Plant Circular RNA Database

Detail information of Os07g0176401_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0176401_circ_g.3
					
						ID in PlantcircBase
						osa_circ_032960
					
						Alias
						Os_ciR11239
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 4023423-4027228  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						circRNA_finder, find_circ
					
						Parent gene
						
							Os07g0176200						
					
						Parent gene annotation
						
							Tesmin/TSO1-like, CXC domain containing protein. (Os07t0176200-0
1);Similar to Transcription factor CPP. (Os07t0176200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0176401_circ_g.1 Os07g0176401_circ_g.2 Os07g0176401_circ_g.4 Os07g0176401_circ_g.5 Os07g0176401_circ_g.6 Os07g0176401_circ_g.7 						
					
						Support reads
						2/2
					
						Tissues
						root/seed
					
						Exon boundary  
						
							Yes-No							"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  
						
							GT-AG							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
						Os07t0176401-00:9
Os07t0176200-01:10
Os07t0176200-02:8
Os07t0176401-00:9

General Information
CircRNA Name	Os07g0176401_circ_g.3
ID in PlantcircBase	osa_circ_032960
Alias	Os_ciR11239
Organism	Oryza sativa
Position	chr7: 4023423-4027228 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	circRNA_finder, find_circ
Parent gene	Os07g0176200
Parent gene annotation	Tesmin/TSO1-like, CXC domain containing protein. (Os07t0176200-0 1);Similar to Transcription factor CPP. (Os07t0176200-02)
Parent gene strand	+
Alternative splicing	Os07g0176401_circ_g.1 Os07g0176401_circ_g.2 Os07g0176401_circ_g.4 Os07g0176401_circ_g.5 Os07g0176401_circ_g.6 Os07g0176401_circ_g.7
Support reads	2/2
Tissues	root/seed
Exon boundary	Yes-No "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	GT-AG 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	Os07t0176401-00:9 Os07t0176200-01:10 Os07t0176200-02:8 Os07t0176401-00:9

			
						 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  
						
							ATCAACCAGGTCCATCCTAAAAGCTGGCTGCTGATTATGAGCGTCCGGAGTACAACTTGTAGTC
CGAGAAAAGTGCCTCACATCTGAAGCACGGCATCAGgactccccacttttcagcttcatcgata
gcctgtctccgatcgagcctctcaagtccgcgtattcagcaagcagcattcaggcataccagtc
cctcaaca

