Plant Circular RNA Database

Detail information of Os07g0467900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0467900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_033715
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 16661827-16665560  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0467900						
					
						Parent gene annotation
						
							Similar to DNA primase. (Os07t0467900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os07t0467850-00:5
Os07t0467850-00:5
Os07t0467900-01:5

General Information
CircRNA Name	Os07g0467900_circ_g.1
ID in PlantcircBase	osa_circ_033715
Alias	NA
Organism	Oryza sativa
Position	chr7: 16661827-16665560 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0467900
Parent gene annotation	Similar to DNA primase. (Os07t0467900-01)
Parent gene strand	+
Alternative splicing	NA
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	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	Os07t0467850-00:5 Os07t0467850-00:5 Os07t0467900-01:5

			
						 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  
						
							TTGCAGATTAGATGATGACTGTCATAAACTTTTGACATGCAAACTTGATTTAGATTGCAAGAAA
ACATTGCATTTTGACTCGGAAGCCAGCATGATACGAgtacaataatatggatccgcagattcgc
catcactatgaagttatacaggatgtaagtatccatatctgtattttgttgaaatggtaaaaat
attatatg

									
								

					

						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
						
							GTACAATAATATGGATCCGCAGATTCGCCATCACTATGAAGTTATACAGGATGTAAGTATCCAT
ATCTGTATTTTGTTGAAATGGTAAAAATATTATATGCTGCCAAGTAGTAGTTGCATAAAAACGC
TTTTCATATGCTTGTTCTTTTTCCCAAACCTGATGGTAATGATGTGATCAAATATTTGGTAAAG
CACATACTTGATACCACAACTTCTCTTTTGACGGGAATTCTCCTTCTCTAAGGGCCTTAATTTT
GGAATCATGTCCATAGAATCCTGGCCTCAAATTTGCAAATATATTTGTTTGTGCATATCCTCTT
AATCATTATTGTTTGGGAATTATTCTGTTACATCATGAAGATAGTGCTATCTTTTAGGATGAGG
AATCAACCTGCATATAGTCGTACAAACAAATGTCTGAAAAACGGTCATACCCTAGATAGCCAAT
AACATGTTACATCAATTTTGATGCTACAGGGTTCACCTTGCCATATTTACTTTGATCTTGAGTT
TGACCCAAGATTGAACAAGATGAGAGATGCAGATGAAATGGTGGATATATTGGTTGCAGCCACA
TTCAGTGCTTTGCATGATAAATATTCCATTGAAGGACAGGAGGAATGGATAATAGAGTTAGACT
CGTCTACTGAAGGTGCCTTATTACCTCCTTTTGCATGTGTGTTTAACCTATAAAATTATGTCAA
TAAGATCAGTGGGATCATTTTATGATGAATAAGATTAGCCTTTGCATCTTCTGGATGGCTAGTT
GCCTAATCCTACACAAGGATTTTGTTTTCTATAATAGTCTAATACATTTGTACTGTAGGGCGTT
TCTATGAATCATATGTTTTAAGTGGATGCTATGCATGATGAATGGAGACATTGTCTCCGTTGAG
CCTAAGCAGTTCTCAAACTTCAGTCTTAAGGTAGGGTTATTCATAGAAGCTGAGGGATATCCAA
GTTGAGAAGATAGGAAAAGGAATACTTACCATATTGAACATAGGCCATATTTGAATAAGTTTTA
AGAAGAGTTGTAGCAATTGTTCAAGAATTAGTTTGGCTTTTGTGCACTCTATATATGGATTTCA
TCCACAAGCTAATCCTACATGTGAGTGGGGGGAGAATGAAAGGAAGTTACCTTTTTAATTATCA
GGAAGGATCTACTATGCGACCCCCATACCCTTTTTACATTATGTATTGGTCAATCTCAATCGTT
