Plant Circular RNA Database

Detail information of Os05g0586200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0586200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_029134
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29202769-29204331  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0586200						
					
						Parent gene annotation
						
							Gretchen hagen 3 (GH3) family protein, Phytochrome, Jasmonate si
gnaling (Os05t0586200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						Os05t0586200-01:3

General Information
CircRNA Name	Os05g0586200_circ_g.1
ID in PlantcircBase	osa_circ_029134
Alias	NA
Organism	Oryza sativa
Position	chr5: 29202769-29204331 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0586200
Parent gene annotation	Gretchen hagen 3 (GH3) family protein, Phytochrome, Jasmonate si gnaling (Os05t0586200-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
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	Os05t0586200-01:3

			
						 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  
						
							GAAAACTCCGCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTTGAGGTCG
GCAAAATCTATGAAGTTGTAATAACTAACTTTGCAGttattttcagtgactcttcttccaaacc
aagtggtaaagccaggattctaccattacaatgacgatctgcagctgtgaggagacgatcaatg
agtttgag

									
								

					

						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: 1259
Transcript exons: 29202769-29203107,29203213-29203314,29203514-29204331
TTATTTTCAGTGACTCTTCTTCCAAACCAAGTGGTAAAGCCAGGATTCTACCATTACAATGACG
ATCTGCAGCTGTGAGGAGACGATCAATGAGTTTGAGATGTTAACGCGTGATGCTGCGCGTGTGC
AGAAGGATACACTGAAAAAGATCCTTGAGATAAATGCTAGTGCTGAGTACCTGCAGAACTTTGG
GCTTGGGGGGAGGACTGATGCCGAGAGCTACAAATCCTGCATCCCATTGTGTGTGCACAATGAT
ATTGAGCCCTATATCCAGCGGATTGTTGATGGCGATACCTCACCAGTGGTCACTGGAGAACCCA
TCACCAACCTCTCTCTCAGTTCCGGTACAACACACGGAAAGCCCAAGTTCATTCCATTCAATGA
TGAATTACTTGAGACCACACTTCAAATATACCGTACATCTTACGCGTTTAGGAACCGTGAATAC
CCTATTGGCCAAGGAAAAGCACTGCAGTTTGTTTATGGTAGCAAGCAAGTCATAACGAAAGGTG
GCATTCTTGCAACAACTGCGACAACAAACTTGTATAGGAGACAGCGCTATAAGGAAGGCATGAA
GGATATCCAGTCGCAGTGTTGCAGTCCTGATGAAGTTATCTTTGGCCCTGATTTCCACCAATCC
TTGTACTGTCACTTGCTGTGTGGGTTAATATACTCAGAGGAGGTCCATTCAGTGTTCTCAACAT
TTGCTCACAGCCTAGTCCATGCATTCCAAACATTCGAGGAGGTTTGGGAAGATCTATGCACTGA
TATAAGAGACGGTGTTCTCTCAAAGAAAGTTACAGCACCATCAATTCGTGAGGCTGTTTCAAAA
ATCCTGAAGCCCAATCCTGAACTTGCTGACTCAATATACAAGAAGTGTATTGGTTTGAGCAATT
GGTATGGAGTGATCCCAGCACTGTGGCCAAATGCAAAGTATGTGTATGGTATCATGACAGGATC
CATGGAGCCATATCTGAAAAAATTAAGGCATTACGCAGGGAACTTGCCACTTATAAGTGCTGAC
TATGGCGCATCGGAAGGATGGGTTGGCTCTAACATAGACCCTACTGTGCCACCAGAGCAGGTGA
CATATGCTGTTCTCCCACAAGTTGGTTATTTTGAGTTCATTCCTTTGGAGAAACCAATAGGGGA
GGAGACAGAAAACTCCGCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTT
GAGGTCGGCAAAATCTATGAAGTTGTAATAACTAACTTTGCAG
						
					