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GACTCCCCACTTTTCAGCTTCATCGATAGCCTGTCTCCGATCGAGCCTCTCAAGTCCGCGTATT
CAGCAAGCAGCATTCAGGCATACCAGTCCCTCAACATCACCTCCATTTCTTCCATCTTCACTTC
TCCGCACGACAATGCGCAAAAGGAATCGAAGCTATCAAAGTATGGTGGTTCCTGCCTTAATTTA
CTTTCACCTTCAGTCATATCATACCTAGTATGGTGGTTCAGTGGATCTGATGCTGCTCCTCATT
CTTGTCAGGAGCTCTTTCGCTGAATTCTCTGAAAGTGAGGTTTGTGCCGATGAAAGCGATAAAA
ACAAGCCATCTAAATCTTCTAATGCTGTCAGGTTGTTTGCCTGCACTAGCACTCTTACACAAGC
AACCCACAAAATTACCTCTTCAGTAAGTGAAGGTACAGTAGGACCTCCTGAAGGGTCAAACGAT
TTGCCTCAACCTGGTCAATTCGATTCTGGCAGTCCAGATCACAACACAACACCTTGCCATGGTG
TTAGATCAGATCTTAAACAGGGCAAATGTCGAAAATTACAAGCATTCCAAACAGCTAAGACCAA
TACTTCGGAGAAAAGGAAATGCTTGTTTTCTACTGAAGTCCAGCTCATGGATGGGTGCCAGCCA
GAAAAACTTAATGATGAAATCCTGGGATGTGACTGGGATGACTTGATCTCTGCAACTTCGGGTG
AACTTATAGCCTATGACGAGGATCACAAAGGAGTGCAGCTAGCAGTAAGTAATGCAGAATCTTG
TGGATTTCTGCTATCAAAGCTTACAGGAGATGGTGACATCTCAGACAGAACACATCCTAGTTCA
TCTACGCAGACGTACTACCGTGAGTTGCTAATGGACGAAGATCAGACAGAAAATGCTCAGCTAG
TTCCAGATGGTGAAAAAAACATCTCAACTGAAGAAATTCAGGATAACCTTTACGAAGCAAATGG
AAGTATTCCAACAGGCTACAAGGTAAATTTTGCCCACATTCACATAGAACTGTCTTTCCTCCTT
GAGTTTCTGTAGTTTGATCTGTTATGATCAGGTATTTTCCCATAATGCACTAATTCTTTCGTTC
TGTTAACATTCTTAGGTTGAGACTCAACAGCAACGTGGCATGCGAAGACGCTGTCTTGTTTTTG
AGGCAGCTGGGTACTCAAATAGGATTGTGCAGAAAGAATCAGTCATGGATCTGTCAGTCTCAAC
CTGCAAAGGGAAAAGCCCTGTACAGAATCACTCAAATCCAGGGAAAACTCCATCTCCACGTGTG
TTGCGTGGTATAGGTCTACATTTGAATGCTCTTGCTTTAACATCGAAGGATAAAATGATCTGTC
AGGATCCCATGTCATCTTTGGTTCCATCATCTGCAACTCAGCAGGAAGCGCATGGGAAGATGTT
GTCTGCTGGAGAGAATTTCATTCACCCGGGTGGTGAACTTCTAGAACTTCAGATGGATGATGAT
TGTTCAGCTGGAGTTTTTCTTGGAAATGATCACGATTCAAGTCAAAGCAACAGCCCTCAAAAGA
AGAGGTCTGTTTTATTGATTTGATTTCCTTCTGGAGGTTTGCGTCAAAAAAAAAAATCCTTCTG
GAGGGTGACAGGTGCTACTATGTTCATTGTATTCTGATAACTGATATAACTTTTGTTGATGTGC
AGGCGCAAATCAGATAATGGAGATGATGGTGAGGCATGCAAGCGCTGCAGCTGTAAGAAGTCAA
AGTGCTTGAAACTGTGAGTTCTGATTCGCTGCTAAGATTTAGTGTTCCTAATTACATGAAGAGG
TTTTCCTTTTGAAATGCTTGTGCATAGAATTCTTAGTCATTAGTTTTGCTCTACATTTTTTATG
