Plant Circular RNA Database

Detail information of Os07g0161000_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os07g0161000_circ_g.7
					
						ID in PlantcircBase
						osa_circ_032847
					
						Alias
						Os_ciR11219
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 3272499-3274771  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os07g0161000						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os07t
0161000-01);Hypothetical conserved gene. (Os07t0161000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0161000_circ_g.6 Os07g0161000_circ_g.8 Os07g0161000_circ_g.9 Os07g0161000_circ_g.10 						
					
						Support reads
						2/2
					
						Tissues
						root/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
						Os07t0161000-01:6

General Information
CircRNA Name	Os07g0161000_circ_g.7
ID in PlantcircBase	osa_circ_032847
Alias	Os_ciR11219
Organism	Oryza sativa
Position	chr7: 3272499-3274771 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os07g0161000
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os07t 0161000-01);Hypothetical conserved gene. (Os07t0161000-02)
Parent gene strand	-
Alternative splicing	Os07g0161000_circ_g.6 Os07g0161000_circ_g.8 Os07g0161000_circ_g.9 Os07g0161000_circ_g.10
Support reads	2/2
Tissues	root/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	Os07t0161000-01:6

			
						 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  
						
							TTGTTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCATGCTCTC
AGATGCTAACTTTACTAGGTTAGGATTTGACAGAAGcttttggatgcttcgctcctttcccttc
cactgcaagtttttcttccgcgtctctatctcatgaaaggaaatcagaagcagaaaattgacaa
gtacatat

									
								

					

						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: 619
Transcript exons: 3272499-3272551,3272975-3273045,3273133-3273210,3273623-
3273751,3273836-3273892,3274541-3274771
CTTTTGGATGCTTCGCTCCTTTCCCTTCCACTGCAAGTTTTTCTTCCGCGTCTCTCAGAACTGC
AGCAATAGTTTCATCATCTGGGGAAAGTTCATGTGCTTTACTCAAGTCACCCACCGCCGCTTCC
AGGTTTCCTAGCTCTTTGTATGCCTGGCCTCTCCGGTAGTATGCTTTGACATTGCTTGAATCAT
AAGTTAGAACCTCTGAGCCTTCATTTATGCATTCCTCAAAATTCCGTGTTTTCAGGTAACAAGC
CATTAAATTAAGGGTGCACACCAACTGCAGAGAATGCGCTGATTGCGATGGTATGCTCTTTAAG
TTATCCTTGGCAAGCTTGTACTTGGCAGCAGCTTCACTATACTGCTCACACCTATGAAGTTCAT
TTCCCTGCTGCTTCAACATCTTGGCACCAGATATCACATATGACATCTGTTGCTCTGCTTGAAC
CTTCATAGCAGCAACCTCCTCGGGATTAGCATTGGCAAGTTTTTCGGCCATATCAAGCATTTCA
TCTGGTCTTGTTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCA
TGCTCTCAGATGCTAACTTTACTAGGTTAGGATTTGACAGAAG
						
					

