Plant Circular RNA Database

Detail information of Os07g0160050_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0160050_circ_g.1
					
						ID in PlantcircBase
						osa_circ_032829
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 3210364-3211609  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0160050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os07t0160050-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0160050_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os07t0160000-00:5
Os07t0160000-00:5
Os07t0160050-00:4

General Information
CircRNA Name	Os07g0160050_circ_g.1
ID in PlantcircBase	osa_circ_032829
Alias	NA
Organism	Oryza sativa
Position	chr7: 3210364-3211609 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0160050
Parent gene annotation	Hypothetical protein. (Os07t0160050-00)
Parent gene strand	-
Alternative splicing	Os07g0160050_circ_g.2
Support reads	1
Tissues	shoot
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	Os07t0160000-00:5 Os07t0160000-00:5 Os07t0160050-00:4

			
						 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  
						
							AGCTAAGGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGATGAGTACTGGAGTAATCATTTA
GCTCGAAATGACTCTGTAATAGTTGATACTTACCATgcaaaattctagtttggcattgcataat
aaacattcatttgctgaggatagtgctggtgcgtaccctttggtgcttaggatatctgttcgag
aaacaagc

									
								

					

						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: 889
Transcript exons: 3210364-3210490,3210577-3210636,3210716-3210808,3210921-
3211217,3211298-3211609
GCAAAATTCTAGTTTGGCATTGCATAATAAACATTCATTTGCTGAGGATAGTGCTGGTGCGTAC
CCTTTGGTGCTTAGGATATCTGTTCGAGAAACAAGCATTTTGACTGTGAAGATCAGCAAAAAGG
ACAATCCAGTTGAGAACTATAAACGGGCATACAAGATTTTTAATATTGATTCTCAACCAGTTCA
TGTTTGGGATTTTTCAGGCCAGACAAACCTAATATTAATGAATGAGTGGAATAGGTCAAATCAT
GACTGCTGCCACTCAGAGCTAGAGAATATTCTTGAAGTGCAAGTCTATGCAATGTCTGACTCCT
TAACTTCCAAGATTGGTGGAACCAGCAAAGAGTATACAGAACAATCTTCTGCAGATGTTAATGA
TATGGATGTTGATTTGTCCTATGGAAGCTTTGGAAGATCTAGCTCGCATGGGCTAATTGGATTG
GAAAATCTTGGGAATACTTGCTTTATGAACAGTTCAATTCAATGTTTGGCCCACACATCAAAGC
TTGTTGATTATTTCCTAGGAGATTATGACAGGGATATAAATCGGACTAACCCACTAGGACTGAA
TGGGGAACTTGCTTTGGCATTTGGAGAATTATTGAGGAGATTATGGAACACCGAGAGAAAACCA
GTTTCACCACATCACTTTAAGGCAAAGATTGCTTGTTTTGCCCCTCAGTTCAGTGGCTTCAATC
AGCATGATTCACAGGAGCTTCTTGCTTTCTTATTGGATGGCCTCCATGAAGATCTTAACCAGGT
CAAGTGCAAGCCATATGAAGAAGCTAAGGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGAT
GAGTACTGGAGTAATCATTTAGCTCGAAATGACTCTGTAATAGTTGATACTTACCAT
						
					

						Genomic sequence
						
							GCAAAATTCTAGTTTGGCATTGCATAATAAACATTCATTTGCTGAGGATAGTGCTGGTGCGTAC
CCTTTGGTGCTTAGGATATCTGTTCGAGAAACAAGCATTTTGACTGTGAAGATCAGCAAAAAGG
TAATGCTATCCTATTTGACAGATGATATATGGCTCTATCAAATTTTTTTCTCATGCCCATCCTT
ACAATTTCTATTCTATTTCAGGACAATCCAGTTGAGAACTATAAACGGGCATACAAGATTTTTA
ATATTGATTCTCAACCAGTATGTCGCTGTTTGTCTGCATTTCAAGTTCAGCAATATACTCCCAC
TTGTTCAGTTTACTTAATGTTTCTTTATCCAGGTTCATGTTTGGGATTTTTCAGGCCAGACAAA
CCTAATATTAATGAATGAGTGGAATAGGTCAAATCATGACTGCTGCCACTCAGAGCTAGAGGTA
TTATCAGTTGATACTCCCCTGCTTGATACCCTTGTTTTTCTGTTTCAGAATCAGGCATAAAATT
TCCTTCCTAGATCCATATTCTTATCATTTTTTTTGGCATGTGCAGAATATTCTTGAAGTGCAAG
TCTATGCAATGTCTGACTCCTTAACTTCCAAGATTGGTGGAACCAGCAAAGAGTATACAGAACA
ATCTTCTGCAGATGTTAATGATATGGATGTTGATTTGTCCTATGGAAGCTTTGGAAGATCTAGC
TCGCATGGGCTAATTGGATTGGAAAATCTTGGGAATACTTGCTTTATGAACAGTTCAATTCAAT
GTTTGGCCCACACATCAAAGCTTGTTGATTATTTCCTAGGAGATTATGACAGGGATATAAATCG
GACTAACCCACTAGGACTGAATGTATGTATAGTTTGTCATGAGTTTACTGTTTGTTTCCTTTGA
ATATATCGGCTAAATTCACTGATGTTTTCATTACTTAGGGGGAACTTGCTTTGGCATTTGGAGA
ATTATTGAGGAGATTATGGAACACCGAGAGAAAACCAGTTTCACCACATCACTTTAAGGCAAAG
ATTGCTTGTTTTGCCCCTCAGTTCAGTGGCTTCAATCAGCATGATTCACAGGAGCTTCTTGCTT
TCTTATTGGATGGCCTCCATGAAGATCTTAACCAGGTCAAGTGCAAGCCATATGAAGAAGCTAA
GGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGATGAGTACTGGAGTAATCATTTAGCTCGA
AATGACTCTGTAATAGTTGATACTTACCAT
						