TGTATAGGCTGAATTGAATATTTTCCCATAATAAGCCTTTGCATTGTTGTCATGTGCAGTTACT
GCGAGTGTTTTGCTGCTGGTGTGTACTGTTCTGAACCTTGCTCATGTCAAGGGTGTCTTAACAA
GCCCATACATGAGGAGATTGTTCTTTCCACTCGCAAGCAGATAGAATTCAGGAACCCACTGGCA
TTTGCTCCAAAAGTGATCCGCATGTCTGATGCTGGTCAGGATATTACTGGGGTAGGCGCTTTTT
GCTGGATAGTCTGTACTACTTCTAGCCCTCATTTCCATTTATGTGGTGCTGAAATACTTCAATA
AATTGCAGGAAGATCCTAACAACACTCCAGCTTCAGCTCGACATAAGAGAGGATGCAATTGCAA
GAAGTCAAGCTGTCTTAAGAAATACTGTGAATGCTATCAGGTACTAAAGATTATCTGAAAACTT
GTTTTCAAGACAGTTATCTGAAACTTAGCCTGTAATTTGTTACTTATGGTTTAAATGCTTGATT
TAATAAAAGGGAGGCGTTGGATGCTCCAGCAACTGCAGATGTGAGGGTTGCAAAAACACATTTG
GCAAAAGAGATGGTGAGTATATAGCATTTCACATTTTCTCAACCATGCCATTCCTGTTCAATTT
CTGGAGTTGCACACCATTTTGCCAGAAACAAATTTAATATGCTGCTTTTTCTTGGCATATTTAT
AATGTACGCGCTGTCCTTCTGTGCTATGAAACTCCATAACAATAGTAGGCTGGCTTTCTCATTA
TTGTTAGTTGCATGAATGCATATATTTCCATGTTAAATTGAAGCATGCTATTCTGGATAGCATA
ACTCCAGAAGGAAAAAAAGACCTCAGAAAGCTAATGTTTTACTGTAGTGCAATATCTGCATGAG
TTTGTAGGAGGGAAAAAGAAGAAAATTTCACCTTATGTGAGGGAGCTTCCTTTTGCATTTACAA
CCTTCTGCATTACAAATTTCAAAACGATCAACTTCTTTAACCTCTGGATCTATGTTACAGTTCT
TTGTTTTCATCTCGAAGGTCACTCTGATATAGAGTACCTTATGTTATCAACAAGTGCCCCAATG
TTTTGAGTTACCTCTGAATTGATTATCCTCTTGGCAGCTGCTGTATCAACTGAGGCTGAAGAAA
TGAAGCAAGGAGGTGAAGAAGCAGAAAATTGTGGAAAGGAAAAGGAAAACGATCTACAAAAGGC
AAATGCACAGAGTGAAGATCACCCATTCCTTGAACTTGTCCCGATAACTCCACCTTTCGATGTT
TCAAGGTTTGATGACTATAACTTTTACCAAATTAAACTGGTCTCAGTATTTGTCTGTCTGTACG
CCTGCATTCTAATAGCTGTATAATCCTTTTCAGTTCGTTGCTCAAACCACCAAACTTCTCGAGT
GCAAAGCCACCAAGGCCTACTAAAGCTCGCTCGAACTCATCTCGTTCATCTTCGAAAGCTCCTG
GAGCTGTTCACTCACAGAAGTTCTCCAAGATTGCTAATAGTGGCTTGAATGAAGAAATGCCAGA
TATATTAAGAGATGATGCTTCTCCTGGTAACTGTGTCAAGACATCTTCACCAAATGGAAAGAGA
GTCTCGCCACCTCATAATGCACTCAGTGTTTCACCAAGCCGAAAAGGTGGCCGGAAGCTGATAC
TGAAATCCATCCCCTCATTTCCATCACTCATTGGAGACGCAAGCAGCGGTTCATCAATGAACAG
TTCCGAGAGCGCATTCAACACTGCATCGCCTCTTGCTTTAGGTAAGGCCTGCCTATTTCATATG
TACAACATTAGATGGTGTTTGTTTTTGGCAGCATCTTATTCATATGCTTGTCCATGGAATCAAC
CAGGTCCATCCTAAAAGCTGGCTGCTGATTATGAGCGTCCGGAGTACAACTTGTAGTCCGAGAA
AAGTGCCTCACATCTGAAGCACGGCATCAG
						
