAACTCCTCAGGATCAA
AATGTGACCTTCTCATTTTAATTTCAAGCTTTCTTCTTTTCTGGGGAACTCTTACAGTATTTTT
GTTCACAGAGCTTTGCTTTGAGCTACTAGATTTATCTGGAGCATGTGTAGACACAATGATACTG
GTTTTGTTCTGCTTTGTCTGATTGGTGACTGAATAGAAGTTCAGATGGCCATTGCAGGCTTTTA
CTGCTAAACCAGCAATATCTCCATGGCACTCCATTGTCATGGCCAGCTTTTCTGCAATAGAGTT
TGGAGAAATATCTGCTACTACTTTATTGTGATTAGCATCCTTCTCCTTAGGCAATGCACGTCTG
ATTTCTGCCACTATTTGAAAGCTTATATTACATGTGTACAATAAATCTTGTACTGCTTCTCCTA
CTTTCTTGTCTTGTGATGCTCCTCCTACTTTCTTTTTTAGTTGTGGTTTAACAGTCTTTACAAC
AGCTTTAGGGAGTTGAACATCAGAACCTAATGTACCAACTTGGAAGGACATACCCACTGCCTCA
TTAATTTTGCTAGACAGGCAACTGATGAACTCATCTTCTTCAAATAAATTTGGACATTTGGCTG
CTTGAAAATCATTTGTTAATGTCTTGGATATTTTTGAGACCGGCATATTCATAGGTTCAGCGAG
TGAATGTTTTGTAGGGCTAGTTTTATTCTGTGGACTTCCAACCTGTGGATCAAGCTCACCATCA
AGGAACCTTTGCATCTTTTTAAGTACACGACCTTGCTCCTTCGAACAAATGAAATCATTTGCCT
TCAAGCGTATTGTATATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAAAACAACC
AGATCTCCTCCACCCACGGTCAAGAAGAG
						
					

						Genomic sequence
						
							TCGAAACGGACTGGACAGAGAAGTTCTGATGGTCGATACGCAGCTTTGTATCTCATCTTATTGC
AGGAATGTATGTAATAACCAAGATAATAATATTGAAGGTTGGGGCAGTGCTCCTGTGTTGTCTT
GACCCAATCTATCTCCTTCAGAGCTGTATACTTTCCAAGAGATAGGAAAGCAAAGTCAGGATCC
CAGAACAAATACTTGCTTGACAGGCACTTAGGAAGGATATCAACTACACCAACTGCCACAAGTT
TTCCATCAATTCTGTACTGCTGGTGAAATGAACCAAATCCACAAGGTGGAACTGTATTATCACC
ACTCCGCGGGGGAACAAACACGATTGGTGTATCCACTAGAAATCTCTTGTATGAGCTTTCTGAA
ACTTTCTTCTCCTTGTGCACTTTTGTCTGATATCTTTGATATAAAGCAAACTCCTCAGGATCAA
AATGTGACCTTCTCATTTTAATTTCAAGCTTTCTTCTTTTCTGGGGAACTCTTACAGTATTTTT
GTTCACAGAGCTTTGCTTTGAGCTACTAGATTTATCTGGAGCATGTGTAGACACAATGATACTG
GTTTTGTTCTGCTTTGTCTGATTGGTGACTGAATAGAAGTTCAGATGGCCATTGCAGGCTTTTA
CTGCTAAACCAGCAATATCTCCATGGCACTCCATTGTCATGGCCAGCTTTTCTGCAATAGAGTT
TGGAGAAATATCTGCTACTACTTTATTGTGATTAGCATCCTTCTCCTTAGGCAATGCACGTCTG
ATTTCTGCCACTATTTGAAAGCTTATATTACATGTGTACAATAAATCTTGTACTGCTTCTCCTA
CTTTCTTGTCTTGTGATGCTCCTCCTACTTTCTTTTTTAGTTGTGGTTTAACAGTCTTTACAAC
AGCTTTAGGGAGTTGAACATCAGAACCTAATGTACCAACTTGGAAGGACATACCCACTGCCTCA
TTAATTTTGCTAGACAGGCAACTGATGAACTCATCTTCTTCAAATAAATTTGGACATTTGGCTG
CTTGAAAATCATTTGTTAATGTCTTGGATATTTTTGAGACCGGCATATTCATAGGTTCAGCGAG
TGAATGTTTTGTAGGGCTAGTTTTATTCTGTGGACTTCCAACCTGTGGATCAAGCTCACCATCA
AGGAACCTGTGAAATGAAGCGTGAAGACATGACACAGGACAATTTAGTGACTAAAGCTAAACGA
CATATGTTAACAATTTCACAGGTGCATATGCAAAATATAAAACAAAAGGTGTGTACCTTTGCAT
CTTTTTAAGTACACGACCTTGCTCCTTCGAACAAATGAAATCATTTGCCTTCAAGCGTATTGTA
TATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAAAACAACCAGATCTCCTCCACC
CACGGTCAAGAAGAG
						