					

			
		

Sequences
Splice junction sequence	AGCTAAGGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGATGAGTACTGGAGTAATCATTTA GCTCGAAATGACTCTGTAATAGTTGATACTTACCATgcaaaattctagtttggcattgcataat aaacattcatttgctgaggatagtgctggtgcgtaccctttggtgcttaggatatctgttcgag aaacaagc
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: 889 Transcript exons: 3210364-3210490,3210577-3210636,3210716-3210808,3210921- 3211217,3211298-3211609 GCAAAATTCTAGTTTGGCATTGCATAATAAACATTCATTTGCTGAGGATAGTGCTGGTGCGTAC CCTTTGGTGCTTAGGATATCTGTTCGAGAAACAAGCATTTTGACTGTGAAGATCAGCAAAAAGG ACAATCCAGTTGAGAACTATAAACGGGCATACAAGATTTTTAATATTGATTCTCAACCAGTTCA TGTTTGGGATTTTTCAGGCCAGACAAACCTAATATTAATGAATGAGTGGAATAGGTCAAATCAT GACTGCTGCCACTCAGAGCTAGAGAATATTCTTGAAGTGCAAGTCTATGCAATGTCTGACTCCT TAACTTCCAAGATTGGTGGAACCAGCAAAGAGTATACAGAACAATCTTCTGCAGATGTTAATGA TATGGATGTTGATTTGTCCTATGGAAGCTTTGGAAGATCTAGCTCGCATGGGCTAATTGGATTG GAAAATCTTGGGAATACTTGCTTTATGAACAGTTCAATTCAATGTTTGGCCCACACATCAAAGC TTGTTGATTATTTCCTAGGAGATTATGACAGGGATATAAATCGGACTAACCCACTAGGACTGAA TGGGGAACTTGCTTTGGCATTTGGAGAATTATTGAGGAGATTATGGAACACCGAGAGAAAACCA GTTTCACCACATCACTTTAAGGCAAAGATTGCTTGTTTTGCCCCTCAGTTCAGTGGCTTCAATC AGCATGATTCACAGGAGCTTCTTGCTTTCTTATTGGATGGCCTCCATGAAGATCTTAACCAGGT CAAGTGCAAGCCATATGAAGAAGCTAAGGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGAT GAGTACTGGAGTAATCATTTAGCTCGAAATGACTCTGTAATAGTTGATACTTACCAT
Genomic sequence	GCAAAATTCTAGTTTGGCATTGCATAATAAACATTCATTTGCTGAGGATAGTGCTGGTGCGTAC CCTTTGGTGCTTAGGATATCTGTTCGAGAAACAAGCATTTTGACTGTGAAGATCAGCAAAAAGG TAATGCTATCCTATTTGACAGATGATATATGGCTCTATCAAATTTTTTTCTCATGCCCATCCTT ACAATTTCTATTCTATTTCAGGACAATCCAGTTGAGAACTATAAACGGGCATACAAGATTTTTA ATATTGATTCTCAACCAGTATGTCGCTGTTTGTCTGCATTTCAAGTTCAGCAATATACTCCCAC TTGTTCAGTTTACTTAATGTTTCTTTATCCAGGTTCATGTTTGGGATTTTTCAGGCCAGACAAA CCTAATATTAATGAATGAGTGGAATAGGTCAAATCATGACTGCTGCCACTCAGAGCTAGAGGTA TTATCAGTTGATACTCCCCTGCTTGATACCCTTGTTTTTCTGTTTCAGAATCAGGCATAAAATT TCCTTCCTAGATCCATATTCTTATCATTTTTTTTGGCATGTGCAGAATATTCTTGAAGTGCAAG TCTATGCAATGTCTGACTCCTTAACTTCCAAGATTGGTGGAACCAGCAAAGAGTATACAGAACA ATCTTCTGCAGATGTTAATGATATGGATGTTGATTTGTCCTATGGAAGCTTTGGAAGATCTAGC TCGCATGGGCTAATTGGATTGGAAAATCTTGGGAATACTTGCTTTATGAACAGTTCAATTCAAT GTTTGGCCCACACATCAAAGCTTGTTGATTATTTCCTAGGAGATTATGACAGGGATATAAATCG GACTAACCCACTAGGACTGAATGTATGTATAGTTTGTCATGAGTTTACTGTTTGTTTCCTTTGA ATATATCGGCTAAATTCACTGATGTTTTCATTACTTAGGGGGAACTTGCTTTGGCATTTGGAGA ATTATTGAGGAGATTATGGAACACCGAGAGAAAACCAGTTTCACCACATCACTTTAAGGCAAAG ATTGCTTGTTTTGCCCCTCAGTTCAGTGGCTTCAATCAGCATGATTCACAGGAGCTTCTTGCTT TCTTATTGGATGGCCTCCATGAAGATCTTAACCAGGTCAAGTGCAAGCCATATGAAGAAGCTAA GGATGCAAGTGGGCGCCCTGACAAAGAAGTGGCTGATGAGTACTGGAGTAATCATTTAGCTCGA AATGACTCTGTAATAGTTGATACTTACCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.348994436

