Plant Circular RNA Database

Detail information of Os07g0607300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0607300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_034696
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 24957963-24959111  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0607300						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os07t0607300-01);Bromo adjacent re
gion domain containing protein. (Os07t0607300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						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
						Os07t0607300-01:3
Os07t0607300-02:4

General Information
CircRNA Name	Os07g0607300_circ_g.1
ID in PlantcircBase	osa_circ_034696
Alias	NA
Organism	Oryza sativa
Position	chr7: 24957963-24959111 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0607300
Parent gene annotation	Hypothetical conserved gene. (Os07t0607300-01);Bromo adjacent re gion domain containing protein. (Os07t0607300-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	1
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	Os07t0607300-01:3 Os07t0607300-02:4

			
						 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  
						
							CTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGAT
GATCTCCAGAATGCTGATGATAGTGGGAGATTGGAGaactttcaaaatttggatcacatatggg
taatgacattggattggatggatacagtgaacctgatagctttatgggtcacaatctggtatgc
aattactt

									
								

					

						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: 868
Transcript exons: 24957963-24958048,24958125-24958229,24958317-24958601,24
958720-24959111
AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA
TAGCTTTATGGGTCACAATCTGGGGAAAGCCTGTAGCTCGGACATTATGTGGTCTGGTTCGTCC
TGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTACCACAATATCTA
CCCACTCTTTTGTGCTTGTCATGTCTGAGGAGGAAAGTCGCTATCTTGCATACTTGGAAGATAT
GTACGAAGATAAGAAGGGGCAGAAGAAGGTTAAAGTGCGATGGTTTCATCAAAACCAGGAATTT
GCTTGCGCTATACCTCCTCCCCCTCCTCATCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAG
TAATCAGTGTGGAGTGTGTCGATGATATTGCAACTGTGTTAACTCCTGAGCACTATGAAAAATG
CGTCAATACATTGCCAAATTCTTCTATGAGCAAGAAAAGGATGATGGTTCTGATATCATAAAAA
CTTTTGAGCAATGGACACCTGGGAAGACAAAGTTTCCTAAGCAGTTTGAGAGGCTTTACTCAAA
ATGTTTGGGAACTAAAATCTGCCGAGGCCCACAAGAAGACTCCATAGCATCTTATCAGAAACCA
AGCAGTAAGCAATCTCCCAGAAAACATCTCTCAGTCAAGTTCATAGGGCCCCAGAATCAGCGTA
TGCCAACCTACAATGTTGGTGACAGAATAGAGGTCTTGTCTCAGGACAGTGGGATTGTAGGCTG
CTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGAT
GATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG
Transcript length: 986
Transcript exons: 24957963-24958048,24958125-24958229,24958317-24959111
AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA
TAGCTTTATGGGTCACAATCTGGGGAAAGCCTGTAGCTCGGACATTATGTGGTCTGGTTCGTCC
TGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTACCACAATATCTA
CCCACTCTTTTGTGCTTGTCATGTCTGAGGAGGAAAGTCGCTATCTTGCATACTTGGAAGATAT
GTACGAAGATAAGAAGGGGCAGAAGAAGGTTAAAGTGCGATGGTTTCATCAAAACCAGGAATTT
GCTTGCGCTATACCTCCTCCCCCTCCTCATCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAG
TAATCAGTGTGGAGTGTGTCGATGATATTGCAACTGTGTTAACTCCTGAGCACTATGAAAAATG
CGTCAATACATTGCCAAATTCTTCTATGGTGGGAATCCGTTTCTGCTTTCGCCAATACAGTAAA
AATAAGTTTAAACGTTTTGACCTGAGATCATTGCGTGGATATTTTAGTCAAGCTGTTGTTTTGT
CCTTAAAACTTCCCCCAGAGCAAGAAAAGGATGATGGTTCTGATATCATAAAAACTTTTGAGCA
ATGGACACCTGGGAAGACAAAGTTTCCTAAGCAGTTTGAGAGGCTTTACTCAAAATGTTTGGGA
ACTAAAATCTGCCGAGGCCCACAAGAAGACTCCATAGCATCTTATCAGAAACCAAGCAGTAAGC
AATCTCCCAGAAAACATCTCTCAGTCAAGTTCATAGGGCCCCAGAATCAGCGTATGCCAACCTA
CAATGTTGGTGACAGAATAGAGGTCTTGTCTCAGGACAGTGGGATTGTAGGCTGCTGGTTCAGG
TGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGATGATCTCCAGA
ATGCTGATGATAGTGGGAGATTGGAG
						