						Genomic sequence
						
							TTATTTTCAGTGACTCTTCTTCCAAACCAAGTGGTAAAGCCAGGATTCTACCATTACAATGACG
ATCTGCAGCTGTGAGGAGACGATCAATGAGTTTGAGATGTTAACGCGTGATGCTGCGCGTGTGC
AGAAGGATACACTGAAAAAGATCCTTGAGATAAATGCTAGTGCTGAGTACCTGCAGAACTTTGG
GCTTGGGGGGAGGACTGATGCCGAGAGCTACAAATCCTGCATCCCATTGTGTGTGCACAATGAT
ATTGAGCCCTATATCCAGCGGATTGTTGATGGCGATACCTCACCAGTGGTCACTGGAGAACCCA
TCACCAACCTCTCTCTCAGGTACTGTACCCATTGCTTGAAATTTGTCACCTTATTATGCTTATC
GTTTACTAGTTTATGATAATAAATGTTCATAGTCTGGCTTCTTCTGTGGCTTTCATACAGTTCC
GGTACAACACACGGAAAGCCCAAGTTCATTCCATTCAATGATGAATTACTTGAGACCACACTTC
AAATATACCGTACATCTTACGCGTTTAGGAACCGGTAAGGATCTCTGATTTATTATTATTTATG
CTCAAGTAATGCTGCTTTTTCTGAATGTTCAACAAACTTTGATGATCAGGTTCAACATGAGTTA
TTGTTTTTATACACTGTTTTGCATGCTATTAACTTGTTGCTTCTTTGTGTATTTTTTACTCTGC
ATCCCAGAATATTAGAATAACCTTCTGTTTTGTGTTTACAGTGAATACCCTATTGGCCAAGGAA
AAGCACTGCAGTTTGTTTATGGTAGCAAGCAAGTCATAACGAAAGGTGGCATTCTTGCAACAAC
TGCGACAACAAACTTGTATAGGAGACAGCGCTATAAGGAAGGCATGAAGGATATCCAGTCGCAG
TGTTGCAGTCCTGATGAAGTTATCTTTGGCCCTGATTTCCACCAATCCTTGTACTGTCACTTGC
TGTGTGGGTTAATATACTCAGAGGAGGTCCATTCAGTGTTCTCAACATTTGCTCACAGCCTAGT
CCATGCATTCCAAACATTCGAGGAGGTTTGGGAAGATCTATGCACTGATATAAGAGACGGTGTT
CTCTCAAAGAAAGTTACAGCACCATCAATTCGTGAGGCTGTTTCAAAAATCCTGAAGCCCAATC
CTGAACTTGCTGACTCAATATACAAGAAGTGTATTGGTTTGAGCAATTGGTATGGAGTGATCCC
AGCACTGTGGCCAAATGCAAAGTATGTGTATGGTATCATGACAGGATCCATGGAGCCATATCTG
AAAAAATTAAGGCATTACGCAGGGAACTTGCCACTTATAAGTGCTGACTATGGCGCATCGGAAG
GATGGGTTGGCTCTAACATAGACCCTACTGTGCCACCAGAGCAGGTGACATATGCTGTTCTCCC
ACAAGTTGGTTATTTTGAGTTCATTCCTTTGGAGAAACCAATAGGGGAGGAGACAGAAAACTCC
GCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTTGAGGTCGGCAAAATCT
ATGAAGTTGTAATAACTAACTTTGCAG
						
					

			
		