					

			
		

Sequences
Splice junction sequence	ATCAACCAGGTCCATCCTAAAAGCTGGCTGCTGATTATGAGCGTCCGGAGTACAACTTGTAGTC CGAGAAAAGTGCCTCACATCTGAAGCACGGCATCAGgactccccacttttcagcttcatcgata gcctgtctccgatcgagcctctcaagtccgcgtattcagcaagcagcattcaggcataccagtc cctcaaca
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GACTCCCCACTTTTCAGCTTCATCGATAGCCTGTCTCCGATCGAGCCTCTCAAGTCCGCGTATT CAGCAAGCAGCATTCAGGCATACCAGTCCCTCAACATCACCTCCATTTCTTCCATCTTCACTTC TCCGCACGACAATGCGCAAAAGGAATCGAAGCTATCAAAGTATGGTGGTTCCTGCCTTAATTTA CTTTCACCTTCAGTCATATCATACCTAGTATGGTGGTTCAGTGGATCTGATGCTGCTCCTCATT CTTGTCAGGAGCTCTTTCGCTGAATTCTCTGAAAGTGAGGTTTGTGCCGATGAAAGCGATAAAA ACAAGCCATCTAAATCTTCTAATGCTGTCAGGTTGTTTGCCTGCACTAGCACTCTTACACAAGC AACCCACAAAATTACCTCTTCAGTAAGTGAAGGTACAGTAGGACCTCCTGAAGGGTCAAACGAT TTGCCTCAACCTGGTCAATTCGATTCTGGCAGTCCAGATCACAACACAACACCTTGCCATGGTG TTAGATCAGATCTTAAACAGGGCAAATGTCGAAAATTACAAGCATTCCAAACAGCTAAGACCAA TACTTCGGAGAAAAGGAAATGCTTGTTTTCTACTGAAGTCCAGCTCATGGATGGGTGCCAGCCA GAAAAACTTAATGATGAAATCCTGGGATGTGACTGGGATGACTTGATCTCTGCAACTTCGGGTG AACTTATAGCCTATGACGAGGATCACAAAGGAGTGCAGCTAGCAGTAAGTAATGCAGAATCTTG TGGATTTCTGCTATCAAAGCTTACAGGAGATGGTGACATCTCAGACAGAACACATCCTAGTTCA TCTACGCAGACGTACTACCGTGAGTTGCTAATGGACGAAGATCAGACAGAAAATGCTCAGCTAG TTCCAGATGGTGAAAAAAACATCTCAACTGAAGAAATTCAGGATAACCTTTACGAAGCAAATGG AAGTATTCCAACAGGCTACAAGGTAAATTTTGCCCACATTCACATAGAACTGTCTTTCCTCCTT GAGTTTCTGTAGTTTGATCTGTTATGATCAGGTATTTTCCCATAATGCACTAATTCTTTCGTTC TGTTAACATTCTTAGGTTGAGACTCAACAGCAACGTGGCATGCGAAGACGCTGTCTTGTTTTTG AGGCAGCTGGGTACTCAAATAGGATTGTGCAGAAAGAATCAGTCATGGATCTGTCAGTCTCAAC CTGCAAAGGGAAAAGCCCTGTACAGAATCACTCAAATCCAGGGAAAACTCCATCTCCACGTGTG TTGCGTGGTATAGGTCTACATTTGAATGCTCTTGCTTTAACATCGAAGGATAAAATGATCTGTC AGGATCCCATGTCATCTTTGGTTCCATCATCTGCAACTCAGCAGGAAGCGCATGGGAAGATGTT GTCTGCTGGAGAGAATTTCATTCACCCGGGTGGTGAACTTCTAGAACTTCAGATGGATGATGAT TGTTCAGCTGGAGTTTTTCTTGGAAATGATCACGATTCAAGTCAAAGCAACAGCCCTCAAAAGA AGAGGTCTGTTTTATTGATTTGATTTCCTTCTGGAGGTTTGCGTCAAAAAAAAAAATCCTTCTG GAGGGTGACAGGTGCTACTATGTTCATTGTATTCTGATAACTGATATAACTTTTGTTGATGTGC AGGCGCAAATCAGATAATGGAGATGATGGTGAGGCATGCAAGCGCTGCAGCTGTAAGAAGTCAA AGTGCTTGAAACTGTGAGTTCTGATTCGCTGCTAAGATTTAGTGTTCCTAATTACATGAAGAGG TTTTCCTTTTGAAATGCTTGTGCATAGAATTCTTAGTCATTAGTTTTGCTCTACATTTTTTATG TGTATAGGCTGAATTGAATATTTTCCCATAATAAGCCTTTGCATTGTTGTCATGTGCAGTTACT