					

						Genomic sequence
						
							AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA
TAGCTTTATGGGTCACAATCTGGTATGCAATTACTTGTAACTTTGCATACAGTTTGTTCTCATC
TTTATTAGCGTTTTGATTTTTTTTATATTGTTAGGGGAAAGCCTGTAGCTCGGACATTATGTGG
TCTGGTTCGTCCTGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTA
CCACAATATCTGTAAGTATTTTGTCATGGTCATGGTCATGTGTGTATACCCAATTGCCCATATT
GTTTTCTGAGCTTCATGTGCCATCTTCTTTGCAGACCCACTCTTTTGTGCTTGTCATGTCTGAG
GAGGAAAGTCGCTATCTTGCATACTTGGAAGATATGTACGAAGATAAGAAGGGGCAGAAGAAGG
TTAAAGTGCGATGGTTTCATCAAAACCAGGAATTTGCTTGCGCTATACCTCCTCCCCCTCCTCA
TCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAGTAATCAGTGTGGAGTGTGTCGATGATATT
GCAACTGTGTTAACTCCTGAGCACTATGAAAAATGCGTCAATACATTGCCAAATTCTTCTATGG
TGGGAATCCGTTTCTGCTTTCGCCAATACAGTAAAAATAAGTTTAAACGTTTTGACCTGAGATC
ATTGCGTGGATATTTTAGTCAAGCTGTTGTTTTGTCCTTAAAACTTCCCCCAGAGCAAGAAAAG
GATGATGGTTCTGATATCATAAAAACTTTTGAGCAATGGACACCTGGGAAGACAAAGTTTCCTA
AGCAGTTTGAGAGGCTTTACTCAAAATGTTTGGGAACTAAAATCTGCCGAGGCCCACAAGAAGA
CTCCATAGCATCTTATCAGAAACCAAGCAGTAAGCAATCTCCCAGAAAACATCTCTCAGTCAAG
TTCATAGGGCCCCAGAATCAGCGTATGCCAACCTACAATGTTGGTGACAGAATAGAGGTCTTGT
CTCAGGACAGTGGGATTGTAGGCTGCTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCA
TAACAAATTGAAGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG
						
					

			
		