Conservation Information
Conserved circRNAs	NA
PMCS	0.348994436

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3210759-3210372(+)
3211609-3210372(+)
3210399-3211514(-)
3210467-3211573(-)
						
						Potential amino acid sequence
						
							MNEWNRSNHDCCHSELENILEVQVYAMSDSLTSKIGGTSKEYTEQSSADVNDMDVDLSYGSFGR
SSSHGLIGLENLGNTCFMNSSIQCLAHTSKLVDYFLGDYDRDINRTNPLGLNGELALAFGELLR
RLWNTERKPVSPHHFKAKIACFAPQFSGFNQHDSQELLAFLLDGLHEDLNQVKCKPYEEAKDAS
GRPDKEVADEYWSNHLARNDSVIVDTYHAKF*(+)
MQNSSLALHNKHSFAEDSAGAYPLVLRISVRETSILTVKISKKDNPVENYKRAYKIFNIDSQPV
HVWDFSGQTNLILMNEWNRSNHDCCHSELENILEVQVYAMSDSLTSKIGGTSKEYTEQSSADVN
DMDVDLSYGSFGRSSSHGLIGLENLGNTCFMNSSIQCLAHTSKLVDYFLGDYDRDINRTNPLGL
NGELALAFGELLRRLWNTERKPVSPHHFKAKIACFAPQFSGFNQHDSQELLAFLLDGLHEDLNQ
VKCKPYEEAKDASGRPDKEVADEYWSNHLARNDSVIVDTYHAKF*(+)
MFIMQCQTRILHGKYQLLQSHFELNDYSSTHQPLLCQGAHLHP*(-)
MLVSRTDILSTKGYAPALSSANECLLCNAKLEFCMVSINYYRVISS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3210759-3210372(+) 3211609-3210372(+) 3210399-3211514(-) 3210467-3211573(-)
Potential amino acid sequence	MNEWNRSNHDCCHSELENILEVQVYAMSDSLTSKIGGTSKEYTEQSSADVNDMDVDLSYGSFGR SSSHGLIGLENLGNTCFMNSSIQCLAHTSKLVDYFLGDYDRDINRTNPLGLNGELALAFGELLR RLWNTERKPVSPHHFKAKIACFAPQFSGFNQHDSQELLAFLLDGLHEDLNQVKCKPYEEAKDAS GRPDKEVADEYWSNHLARNDSVIVDTYHAKF(+) MQNSSLALHNKHSFAEDSAGAYPLVLRISVRETSILTVKISKKDNPVENYKRAYKIFNIDSQPV HVWDFSGQTNLILMNEWNRSNHDCCHSELENILEVQVYAMSDSLTSKIGGTSKEYTEQSSADVN DMDVDLSYGSFGRSSSHGLIGLENLGNTCFMNSSIQCLAHTSKLVDYFLGDYDRDINRTNPLGL NGELALAFGELLRRLWNTERKPVSPHHFKAKIACFAPQFSGFNQHDSQELLAFLLDGLHEDLNQ VKCKPYEEAKDASGRPDKEVADEYWSNHLARNDSVIVDTYHAKF(+) MFIMQCQTRILHGKYQLLQSHFELNDYSSTHQPLLCQGAHLHP(-) MLVSRTDILSTKGYAPALSSANECLLCNAKLEFCMVSINYYRVISS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0160050_circ_g.1

Address

Any questions?

Supported by