GTGACAACCTTATGTGCTGCATACTGGTACTCATATGAAAACTTCTGTTGTTTGCTTAGAAAAG
TTCTCACGCCATTTGATCATCCGCATACCGAAGACTGCATTCAAGGACAACTCCCATGTTGGTG
CATTTATCTCTGAGGTACTATTCGATCTCAATCTTCAGTTTTATTATCATCAGTAGATTTGTTA
TTTTCAAGTGCTCTATGTTTTGTTGAGCTAGTTATATTCAAGCAAGGAACAGTTCTAAGTCTAT
ATCTTTCAGCAATGCTCCAAAATAAAACATAGAACAAATATATGAATGAAAATGTTTTGTACCA
TGGATACATAGTATATGACCCTGACCCTGATAGCAGATACATGGAACATGCTCTCACCTACACT
GAGAATAGGATCTAGTTACTCAGTGGAGCATGTTCACCTATTTAATAGTTTCTTTAACTCTTTA
GTCTGTCTTCATCCTCCCCATGACGATGGACACAAGTTTTATTTGTTTATCCTCGAAGAGAATC
CAGGCTTGCAACTAATCTATTCACTCCAAAATTGAATTTACTTTGTCTTCATACGTCAAGTTTT
TGAGGAAAAAAAAATCAAAATGGAATAGGTCTATAGTACGCAGTAAGGCCCATATGAAACACAA
TGTATTTATGCTAATGAGTTGTTATCTTCTACACTAGAGGTGCTTTGAGCACTTGCACATTTCT
GTATTGATGCCAAGTTACAAGTAAAGTAGAAACCTATCTTTGTTCTTGCCATACTTCTGGGCCT
CCTGCGTTAGTCAATTCATCTTTTGGTAAAATGAAATGCAACTCTGAAATTAGAAAGAACCAGA
ATAAATTTCTTCTACTTTACAGGTGTGTACATCAACGCTGACTAGCAATTGATTTGCAATATAT
ATGTTCTGCATATATGTTTGCCAACAAACTTAAGATGTGTATCCTTTTTTCTGGCCATGGGATT
TATGTTCAGAACATTTGCCTTTTTTGCTTTGCTTGGTTCAATATAGAATCGACGTGGTTGATTG
GAATTTTTTTTCTACACTGAAGTATTGCTCTTCTTTGCAGATCTGCTCACGGATCGCATCTCAG
CGTGCAGCTAATCCTAACTTTGATAAACTGTACATTACGAAAGATAGCAGTTGTACAGGTCATG
CTGATCATCTCTTTATGGATATTGCTGTTTACTCCCGGAATCGTTGTTTTCGTTTAGCCTTCTC
ATCGAAGTCTGGGAAGAAGTCATTTCTTGTGGCTACTGAGCGTTTCAAACATAAAAACATGGTG
AGACCTTGATCATAAGTTCTTTTCTTTGTTCTCGATAAATATTCCTAATGTCAAGTTTTTGATT
TCACATGCCGACTTGTTTCTGTTCTTCAACTACATTAGAAAATTTAATTTCTTCTTGGAGATTT
GATGTAAATAAACGTCTCCTATTTCAAATGGTAGAACAATTTTTTGGGGACGGAGAATAATTGT
AAGCCTGTAATAGTGATAAAAAGTTGATGGTTTATTGTTTCATGCCATGATGCTGAAATACAGA
AATAGTGAAGATGTTCACTTAAAATAGTTGTTTCTTGCTTTTTAAACTTAAAAAGGCTATTTTA
TATGGCCTTGGACCTGTCAAGTTTTCCTGAAATCAGTAAGAGAAGTACTCTACTAGTTGATCTG
GTCCTCGCTAGTGTTGTATTTGTTGACACTTGTAAGCAACACCATTTCTGAAAAAAAAAACATG
TGTCTACACAGTGGGAAAGTGATAGTTTTTTCATTTGCTTGTAAATCAGCTCTTTTTGGCACCC
CAGTTCTGATAGACTACATAAATTTTGGACTGATGAACCGCCATCAATTTTATATCTATTCCAA
GGAGGCTTTTTAGAATAATATCACATTTGTTTTGATAGTCCATAATTGCCCTGTTTTTTTTTTC
TTGAACAAGCCAGTTTATCAACACCCTAGTTCAGGAGTAGTTACTAGTTAGTACTGCTTGGTTT
CCAGAACCTGATCCATTCTTGAAACCTTTTGATCCATCGGTTACCACAAAAGAGTGTATCACAG
ATTGTCCTTTCGGTAGTAGGTCCTTGTATAATTTCTAAAACACAGTAGATGAATTTTAATTTAG
ATCTGCACTGCAGTTTGATATGCCTGCTGGTATGGCTAATCTGCTCAGTACAGCGATCCTAATA
CTTTATGTTATCTTTTCTGTGTTGTATGTCTTCTTTGCCTTATGTTATCTTCTGTTGACTGCAT
GTGAACATGGAACATTTTGTCTGAGGAGTTATGACATTTGGATATATGTCACCCCTGCACTCCG
ACAGCTTGTTTGTCTTAAGGAGTTATGAGATTTGGATATATGTCCCCCCCTGCACTCTGACAGC
TTGTTTTAAATGTTACAGAGTGATAAGGAGCTCTTTATGGAGTCACTTATTTGCAGATTAGATG
ATGACTGTCATAAACTTTTGACATGCAAACTTGATTTAGATTGCAAGAAAACATTGCATTTTGA
CTCGGAAGCCAGCATGATACGA
						
