Plant Circular RNA Database

Detail information of Os12g0641500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0641500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_012561
					
						Alias
						Os12circ12359/Os_ciR3721
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 27520546-27521896  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os12g0641500						
					
						Parent gene annotation
						
							Similar to SMC1 protein. (Os12t0641500-01);Similar to SMC1 prote
in. (Os12t0641500-02);Similar to RecF/RecN/SMC N terminal domain
 containing protein, expressed. (Os12t0641500-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0641500_circ_g.2 						
					
						Support reads
						3/2
					
						Tissues
						leaf/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
						Os12t0641500-02:2
Os12t0641500-01:3

General Information
CircRNA Name	Os12g0641500_circ_g.1
ID in PlantcircBase	osa_circ_012561
Alias	Os12circ12359/Os_ciR3721
Organism	Oryza sativa
Position	chr12: 27520546-27521896 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os12g0641500
Parent gene annotation	Similar to SMC1 protein. (Os12t0641500-01);Similar to SMC1 prote in. (Os12t0641500-02);Similar to RecF/RecN/SMC N terminal domain containing protein, expressed. (Os12t0641500-03)
Parent gene strand	-
Alternative splicing	Os12g0641500_circ_g.2
Support reads	3/2
Tissues	leaf/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	Os12t0641500-02:2 Os12t0641500-01:3

			
						 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  
						
							TCTCTCCTGTAAACTCTTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATT
GGTGCCTGCATATCTCGTTTTTGTTCATATTCCAGCcttcgttgcttgacagaattgtacttgt
cagctatctccagctcttcttttcttgctgcttcaaacttttccataacatccttttccttcct
ttgcaatg

									
								

					

						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: 143
Transcript exons: 27520546-27520587,27521796-27521896
CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCCTCTCTCCTGTAAACTCTTAAG
TTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTCGTTTT
TGTTCATATTCCAGC
Transcript length: 660
Transcript exons: 27520546-27520925,27521065-27521174,27521727-27521896
CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA
ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT
TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT
TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA
TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC
CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTTT
GACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTTCTCCTTCAGTT
CATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTTCAGCCTCAGCTTTCAGCTC
TTCCATCTGATTTGAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCTCCTGTAAACTC
TTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTC
GTTTTTGTTCATATTCCAGC
Transcript length: 799
Transcript exons: 27520546-27521174,27521727-27521896
CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA
ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT
TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT
TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA
TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC
CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTAC
AAGTCCATGGCATGGTTTCATAATAATACAAACAAAATGAAACAAGTAATCTTTTAACAAGCTT
CAGACATATCATTGTTAAAAAAGTATTGAAGACTAGTTTATGAAAGGACTAGCAGTATCAGAAA
GACCTACCTTTGACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTT
CTCCTTCAGTTCATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTTCAGCCTCA
GCTTTCAGCTCTTCCATCTGATTTGAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCT
CCTGTAAACTCTTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGC
CTGCATATCTCGTTTTTGTTCATATTCCAGC
						
					

						Genomic sequence
						
							CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA
ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT
TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT
TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA
TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC
CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTAC
AAGTCCATGGCATGGTTTCATAATAATACAAACAAAATGAAACAAGTAATCTTTTAACAAGCTT
CAGACATATCATTGTTAAAAAAGTATTGAAGACTAGTTTATGAAAGGACTAGCAGTATCAGAAA
GACCTACCTTTGACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTT
CTCCTTCAGTTCATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTATATTGGGA
AAATTTCATTGGTCAATACAACTAAAATGGTGAACATACACAATGAAACATTTAGAATTTGGAG
AAGTTTGTGTTTGTTATGACGATAAAAGCTGGTAGCATCGGAAGAGAACATCATTTAGTTAACA
AACCAAACATATCTAACAAAACTTAGGTAAGATAATTCCATTGAGTTGCTGATATCTTGTCTAG
TATTTACTATTAAGTGCTTTTTTTTTCTTTTGAAAAGCTTAATGCAAATGACATCTCTCATAGC
CCTAGGTTACATTAGTAAGGTTCAAACGGAAGAATCGCAAAAGAGAAGTGCTCTTTAGATGGAA
GATTGGGGAATAGAGTTGCAAGAGAAAATTTCCTCAAGTTAAGGTGTGAATAATAGAATGTAAA
TGTAAATTCTTGGGGGTAAATTAAAAAAAAATCAAGGGAACAAAATAATCATGTTCAACAGGAC
ATGGATGAACAGGAAAGAGTCACCCAGTTGGCTCCTTTAAATAATCTTGAATTGTCAACCAAAA
ATGAACAAAAGCAAGCTTCAAATGCATACCTTCAGCCTCAGCTTTCAGCTCTTCCATCTGATTT
GAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCTCCTGTAAACTCTTAAGTTCCTTCT
CTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTCGTTTTTGTTCATA
TTCCAGC
						