Sequences
Splice junction sequence	CTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGAT GATCTCCAGAATGCTGATGATAGTGGGAGATTGGAGaactttcaaaatttggatcacatatggg taatgacattggattggatggatacagtgaacctgatagctttatgggtcacaatctggtatgc aattactt
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: 868 Transcript exons: 24957963-24958048,24958125-24958229,24958317-24958601,24 958720-24959111 AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA TAGCTTTATGGGTCACAATCTGGGGAAAGCCTGTAGCTCGGACATTATGTGGTCTGGTTCGTCC TGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTACCACAATATCTA CCCACTCTTTTGTGCTTGTCATGTCTGAGGAGGAAAGTCGCTATCTTGCATACTTGGAAGATAT GTACGAAGATAAGAAGGGGCAGAAGAAGGTTAAAGTGCGATGGTTTCATCAAAACCAGGAATTT GCTTGCGCTATACCTCCTCCCCCTCCTCATCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAG TAATCAGTGTGGAGTGTGTCGATGATATTGCAACTGTGTTAACTCCTGAGCACTATGAAAAATG CGTCAATACATTGCCAAATTCTTCTATGAGCAAGAAAAGGATGATGGTTCTGATATCATAAAAA CTTTTGAGCAATGGACACCTGGGAAGACAAAGTTTCCTAAGCAGTTTGAGAGGCTTTACTCAAA ATGTTTGGGAACTAAAATCTGCCGAGGCCCACAAGAAGACTCCATAGCATCTTATCAGAAACCA AGCAGTAAGCAATCTCCCAGAAAACATCTCTCAGTCAAGTTCATAGGGCCCCAGAATCAGCGTA TGCCAACCTACAATGTTGGTGACAGAATAGAGGTCTTGTCTCAGGACAGTGGGATTGTAGGCTG CTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGAT GATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG Transcript length: 986 Transcript exons: 24957963-24958048,24958125-24958229,24958317-24959111 AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA TAGCTTTATGGGTCACAATCTGGGGAAAGCCTGTAGCTCGGACATTATGTGGTCTGGTTCGTCC TGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTACCACAATATCTA CCCACTCTTTTGTGCTTGTCATGTCTGAGGAGGAAAGTCGCTATCTTGCATACTTGGAAGATAT GTACGAAGATAAGAAGGGGCAGAAGAAGGTTAAAGTGCGATGGTTTCATCAAAACCAGGAATTT GCTTGCGCTATACCTCCTCCCCCTCCTCATCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAG TAATCAGTGTGGAGTGTGTCGATGATATTGCAACTGTGTTAACTCCTGAGCACTATGAAAAATG CGTCAATACATTGCCAAATTCTTCTATGGTGGGAATCCGTTTCTGCTTTCGCCAATACAGTAAA AATAAGTTTAAACGTTTTGACCTGAGATCATTGCGTGGATATTTTAGTCAAGCTGTTGTTTTGT CCTTAAAACTTCCCCCAGAGCAAGAAAAGGATGATGGTTCTGATATCATAAAAACTTTTGAGCA ATGGACACCTGGGAAGACAAAGTTTCCTAAGCAGTTTGAGAGGCTTTACTCAAAATGTTTGGGA ACTAAAATCTGCCGAGGCCCACAAGAAGACTCCATAGCATCTTATCAGAAACCAAGCAGTAAGC AATCTCCCAGAAAACATCTCTCAGTCAAGTTCATAGGGCCCCAGAATCAGCGTATGCCAACCTA CAATGTTGGTGACAGAATAGAGGTCTTGTCTCAGGACAGTGGGATTGTAGGCTGCTGGTTCAGG TGTACAGTTCTCAAGTCATGTACTAATCATAACAAATTGAAGGTTCAGTATGATGATCTCCAGA ATGCTGATGATAGTGGGAGATTGGAG
Genomic sequence	AACTTTCAAAATTTGGATCACATATGGGTAATGACATTGGATTGGATGGATACAGTGAACCTGA TAGCTTTATGGGTCACAATCTGGTATGCAATTACTTGTAACTTTGCATACAGTTTGTTCTCATC TTTATTAGCGTTTTGATTTTTTTTATATTGTTAGGGGAAAGCCTGTAGCTCGGACATTATGTGG TCTGGTTCGTCCTGGACTTGTGGCAAGCAGCTTTACCACTATAAAGCTTTTTGTCGTAATGGTA CCACAATATCTGTAAGTATTTTGTCATGGTCATGGTCATGTGTGTATACCCAATTGCCCATATT GTTTTCTGAGCTTCATGTGCCATCTTCTTTGCAGACCCACTCTTTTGTGCTTGTCATGTCTGAG GAGGAAAGTCGCTATCTTGCATACTTGGAAGATATGTACGAAGATAAGAAGGGGCAGAAGAAGG TTAAAGTGCGATGGTTTCATCAAAACCAGGAATTTGCTTGCGCTATACCTCCTCCCCCTCCTCA TCCTTGCGAAGTTTTCATCACTCCTTATTCTCAAGTAATCAGTGTGGAGTGTGTCGATGATATT GCAACTGTGTTAACTCCTGAGCACTATGAAAAATGCGTCAATACATTGCCAAATTCTTCTATGG TGGGAATCCGTTTCTGCTTTCGCCAATACAGTAAAAATAAGTTTAAACGTTTTGACCTGAGATC ATTGCGTGGATATTTTAGTCAAGCTGTTGTTTTGTCCTTAAAACTTCCCCCAGAGCAAGAAAAG GATGATGGTTCTGATATCATAAAAACTTTTGAGCAATGGACACCTGGGAAGACAAAGTTTCCTA AGCAGTTTGAGAGGCTTTACTCAAAATGTTTGGGAACTAAAATCTGCCGAGGCCCACAAGAAGA CTCCATAGCATCTTATCAGAAACCAAGCAGTAAGCAATCTCCCAGAAAACATCTCTCAGTCAAG TTCATAGGGCCCCAGAATCAGCGTATGCCAACCTACAATGTTGGTGACAGAATAGAGGTCTTGT CTCAGGACAGTGGGATTGTAGGCTGCTGGTTCAGGTGTACAGTTCTCAAGTCATGTACTAATCA TAACAAATTGAAGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017313 						
					