						Genomic sequence
						
							CTTTTGGATGCTTCGCTCCTTTCCCTTCCACTGCAAGTTTTTCTTCCGCGTCTCTATCTCATGA
AAGGAAATCAGAAGCAGAAAATTGACAAGTACATATTAATGACATTTGAATAATGTTAGCAAAA
TTATATATTCTGGGGGACTGTCGTGAAATGCATATGAAACTGCAATCCATCAGTACAGCAGTGA
TAATAAAAAAATTGCATATATTGTTTAACAAGGGCCATAGAATTGTTCATGTGGGGATCTCGGA
AAATGCATATTAAACTGTAATTAGGGGTGGTAAAGGGCCCAACCATTTATTAGCCAATAAATTT
GAGGGCTAGGTCTAAAATGCGGTGGGCCGAACTTATATTCTTTTTTACCTAAAATGCGGTGGGT
CTACTGCCAACTTGTAGGGTTGTGAAAGGACCCATGGGCCTTGACCCATTAACATGACTGTAAT
TCAAGAAGCCTATAATTGAAAACCGTACCTCAGAACTGCAGCAATAGTTTCATCATCTGGGGAA
AGTTCATGTGCTTTACTCAAGTCACCCACCGCCGCCTGAAAGCATTTGTACAATCAACCATAGT
CGGGAAAAAGAACAAAAGGGATTGGCATGTCAAAAGAAAAGGGTCAAGCAAATCTTACTTCCAG
GTTTCCTAGCTCTTTGTATGCCTGGCCTCTCCGGTAGTATGCTTTGACATTGCTTGAATCATAA
GTTAGAACCTGTAAGTACATTTGATAGCTGAATCAGCTTGATGTGAAAGAAGAGCTAATGTGCT
TGGTGGAACTCAACGAAAGCAAACTAACAACAATACACCATAACTAGAAAAGCCCAACTCAAAG
AGAGTATAAAGTTCCATTTCATCAGCTCAGAAATAGCCAAAGGTGGCAGTCAGAAACAACAAAA
TATTTTTGTTTATAAGATTATGGTTGAATGATATAATAACTCATTTACAGCAATTACATGTTGA
AAAGTTAGTCTTCTTGACCTAAAATATTTTTTATTTCAAGGTTGCTAGACCAGTATACACATAT
GGCATATTTAGATTTAGTACCTCAAATAACAAATAAAACTAACAGGAAGATTGTGTTGCCTTTT
AGTAATAAAACAACAATACATTCACAACAGGCATACCTCTGAGCCTTCATTTATGCATTCCTCA
AAATTCCGTGTTTTCAGGTAACAAGCCATTAAATTAAGGGTGCACACCAACTGCAGAGAATGCG
CTGATTGCGATGGTATGCTCTTTAAGTTATCCTTGGCCTGGTCAGGAAAGGAATGCATTGATTT
AACATACATCACATTCAAATTTACTTACAAAATGAAGGTTTGACGTTCAAAACATACAAGCTTG
TACTTGGCAGCAGCTTCACTATACTGCTCACACCTATGAAGTTCATTTCCCTGAAATTTAAAAA
AAATGAAACAAATAAGGGTGATATTATGGGAATTACAAATATCAATATTACAAAAATAGTTTAA
AACTTGGAAGTTTGCAAGTTCAAAATAGTTAAACAATTAAAGAGGTGCAGAGTTTTCTTAAACA
AGATAATATTGGTAAAGGTGCATAGGTTCAGTAAACATTTGTCACAAAACAGTACATGTATCTG
GCTCAGCCTGACTAATGCATCAGTAGATGTAGTTCTTTGGTAAAAGGAAAAAAGGAGGCTCATC
AAATGCTCTTTAGTGTTCACGTCAGCATGAAGTTCATATGTATATTTTCCAGCATTCCACTAGT
TAACTCAGGGTGATCCAAACCTGTAATGGTATGAACCTCATAGCACATACAGCATTCGCCAATT
TTTTTGTGAATTTAAATTTTATTACTCATTTGTCCTTGCCAAAAAGTGTAACATGAAGCTCTAT
TCTAGTTCTAGATTGAAAAAATGAAAAAAAAAAGTTCAAGAAACGCACCGTTCAGTAGTTCGAA
AAACGTGCGCGCGGAAAATGAGGGGAGTGAGGTGGGAAACATGGGTACCGAACTCAGCCTTACT
ATAACCGAATTCCAACAGAATATGATAGTAAAAAGTGAAGTTGGACTGCTATACATACCTGCTG
CTTCAACATCTTGGCACCAGATATCACATATGACATCTGTTGCTCTGCTTGAACCTTCATAGCA
GCAACCTCCTCGGGATTAGCATTGGCAAGTTTTTCGGCCATATCAAGCATTTCATCTGGTCTTG
TTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCATGCTCTCAGA
TGCTAACTTTACTAGGTTAGGATTTGACAGAAG
						
					

			
		