					

			
		

Sequences
Splice junction sequence	TTGCAGATTAGATGATGACTGTCATAAACTTTTGACATGCAAACTTGATTTAGATTGCAAGAAA ACATTGCATTTTGACTCGGAAGCCAGCATGATACGAgtacaataatatggatccgcagattcgc catcactatgaagttatacaggatgtaagtatccatatctgtattttgttgaaatggtaaaaat attatatg
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	GTACAATAATATGGATCCGCAGATTCGCCATCACTATGAAGTTATACAGGATGTAAGTATCCAT ATCTGTATTTTGTTGAAATGGTAAAAATATTATATGCTGCCAAGTAGTAGTTGCATAAAAACGC TTTTCATATGCTTGTTCTTTTTCCCAAACCTGATGGTAATGATGTGATCAAATATTTGGTAAAG CACATACTTGATACCACAACTTCTCTTTTGACGGGAATTCTCCTTCTCTAAGGGCCTTAATTTT GGAATCATGTCCATAGAATCCTGGCCTCAAATTTGCAAATATATTTGTTTGTGCATATCCTCTT AATCATTATTGTTTGGGAATTATTCTGTTACATCATGAAGATAGTGCTATCTTTTAGGATGAGG AATCAACCTGCATATAGTCGTACAAACAAATGTCTGAAAAACGGTCATACCCTAGATAGCCAAT AACATGTTACATCAATTTTGATGCTACAGGGTTCACCTTGCCATATTTACTTTGATCTTGAGTT TGACCCAAGATTGAACAAGATGAGAGATGCAGATGAAATGGTGGATATATTGGTTGCAGCCACA TTCAGTGCTTTGCATGATAAATATTCCATTGAAGGACAGGAGGAATGGATAATAGAGTTAGACT CGTCTACTGAAGGTGCCTTATTACCTCCTTTTGCATGTGTGTTTAACCTATAAAATTATGTCAA TAAGATCAGTGGGATCATTTTATGATGAATAAGATTAGCCTTTGCATCTTCTGGATGGCTAGTT GCCTAATCCTACACAAGGATTTTGTTTTCTATAATAGTCTAATACATTTGTACTGTAGGGCGTT TCTATGAATCATATGTTTTAAGTGGATGCTATGCATGATGAATGGAGACATTGTCTCCGTTGAG CCTAAGCAGTTCTCAAACTTCAGTCTTAAGGTAGGGTTATTCATAGAAGCTGAGGGATATCCAA GTTGAGAAGATAGGAAAAGGAATACTTACCATATTGAACATAGGCCATATTTGAATAAGTTTTA AGAAGAGTTGTAGCAATTGTTCAAGAATTAGTTTGGCTTTTGTGCACTCTATATATGGATTTCA TCCACAAGCTAATCCTACATGTGAGTGGGGGGAGAATGAAAGGAAGTTACCTTTTTAATTATCA GGAAGGATCTACTATGCGACCCCCATACCCTTTTTACATTATGTATTGGTCAATCTCAATCGTT GTGACAACCTTATGTGCTGCATACTGGTACTCATATGAAAACTTCTGTTGTTTGCTTAGAAAAG TTCTCACGCCATTTGATCATCCGCATACCGAAGACTGCATTCAAGGACAACTCCCATGTTGGTG CATTTATCTCTGAGGTACTATTCGATCTCAATCTTCAGTTTTATTATCATCAGTAGATTTGTTA TTTTCAAGTGCTCTATGTTTTGTTGAGCTAGTTATATTCAAGCAAGGAACAGTTCTAAGTCTAT ATCTTTCAGCAATGCTCCAAAATAAAACATAGAACAAATATATGAATGAAAATGTTTTGTACCA TGGATACATAGTATATGACCCTGACCCTGATAGCAGATACATGGAACATGCTCTCACCTACACT GAGAATAGGATCTAGTTACTCAGTGGAGCATGTTCACCTATTTAATAGTTTCTTTAACTCTTTA GTCTGTCTTCATCCTCCCCATGACGATGGACACAAGTTTTATTTGTTTATCCTCGAAGAGAATC