					

			
		

Sequences
Splice junction sequence	TTTGCCTTCAAGCGTATTGTATATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAA AACAACCAGATCTCCTCCACCCACGGTCAAGAAGAGtcgaaacggactggacagagaagttctg atggtcgatacgcagctttgtatctcatcttattgcaggaatgtatgtaataaccaagataata atattgaa
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: 1309 Transcript exons: 21905109-21906266,21906381-21906531 TCGAAACGGACTGGACAGAGAAGTTCTGATGGTCGATACGCAGCTTTGTATCTCATCTTATTGC AGGAATGTATGTAATAACCAAGATAATAATATTGAAGGTTGGGGCAGTGCTCCTGTGTTGTCTT GACCCAATCTATCTCCTTCAGAGCTGTATACTTTCCAAGAGATAGGAAAGCAAAGTCAGGATCC CAGAACAAATACTTGCTTGACAGGCACTTAGGAAGGATATCAACTACACCAACTGCCACAAGTT TTCCATCAATTCTGTACTGCTGGTGAAATGAACCAAATCCACAAGGTGGAACTGTATTATCACC ACTCCGCGGGGGAACAAACACGATTGGTGTATCCACTAGAAATCTCTTGTATGAGCTTTCTGAA ACTTTCTTCTCCTTGTGCACTTTTGTCTGATATCTTTGATATAAAGCAAACTCCTCAGGATCAA AATGTGACCTTCTCATTTTAATTTCAAGCTTTCTTCTTTTCTGGGGAACTCTTACAGTATTTTT GTTCACAGAGCTTTGCTTTGAGCTACTAGATTTATCTGGAGCATGTGTAGACACAATGATACTG GTTTTGTTCTGCTTTGTCTGATTGGTGACTGAATAGAAGTTCAGATGGCCATTGCAGGCTTTTA CTGCTAAACCAGCAATATCTCCATGGCACTCCATTGTCATGGCCAGCTTTTCTGCAATAGAGTT TGGAGAAATATCTGCTACTACTTTATTGTGATTAGCATCCTTCTCCTTAGGCAATGCACGTCTG ATTTCTGCCACTATTTGAAAGCTTATATTACATGTGTACAATAAATCTTGTACTGCTTCTCCTA CTTTCTTGTCTTGTGATGCTCCTCCTACTTTCTTTTTTAGTTGTGGTTTAACAGTCTTTACAAC AGCTTTAGGGAGTTGAACATCAGAACCTAATGTACCAACTTGGAAGGACATACCCACTGCCTCA TTAATTTTGCTAGACAGGCAACTGATGAACTCATCTTCTTCAAATAAATTTGGACATTTGGCTG CTTGAAAATCATTTGTTAATGTCTTGGATATTTTTGAGACCGGCATATTCATAGGTTCAGCGAG TGAATGTTTTGTAGGGCTAGTTTTATTCTGTGGACTTCCAACCTGTGGATCAAGCTCACCATCA AGGAACCTTTGCATCTTTTTAAGTACACGACCTTGCTCCTTCGAACAAATGAAATCATTTGCCT TCAAGCGTATTGTATATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAAAACAACC AGATCTCCTCCACCCACGGTCAAGAAGAG
Genomic sequence	TCGAAACGGACTGGACAGAGAAGTTCTGATGGTCGATACGCAGCTTTGTATCTCATCTTATTGC AGGAATGTATGTAATAACCAAGATAATAATATTGAAGGTTGGGGCAGTGCTCCTGTGTTGTCTT GACCCAATCTATCTCCTTCAGAGCTGTATACTTTCCAAGAGATAGGAAAGCAAAGTCAGGATCC CAGAACAAATACTTGCTTGACAGGCACTTAGGAAGGATATCAACTACACCAACTGCCACAAGTT TTCCATCAATTCTGTACTGCTGGTGAAATGAACCAAATCCACAAGGTGGAACTGTATTATCACC ACTCCGCGGGGGAACAAACACGATTGGTGTATCCACTAGAAATCTCTTGTATGAGCTTTCTGAA ACTTTCTTCTCCTTGTGCACTTTTGTCTGATATCTTTGATATAAAGCAAACTCCTCAGGATCAA AATGTGACCTTCTCATTTTAATTTCAAGCTTTCTTCTTTTCTGGGGAACTCTTACAGTATTTTT GTTCACAGAGCTTTGCTTTGAGCTACTAGATTTATCTGGAGCATGTGTAGACACAATGATACTG GTTTTGTTCTGCTTTGTCTGATTGGTGACTGAATAGAAGTTCAGATGGCCATTGCAGGCTTTTA CTGCTAAACCAGCAATATCTCCATGGCACTCCATTGTCATGGCCAGCTTTTCTGCAATAGAGTT TGGAGAAATATCTGCTACTACTTTATTGTGATTAGCATCCTTCTCCTTAGGCAATGCACGTCTG ATTTCTGCCACTATTTGAAAGCTTATATTACATGTGTACAATAAATCTTGTACTGCTTCTCCTA CTTTCTTGTCTTGTGATGCTCCTCCTACTTTCTTTTTTAGTTGTGGTTTAACAGTCTTTACAAC AGCTTTAGGGAGTTGAACATCAGAACCTAATGTACCAACTTGGAAGGACATACCCACTGCCTCA TTAATTTTGCTAGACAGGCAACTGATGAACTCATCTTCTTCAAATAAATTTGGACATTTGGCTG CTTGAAAATCATTTGTTAATGTCTTGGATATTTTTGAGACCGGCATATTCATAGGTTCAGCGAG TGAATGTTTTGTAGGGCTAGTTTTATTCTGTGGACTTCCAACCTGTGGATCAAGCTCACCATCA AGGAACCTGTGAAATGAAGCGTGAAGACATGACACAGGACAATTTAGTGACTAAAGCTAAACGA CATATGTTAACAATTTCACAGGTGCATATGCAAAATATAAAACAAAAGGTGTGTACCTTTGCAT CTTTTTAAGTACACGACCTTGCTCCTTCGAACAAATGAAATCATTTGCCTTCAAGCGTATTGTA TATTGAGGACAGCAAGTACGTTCCATCTCAGGTTTGTAAAGAAAACAACCAGATCTCCTCCACC CACGGTCAAGAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006270* 						
					