Sequences
Splice junction sequence	TTGTTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCATGCTCTC AGATGCTAACTTTACTAGGTTAGGATTTGACAGAAGcttttggatgcttcgctcctttcccttc cactgcaagtttttcttccgcgtctctatctcatgaaaggaaatcagaagcagaaaattgacaa gtacatat
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: 619 Transcript exons: 3272499-3272551,3272975-3273045,3273133-3273210,3273623- 3273751,3273836-3273892,3274541-3274771 CTTTTGGATGCTTCGCTCCTTTCCCTTCCACTGCAAGTTTTTCTTCCGCGTCTCTCAGAACTGC AGCAATAGTTTCATCATCTGGGGAAAGTTCATGTGCTTTACTCAAGTCACCCACCGCCGCTTCC AGGTTTCCTAGCTCTTTGTATGCCTGGCCTCTCCGGTAGTATGCTTTGACATTGCTTGAATCAT AAGTTAGAACCTCTGAGCCTTCATTTATGCATTCCTCAAAATTCCGTGTTTTCAGGTAACAAGC CATTAAATTAAGGGTGCACACCAACTGCAGAGAATGCGCTGATTGCGATGGTATGCTCTTTAAG TTATCCTTGGCAAGCTTGTACTTGGCAGCAGCTTCACTATACTGCTCACACCTATGAAGTTCAT TTCCCTGCTGCTTCAACATCTTGGCACCAGATATCACATATGACATCTGTTGCTCTGCTTGAAC CTTCATAGCAGCAACCTCCTCGGGATTAGCATTGGCAAGTTTTTCGGCCATATCAAGCATTTCA TCTGGTCTTGTTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCA TGCTCTCAGATGCTAACTTTACTAGGTTAGGATTTGACAGAAG
Genomic sequence	CTTTTGGATGCTTCGCTCCTTTCCCTTCCACTGCAAGTTTTTCTTCCGCGTCTCTATCTCATGA AAGGAAATCAGAAGCAGAAAATTGACAAGTACATATTAATGACATTTGAATAATGTTAGCAAAA TTATATATTCTGGGGGACTGTCGTGAAATGCATATGAAACTGCAATCCATCAGTACAGCAGTGA TAATAAAAAAATTGCATATATTGTTTAACAAGGGCCATAGAATTGTTCATGTGGGGATCTCGGA AAATGCATATTAAACTGTAATTAGGGGTGGTAAAGGGCCCAACCATTTATTAGCCAATAAATTT GAGGGCTAGGTCTAAAATGCGGTGGGCCGAACTTATATTCTTTTTTACCTAAAATGCGGTGGGT CTACTGCCAACTTGTAGGGTTGTGAAAGGACCCATGGGCCTTGACCCATTAACATGACTGTAAT TCAAGAAGCCTATAATTGAAAACCGTACCTCAGAACTGCAGCAATAGTTTCATCATCTGGGGAA AGTTCATGTGCTTTACTCAAGTCACCCACCGCCGCCTGAAAGCATTTGTACAATCAACCATAGT CGGGAAAAAGAACAAAAGGGATTGGCATGTCAAAAGAAAAGGGTCAAGCAAATCTTACTTCCAG GTTTCCTAGCTCTTTGTATGCCTGGCCTCTCCGGTAGTATGCTTTGACATTGCTTGAATCATAA GTTAGAACCTGTAAGTACATTTGATAGCTGAATCAGCTTGATGTGAAAGAAGAGCTAATGTGCT TGGTGGAACTCAACGAAAGCAAACTAACAACAATACACCATAACTAGAAAAGCCCAACTCAAAG AGAGTATAAAGTTCCATTTCATCAGCTCAGAAATAGCCAAAGGTGGCAGTCAGAAACAACAAAA TATTTTTGTTTATAAGATTATGGTTGAATGATATAATAACTCATTTACAGCAATTACATGTTGA AAAGTTAGTCTTCTTGACCTAAAATATTTTTTATTTCAAGGTTGCTAGACCAGTATACACATAT GGCATATTTAGATTTAGTACCTCAAATAACAAATAAAACTAACAGGAAGATTGTGTTGCCTTTT AGTAATAAAACAACAATACATTCACAACAGGCATACCTCTGAGCCTTCATTTATGCATTCCTCA AAATTCCGTGTTTTCAGGTAACAAGCCATTAAATTAAGGGTGCACACCAACTGCAGAGAATGCG CTGATTGCGATGGTATGCTCTTTAAGTTATCCTTGGCCTGGTCAGGAAAGGAATGCATTGATTT AACATACATCACATTCAAATTTACTTACAAAATGAAGGTTTGACGTTCAAAACATACAAGCTTG TACTTGGCAGCAGCTTCACTATACTGCTCACACCTATGAAGTTCATTTCCCTGAAATTTAAAAA AAATGAAACAAATAAGGGTGATATTATGGGAATTACAAATATCAATATTACAAAAATAGTTTAA AACTTGGAAGTTTGCAAGTTCAAAATAGTTAAACAATTAAAGAGGTGCAGAGTTTTCTTAAACA AGATAATATTGGTAAAGGTGCATAGGTTCAGTAAACATTTGTCACAAAACAGTACATGTATCTG GCTCAGCCTGACTAATGCATCAGTAGATGTAGTTCTTTGGTAAAAGGAAAAAAGGAGGCTCATC AAATGCTCTTTAGTGTTCACGTCAGCATGAAGTTCATATGTATATTTTCCAGCATTCCACTAGT TAACTCAGGGTGATCCAAACCTGTAATGGTATGAACCTCATAGCACATACAGCATTCGCCAATT TTTTTGTGAATTTAAATTTTATTACTCATTTGTCCTTGCCAAAAAGTGTAACATGAAGCTCTAT TCTAGTTCTAGATTGAAAAAATGAAAAAAAAAAGTTCAAGAAACGCACCGTTCAGTAGTTCGAA AAACGTGCGCGCGGAAAATGAGGGGAGTGAGGTGGGAAACATGGGTACCGAACTCAGCCTTACT ATAACCGAATTCCAACAGAATATGATAGTAAAAAGTGAAGTTGGACTGCTATACATACCTGCTG CTTCAACATCTTGGCACCAGATATCACATATGACATCTGTTGCTCTGCTTGAACCTTCATAGCA GCAACCTCCTCGGGATTAGCATTGGCAAGTTTTTCGGCCATATCAAGCATTTCATCTGGTCTTG TTTGATTCATCTGCTGTGCAGCTCGTCTGAAGTCATCAGCTCTCATATTCTTCATGCTCTCAGA TGCTAACTTTACTAGGTTAGGATTTGACAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.316675367