CAGGCTTGCAACTAATCTATTCACTCCAAAATTGAATTTACTTTGTCTTCATACGTCAAGTTTT TGAGGAAAAAAAAATCAAAATGGAATAGGTCTATAGTACGCAGTAAGGCCCATATGAAACACAA TGTATTTATGCTAATGAGTTGTTATCTTCTACACTAGAGGTGCTTTGAGCACTTGCACATTTCT GTATTGATGCCAAGTTACAAGTAAAGTAGAAACCTATCTTTGTTCTTGCCATACTTCTGGGCCT CCTGCGTTAGTCAATTCATCTTTTGGTAAAATGAAATGCAACTCTGAAATTAGAAAGAACCAGA ATAAATTTCTTCTACTTTACAGGTGTGTACATCAACGCTGACTAGCAATTGATTTGCAATATAT ATGTTCTGCATATATGTTTGCCAACAAACTTAAGATGTGTATCCTTTTTTCTGGCCATGGGATT TATGTTCAGAACATTTGCCTTTTTTGCTTTGCTTGGTTCAATATAGAATCGACGTGGTTGATTG GAATTTTTTTTCTACACTGAAGTATTGCTCTTCTTTGCAGATCTGCTCACGGATCGCATCTCAG CGTGCAGCTAATCCTAACTTTGATAAACTGTACATTACGAAAGATAGCAGTTGTACAGGTCATG CTGATCATCTCTTTATGGATATTGCTGTTTACTCCCGGAATCGTTGTTTTCGTTTAGCCTTCTC ATCGAAGTCTGGGAAGAAGTCATTTCTTGTGGCTACTGAGCGTTTCAAACATAAAAACATGGTG AGACCTTGATCATAAGTTCTTTTCTTTGTTCTCGATAAATATTCCTAATGTCAAGTTTTTGATT TCACATGCCGACTTGTTTCTGTTCTTCAACTACATTAGAAAATTTAATTTCTTCTTGGAGATTT GATGTAAATAAACGTCTCCTATTTCAAATGGTAGAACAATTTTTTGGGGACGGAGAATAATTGT AAGCCTGTAATAGTGATAAAAAGTTGATGGTTTATTGTTTCATGCCATGATGCTGAAATACAGA AATAGTGAAGATGTTCACTTAAAATAGTTGTTTCTTGCTTTTTAAACTTAAAAAGGCTATTTTA TATGGCCTTGGACCTGTCAAGTTTTCCTGAAATCAGTAAGAGAAGTACTCTACTAGTTGATCTG GTCCTCGCTAGTGTTGTATTTGTTGACACTTGTAAGCAACACCATTTCTGAAAAAAAAAACATG TGTCTACACAGTGGGAAAGTGATAGTTTTTTCATTTGCTTGTAAATCAGCTCTTTTTGGCACCC CAGTTCTGATAGACTACATAAATTTTGGACTGATGAACCGCCATCAATTTTATATCTATTCCAA GGAGGCTTTTTAGAATAATATCACATTTGTTTTGATAGTCCATAATTGCCCTGTTTTTTTTTTC TTGAACAAGCCAGTTTATCAACACCCTAGTTCAGGAGTAGTTACTAGTTAGTACTGCTTGGTTT CCAGAACCTGATCCATTCTTGAAACCTTTTGATCCATCGGTTACCACAAAAGAGTGTATCACAG ATTGTCCTTTCGGTAGTAGGTCCTTGTATAATTTCTAAAACACAGTAGATGAATTTTAATTTAG ATCTGCACTGCAGTTTGATATGCCTGCTGGTATGGCTAATCTGCTCAGTACAGCGATCCTAATA CTTTATGTTATCTTTTCTGTGTTGTATGTCTTCTTTGCCTTATGTTATCTTCTGTTGACTGCAT GTGAACATGGAACATTTTGTCTGAGGAGTTATGACATTTGGATATATGTCACCCCTGCACTCCG ACAGCTTGTTTGTCTTAAGGAGTTATGAGATTTGGATATATGTCCCCCCCTGCACTCTGACAGC TTGTTTTAAATGTTACAGAGTGATAAGGAGCTCTTTATGGAGTCACTTATTTGCAGATTAGATG ATGACTGTCATAAACTTTTGACATGCAAACTTGATTTAGATTGCAAGAAAACATTGCATTTTGA CTCGGAAGCCAGCATGATACGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103303403