						PMCS
						0.366418792

Conservation Information
Conserved circRNAs	osi_circ_006270*
PMCS	0.366418792

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21906201-21905235(+)
21906480-21906524(-)
						
						Potential amino acid sequence
						
							MFCRASFILWTSNLWIKLTIKEPLHLFKYTTLLLRTNEIICLQAYCILRTASTFHLRFVKKTTR
SPPPTVKKSRNGLDREVLMVDTQLCISSYCRNVCNNQDNNIEGWGSAPVLS*(+)
MERTCCPQYTIRLKANDFICSKEQGRVLKKMQRFLDGELDPQVGSPQNKTSPTKHSLAEPMNMP
VSKISKTLTNDFQAAKCPNLFEEDEFISCLSSKINEAVGMSFQVGTLGSDVQLPKAVVKTVKPQ
LKKKVGGASQDKKVGEAVQDLLYTCNISFQIVAEIRRALPKEKDANHNKVVADISPNSIAEKLA
MTMECHGDIAGLAVKACNGHLNFYSVTNQTKQNKTSIIVSTHAPDKSSSSKQSSVNKNTVRVPQ
KRRKLEIKMRRSHFDPEEFALYQRYQTKVHKEKKVSESSYKRFLVDTPIVFVPPRSGDNTVPPC
GFGSFHQQYRIDGKLVAVGVVDILPKCLSSKYLFWDPDFAFLSLGKYTALKEIDWVKTTQEHCP
NLQYYYLGYYIHSCNKMRYKAAYRPSELLCPVRFDSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21906201-21905235(+) 21906480-21906524(-)
Potential amino acid sequence	MFCRASFILWTSNLWIKLTIKEPLHLFKYTTLLLRTNEIICLQAYCILRTASTFHLRFVKKTTR SPPPTVKKSRNGLDREVLMVDTQLCISSYCRNVCNNQDNNIEGWGSAPVLS(+) MERTCCPQYTIRLKANDFICSKEQGRVLKKMQRFLDGELDPQVGSPQNKTSPTKHSLAEPMNMP VSKISKTLTNDFQAAKCPNLFEEDEFISCLSSKINEAVGMSFQVGTLGSDVQLPKAVVKTVKPQ LKKKVGGASQDKKVGEAVQDLLYTCNISFQIVAEIRRALPKEKDANHNKVVADISPNSIAEKLA MTMECHGDIAGLAVKACNGHLNFYSVTNQTKQNKTSIIVSTHAPDKSSSSKQSSVNKNTVRVPQ KRRKLEIKMRRSHFDPEEFALYQRYQTKVHKEKKVSESSYKRFLVDTPIVFVPPRSGDNTVPPC GFGSFHQQYRIDGKLVAVGVVDILPKCLSSKYLFWDPDFAFLSLGKYTALKEIDWVKTTQEHCP NLQYYYLGYYIHSCNKMRYKAAYRPSELLCPVRFDSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0446800_circ_g.4

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