Conservation Information
Conserved circRNAs	NA
PMCS	0.316675367

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3274729-3273144(+)
3274731-3274757(-)
						
						Potential amino acid sequence
						
							MLSDANFTRLGFDRSFWMLRSFPFHCKFFFRVSQNCSNSFIIWGKFMCFTQVTHRRFQVS*(+)
MKNMRADDFRRAAQQMNQTRPDEMLDMAEKLANANPEEVAAMKVQAEQQMSYVISGAKMLKQQG
NELHRCEQYSEAAAKYKLAKDNLKSIPSQSAHSLQLVCTLNLMACYLKTRNFEECINEGSEVLT
YDSSNVKAYYRRGQAYKELGNLEAAVGDLSKAHELSPDDETIAAVLRDAEEKLAVEGKGAKHPK
ASVKS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3274729-3273144(+) 3274731-3274757(-)
Potential amino acid sequence	MLSDANFTRLGFDRSFWMLRSFPFHCKFFFRVSQNCSNSFIIWGKFMCFTQVTHRRFQVS(+) MKNMRADDFRRAAQQMNQTRPDEMLDMAEKLANANPEEVAAMKVQAEQQMSYVISGAKMLKQQG NELHRCEQYSEAAAKYKLAKDNLKSIPSQSAHSLQLVCTLNLMACYLKTRNFEECINEGSEVLT YDSSNVKAYYRRGQAYKELGNLEAAVGDLSKAHELSPDDETIAAVLRDAEEKLAVEGKGAKHPK ASVKS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os07g0161000_circ_g.7

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