Conservation Information
Conserved circRNAs	NA
PMCS	0.103303403

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16661838-16661832(+)
16661859-16665459(-)
						
						Potential amino acid sequence
						
							MDPQIRHHYEVIQDGSPCHIYFDLEFDPRLNKMRDADEMVDILVAATFSALHDKYSIEGQEEWI
IELDSSTEEKFSRHLIIRIPKTAFKDNSHVGAFISEICSRIASQRAANPNFDKLYITKDSSCTG
HADHLFMDIAVYSRNRCFRLAFSSKSGKKSFLVATERFKHKNMSDKELFMESLICRLDDDCHKL
LTCKLDLDCKKTLHFDSEASMIRVQ*(+)
MANLRIHIIVLVSCWLPSQNAMFSCNLNQVCMSKVYDSHHLICK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16661838-16661832(+) 16661859-16665459(-)
Potential amino acid sequence	MDPQIRHHYEVIQDGSPCHIYFDLEFDPRLNKMRDADEMVDILVAATFSALHDKYSIEGQEEWI IELDSSTEEKFSRHLIIRIPKTAFKDNSHVGAFISEICSRIASQRAANPNFDKLYITKDSSCTG HADHLFMDIAVYSRNRCFRLAFSSKSGKKSFLVATERFKHKNMSDKELFMESLICRLDDDCHKL LTCKLDLDCKKTLHFDSEASMIRVQ(+) MANLRIHIIVLVSCWLPSQNAMFSCNLNQVCMSKVYDSHHLICK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0467900_circ_g.1

Address

Any questions?

Supported by