GCGAGTGTTTTGCTGCTGGTGTGTACTGTTCTGAACCTTGCTCATGTCAAGGGTGTCTTAACAA GCCCATACATGAGGAGATTGTTCTTTCCACTCGCAAGCAGATAGAATTCAGGAACCCACTGGCA TTTGCTCCAAAAGTGATCCGCATGTCTGATGCTGGTCAGGATATTACTGGGGTAGGCGCTTTTT GCTGGATAGTCTGTACTACTTCTAGCCCTCATTTCCATTTATGTGGTGCTGAAATACTTCAATA AATTGCAGGAAGATCCTAACAACACTCCAGCTTCAGCTCGACATAAGAGAGGATGCAATTGCAA GAAGTCAAGCTGTCTTAAGAAATACTGTGAATGCTATCAGGTACTAAAGATTATCTGAAAACTT GTTTTCAAGACAGTTATCTGAAACTTAGCCTGTAATTTGTTACTTATGGTTTAAATGCTTGATT TAATAAAAGGGAGGCGTTGGATGCTCCAGCAACTGCAGATGTGAGGGTTGCAAAAACACATTTG GCAAAAGAGATGGTGAGTATATAGCATTTCACATTTTCTCAACCATGCCATTCCTGTTCAATTT CTGGAGTTGCACACCATTTTGCCAGAAACAAATTTAATATGCTGCTTTTTCTTGGCATATTTAT AATGTACGCGCTGTCCTTCTGTGCTATGAAACTCCATAACAATAGTAGGCTGGCTTTCTCATTA TTGTTAGTTGCATGAATGCATATATTTCCATGTTAAATTGAAGCATGCTATTCTGGATAGCATA ACTCCAGAAGGAAAAAAAGACCTCAGAAAGCTAATGTTTTACTGTAGTGCAATATCTGCATGAG TTTGTAGGAGGGAAAAAGAAGAAAATTTCACCTTATGTGAGGGAGCTTCCTTTTGCATTTACAA CCTTCTGCATTACAAATTTCAAAACGATCAACTTCTTTAACCTCTGGATCTATGTTACAGTTCT TTGTTTTCATCTCGAAGGTCACTCTGATATAGAGTACCTTATGTTATCAACAAGTGCCCCAATG TTTTGAGTTACCTCTGAATTGATTATCCTCTTGGCAGCTGCTGTATCAACTGAGGCTGAAGAAA TGAAGCAAGGAGGTGAAGAAGCAGAAAATTGTGGAAAGGAAAAGGAAAACGATCTACAAAAGGC AAATGCACAGAGTGAAGATCACCCATTCCTTGAACTTGTCCCGATAACTCCACCTTTCGATGTT TCAAGGTTTGATGACTATAACTTTTACCAAATTAAACTGGTCTCAGTATTTGTCTGTCTGTACG CCTGCATTCTAATAGCTGTATAATCCTTTTCAGTTCGTTGCTCAAACCACCAAACTTCTCGAGT GCAAAGCCACCAAGGCCTACTAAAGCTCGCTCGAACTCATCTCGTTCATCTTCGAAAGCTCCTG GAGCTGTTCACTCACAGAAGTTCTCCAAGATTGCTAATAGTGGCTTGAATGAAGAAATGCCAGA TATATTAAGAGATGATGCTTCTCCTGGTAACTGTGTCAAGACATCTTCACCAAATGGAAAGAGA GTCTCGCCACCTCATAATGCACTCAGTGTTTCACCAAGCCGAAAAGGTGGCCGGAAGCTGATAC TGAAATCCATCCCCTCATTTCCATCACTCATTGGAGACGCAAGCAGCGGTTCATCAATGAACAG TTCCGAGAGCGCATTCAACACTGCATCGCCTCTTGCTTTAGGTAAGGCCTGCCTATTTCATATG TACAACATTAGATGGTGTTTGTTTTTGGCAGCATCTTATTCATATGCTTGTCCATGGAATCAAC CAGGTCCATCCTAAAAGCTGGCTGCTGATTATGAGCGTCCGGAGTACAACTTGTAGTCCGAGAA AAGTGCCTCACATCTGAAGCACGGCATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017578 						
					
						PMCS
						0.33584709

Conservation Information
Conserved circRNAs	osi_circ_017578
PMCS	0.33584709

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os07g0176401_circ_g.3

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