					

			
		

Sequences
Splice junction sequence	TCTCTCCTGTAAACTCTTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATT GGTGCCTGCATATCTCGTTTTTGTTCATATTCCAGCcttcgttgcttgacagaattgtacttgt cagctatctccagctcttcttttcttgctgcttcaaacttttccataacatccttttccttcct ttgcaatg
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: 143 Transcript exons: 27520546-27520587,27521796-27521896 CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCCTCTCTCCTGTAAACTCTTAAG TTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTCGTTTT TGTTCATATTCCAGC Transcript length: 660 Transcript exons: 27520546-27520925,27521065-27521174,27521727-27521896 CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTTT GACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTTCTCCTTCAGTT CATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTTCAGCCTCAGCTTTCAGCTC TTCCATCTGATTTGAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCTCCTGTAAACTC TTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTC GTTTTTGTTCATATTCCAGC Transcript length: 799 Transcript exons: 27520546-27521174,27521727-27521896 CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTAC AAGTCCATGGCATGGTTTCATAATAATACAAACAAAATGAAACAAGTAATCTTTTAACAAGCTT CAGACATATCATTGTTAAAAAAGTATTGAAGACTAGTTTATGAAAGGACTAGCAGTATCAGAAA GACCTACCTTTGACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTT CTCCTTCAGTTCATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTTCAGCCTCA GCTTTCAGCTCTTCCATCTGATTTGAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCT CCTGTAAACTCTTAAGTTCCTTCTCTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGC CTGCATATCTCGTTTTTGTTCATATTCCAGC
Genomic sequence	CTTCGTTGCTTGACAGAATTGTACTTGTCAGCTATCTCCAGCTCTTCTTTTCTTGCTGCTTCAA ACTTTTCCATAACATCCTTTTCCTTCCTTTGCAATGTTTCATATTGGTCGAGCGCTTTCAGGTT TGGAGCAGTGTGCTCAATCTGAGCAACTAGATCCCCTATTTTTTTTTTGAACTCTGCCTCAAGT TTGTCACGTTCAGAAAGCCGCATATCTTGTAGGTAGTTTTCGCTAAGCTGACTGTAGTCAAGGA TTGGTATTTGTGAAGATGATCCAGTATCCATTGGATCATTAACTGTAGGAAGCTTCAGTTGCTC CAGTTCACACTTCTCATGAATCTCCCGTTCCTGTGATCTAAGTTGCACAAGCTTCCCTTCCTAC AAGTCCATGGCATGGTTTCATAATAATACAAACAAAATGAAACAAGTAATCTTTTAACAAGCTT CAGACATATCATTGTTAAAAAAGTATTGAAGACTAGTTTATGAAAGGACTAGCAGTATCAGAAA GACCTACCTTTGACTTCACTTGGCGATCCAGCTTTGCCAAAGCTGCAGCAACACTACCATTCTT CTCCTTCAGTTCATCAATACCCGTTTCACATTCATCAGACTTGGATTTCCAGTCTATATTGGGA AAATTTCATTGGTCAATACAACTAAAATGGTGAACATACACAATGAAACATTTAGAATTTGGAG AAGTTTGTGTTTGTTATGACGATAAAAGCTGGTAGCATCGGAAGAGAACATCATTTAGTTAACA AACCAAACATATCTAACAAAACTTAGGTAAGATAATTCCATTGAGTTGCTGATATCTTGTCTAG TATTTACTATTAAGTGCTTTTTTTTTCTTTTGAAAAGCTTAATGCAAATGACATCTCTCATAGC CCTAGGTTACATTAGTAAGGTTCAAACGGAAGAATCGCAAAAGAGAAGTGCTCTTTAGATGGAA GATTGGGGAATAGAGTTGCAAGAGAAAATTTCCTCAAGTTAAGGTGTGAATAATAGAATGTAAA TGTAAATTCTTGGGGGTAAATTAAAAAAAAATCAAGGGAACAAAATAATCATGTTCAACAGGAC ATGGATGAACAGGAAAGAGTCACCCAGTTGGCTCCTTTAAATAATCTTGAATTGTCAACCAAAA ATGAACAAAAGCAAGCTTCAAATGCATACCTTCAGCCTCAGCTTTCAGCTCTTCCATCTGATTT GAAATTTGTTCAGCTTCCGCCCTAGCTTCAGACTCTCTCTCCTGTAAACTCTTAAGTTCCTTCT CTAGAGATTCACGTGTCTCCTTTAATTTAATAATTGGTGCCTGCATATCTCGTTTTTGTTCATA TTCCAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010034 						
					