						PMCS
						0.350875348

Conservation Information
Conserved circRNAs	osi_circ_017313
PMCS	0.350875348

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24959072-24957990(+)
24957987-24958509(+)
24958001-24959046(-)
						
						Potential amino acid sequence
						
							MMISRMLMIVGDWRTFKIWITYG*(+)
MGNDIGLDGYSEPDSFMGHNLGKACSSDIMWSGSSWTCGKQLYHYKAFCRNGTTISTHSFVLVM
SEEESRYLAYLEDMYEDKKGQKKVKVRWFHQNQEFACAIPPPPPHPCEVFITPYSQVISVECVD
DIATVLTPEHYEKCVNTLPNSSMVGIRFCFRQYSKNKFKRFDLRSLRGYFSQAVVLSLKLPPEQ
EKDDGSDIIKTFEQWTPGKTKFPKQFERLYSKCLGTKICRGPQEDSIASYQKPSSKQSPRKHLS
VKFIGPQNQRMPTYNVGDRIEVLSQDSGIVGCWFRCTVLKSCTNHNKLKVQYDDLQNADDSGRL
ENFQNLDHIWVMTLDWMDTVNLIALWVTIWGKPVARTLCGLVRPGLVASSFTTIKLFVVMVPQY
LPTLLCLSCLRRKVAILHTWKICTKIRRGRRRLKCDGFIKTRNLLALYLLPLLILAKFSSLLIL
K*(+)
MSLPICDPNFESSPISHYHQHSGDHHTEPSICYD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24959072-24957990(+) 24957987-24958509(+) 24958001-24959046(-)
Potential amino acid sequence	MMISRMLMIVGDWRTFKIWITYG(+) MGNDIGLDGYSEPDSFMGHNLGKACSSDIMWSGSSWTCGKQLYHYKAFCRNGTTISTHSFVLVM SEEESRYLAYLEDMYEDKKGQKKVKVRWFHQNQEFACAIPPPPPHPCEVFITPYSQVISVECVD DIATVLTPEHYEKCVNTLPNSSMVGIRFCFRQYSKNKFKRFDLRSLRGYFSQAVVLSLKLPPEQ EKDDGSDIIKTFEQWTPGKTKFPKQFERLYSKCLGTKICRGPQEDSIASYQKPSSKQSPRKHLS VKFIGPQNQRMPTYNVGDRIEVLSQDSGIVGCWFRCTVLKSCTNHNKLKVQYDDLQNADDSGRL ENFQNLDHIWVMTLDWMDTVNLIALWVTIWGKPVARTLCGLVRPGLVASSFTTIKLFVVMVPQY LPTLLCLSCLRRKVAILHTWKICTKIRRGRRRLKCDGFIKTRNLLALYLLPLLILAKFSSLLIL K(+) MSLPICDPNFESSPISHYHQHSGDHHTEPSICYD*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0607300_circ_g.1

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