						PMCS
						0.381122841

Conservation Information
Conserved circRNAs	osi_circ_010034
PMCS	0.381122841

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27521873-27520548(-)
						
						Potential amino acid sequence
						
							MQAPIIKLKETRESLEKELKSLQERESEARAEAEQISNQMEELKAEAEDWKSKSDECETGIDEL
KEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQLKLPTVNDPMDTGSSSQIPIL
DYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLKALDQYETLQRKEKDVMEKFE
AARKEELEIADKYNSVKQRRLEYEQKRDMQAPIIKLKETRESLEKELKSLQERESEARAEAEQI
SNQMEELKAEAEDWKSKSDECETGIDELKEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIH
EKCELEQLKLPTVNDPMDTGSSSQIPILDYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQI
EHTAPNLKALDQYETLQRKEKDVMEKFEAARKEELEIADKYNSVKQRRLEYEQKRDMQAPIIKL
KETRESLEKELKSLQERESEARAEAEQISNQMEELKAEAEDWKSKSDECETGIDELKEKNGSVA
AALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQLKLPTVNDPMDTGSSSQIPILDYSQLSEN
YLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLKALDQYETLQRKEKDVMEKFEAARKEELE
IADKYNSVKQRRLEYEQKRDMQAPIIKLKETRESLEKELKSLQERESEARAEAEQISNQMEELK
AEAEDWKSKSDECETGIDELKEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQL
KLPTVNDPMDTGSSSQIPILDYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLK
ALDQYETLQRKEKDVMEKFEAARKEELEIADKYNSVKQR(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27521873-27520548(-)
Potential amino acid sequence	MQAPIIKLKETRESLEKELKSLQERESEARAEAEQISNQMEELKAEAEDWKSKSDECETGIDEL KEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQLKLPTVNDPMDTGSSSQIPIL DYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLKALDQYETLQRKEKDVMEKFE AARKEELEIADKYNSVKQRRLEYEQKRDMQAPIIKLKETRESLEKELKSLQERESEARAEAEQI SNQMEELKAEAEDWKSKSDECETGIDELKEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIH EKCELEQLKLPTVNDPMDTGSSSQIPILDYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQI EHTAPNLKALDQYETLQRKEKDVMEKFEAARKEELEIADKYNSVKQRRLEYEQKRDMQAPIIKL KETRESLEKELKSLQERESEARAEAEQISNQMEELKAEAEDWKSKSDECETGIDELKEKNGSVA AALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQLKLPTVNDPMDTGSSSQIPILDYSQLSEN YLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLKALDQYETLQRKEKDVMEKFEAARKEELE IADKYNSVKQRRLEYEQKRDMQAPIIKLKETRESLEKELKSLQERESEARAEAEQISNQMEELK AEAEDWKSKSDECETGIDELKEKNGSVAAALAKLDRQVKSKEGKLVQLRSQEREIHEKCELEQL KLPTVNDPMDTGSSSQIPILDYSQLSENYLQDMRLSERDKLEAEFKKKIGDLVAQIEHTAPNLK ALDQYETLQRKEKDVMEKFEAARKEELEIADKYNSVKQR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os12g0641500_circ_g.1

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