Sequences
Splice junction sequence	GAAAACTCCGCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTTGAGGTCG GCAAAATCTATGAAGTTGTAATAACTAACTTTGCAGttattttcagtgactcttcttccaaacc aagtggtaaagccaggattctaccattacaatgacgatctgcagctgtgaggagacgatcaatg agtttgag
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: 1259 Transcript exons: 29202769-29203107,29203213-29203314,29203514-29204331 TTATTTTCAGTGACTCTTCTTCCAAACCAAGTGGTAAAGCCAGGATTCTACCATTACAATGACG ATCTGCAGCTGTGAGGAGACGATCAATGAGTTTGAGATGTTAACGCGTGATGCTGCGCGTGTGC AGAAGGATACACTGAAAAAGATCCTTGAGATAAATGCTAGTGCTGAGTACCTGCAGAACTTTGG GCTTGGGGGGAGGACTGATGCCGAGAGCTACAAATCCTGCATCCCATTGTGTGTGCACAATGAT ATTGAGCCCTATATCCAGCGGATTGTTGATGGCGATACCTCACCAGTGGTCACTGGAGAACCCA TCACCAACCTCTCTCTCAGTTCCGGTACAACACACGGAAAGCCCAAGTTCATTCCATTCAATGA TGAATTACTTGAGACCACACTTCAAATATACCGTACATCTTACGCGTTTAGGAACCGTGAATAC CCTATTGGCCAAGGAAAAGCACTGCAGTTTGTTTATGGTAGCAAGCAAGTCATAACGAAAGGTG GCATTCTTGCAACAACTGCGACAACAAACTTGTATAGGAGACAGCGCTATAAGGAAGGCATGAA GGATATCCAGTCGCAGTGTTGCAGTCCTGATGAAGTTATCTTTGGCCCTGATTTCCACCAATCC TTGTACTGTCACTTGCTGTGTGGGTTAATATACTCAGAGGAGGTCCATTCAGTGTTCTCAACAT TTGCTCACAGCCTAGTCCATGCATTCCAAACATTCGAGGAGGTTTGGGAAGATCTATGCACTGA TATAAGAGACGGTGTTCTCTCAAAGAAAGTTACAGCACCATCAATTCGTGAGGCTGTTTCAAAA ATCCTGAAGCCCAATCCTGAACTTGCTGACTCAATATACAAGAAGTGTATTGGTTTGAGCAATT GGTATGGAGTGATCCCAGCACTGTGGCCAAATGCAAAGTATGTGTATGGTATCATGACAGGATC CATGGAGCCATATCTGAAAAAATTAAGGCATTACGCAGGGAACTTGCCACTTATAAGTGCTGAC TATGGCGCATCGGAAGGATGGGTTGGCTCTAACATAGACCCTACTGTGCCACCAGAGCAGGTGA CATATGCTGTTCTCCCACAAGTTGGTTATTTTGAGTTCATTCCTTTGGAGAAACCAATAGGGGA GGAGACAGAAAACTCCGCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTT GAGGTCGGCAAAATCTATGAAGTTGTAATAACTAACTTTGCAG
Genomic sequence	TTATTTTCAGTGACTCTTCTTCCAAACCAAGTGGTAAAGCCAGGATTCTACCATTACAATGACG ATCTGCAGCTGTGAGGAGACGATCAATGAGTTTGAGATGTTAACGCGTGATGCTGCGCGTGTGC AGAAGGATACACTGAAAAAGATCCTTGAGATAAATGCTAGTGCTGAGTACCTGCAGAACTTTGG GCTTGGGGGGAGGACTGATGCCGAGAGCTACAAATCCTGCATCCCATTGTGTGTGCACAATGAT ATTGAGCCCTATATCCAGCGGATTGTTGATGGCGATACCTCACCAGTGGTCACTGGAGAACCCA TCACCAACCTCTCTCTCAGGTACTGTACCCATTGCTTGAAATTTGTCACCTTATTATGCTTATC GTTTACTAGTTTATGATAATAAATGTTCATAGTCTGGCTTCTTCTGTGGCTTTCATACAGTTCC GGTACAACACACGGAAAGCCCAAGTTCATTCCATTCAATGATGAATTACTTGAGACCACACTTC AAATATACCGTACATCTTACGCGTTTAGGAACCGGTAAGGATCTCTGATTTATTATTATTTATG CTCAAGTAATGCTGCTTTTTCTGAATGTTCAACAAACTTTGATGATCAGGTTCAACATGAGTTA TTGTTTTTATACACTGTTTTGCATGCTATTAACTTGTTGCTTCTTTGTGTATTTTTTACTCTGC ATCCCAGAATATTAGAATAACCTTCTGTTTTGTGTTTACAGTGAATACCCTATTGGCCAAGGAA AAGCACTGCAGTTTGTTTATGGTAGCAAGCAAGTCATAACGAAAGGTGGCATTCTTGCAACAAC TGCGACAACAAACTTGTATAGGAGACAGCGCTATAAGGAAGGCATGAAGGATATCCAGTCGCAG TGTTGCAGTCCTGATGAAGTTATCTTTGGCCCTGATTTCCACCAATCCTTGTACTGTCACTTGC TGTGTGGGTTAATATACTCAGAGGAGGTCCATTCAGTGTTCTCAACATTTGCTCACAGCCTAGT CCATGCATTCCAAACATTCGAGGAGGTTTGGGAAGATCTATGCACTGATATAAGAGACGGTGTT CTCTCAAAGAAAGTTACAGCACCATCAATTCGTGAGGCTGTTTCAAAAATCCTGAAGCCCAATC CTGAACTTGCTGACTCAATATACAAGAAGTGTATTGGTTTGAGCAATTGGTATGGAGTGATCCC AGCACTGTGGCCAAATGCAAAGTATGTGTATGGTATCATGACAGGATCCATGGAGCCATATCTG AAAAAATTAAGGCATTACGCAGGGAACTTGCCACTTATAAGTGCTGACTATGGCGCATCGGAAG GATGGGTTGGCTCTAACATAGACCCTACTGTGCCACCAGAGCAGGTGACATATGCTGTTCTCCC ACAAGTTGGTTATTTTGAGTTCATTCCTTTGGAGAAACCAATAGGGGAGGAGACAGAAAACTCC GCCTCCATTCATTACATAGAATCAGATCCAGTTGGCTTGACTGAAGTTGAGGTCGGCAAAATCT ATGAAGTTGTAATAACTAACTTTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.31159911

Conservation Information
Conserved circRNAs	NA
PMCS	0.31159911

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29202828-29202827(+)
						
						Potential amino acid sequence
						
							MTICSCEETINEFEMLTRDAARVQKDTLKKILEINASAEYLQNFGLGGRTDAESYKSCIPLCVH
NDIEPYIQRIVDGDTSPVVTGEPITNLSLSSGTTHGKPKFIPFNDELLETTLQIYRTSYAFRNR
EYPIGQGKALQFVYGSKQVITKGGILATTATTNLYRRQRYKEGMKDIQSQCCSPDEVIFGPDFH
QSLYCHLLCGLIYSEEVHSVFSTFAHSLVHAFQTFEEVWEDLCTDIRDGVLSKKVTAPSIREAV
SKILKPNPELADSIYKKCIGLSNWYGVIPALWPNAKYVYGIMTGSMEPYLKKLRHYAGNLPLIS
ADYGASEGWVGSNIDPTVPPEQVTYAVLPQVGYFEFIPLEKPIGEETENSASIHYIESDPVGLT
EVEVGKIYEVVITNFAVIFSDSSSKPSGKARILPLQ*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29202828-29202827(+)
Potential amino acid sequence	MTICSCEETINEFEMLTRDAARVQKDTLKKILEINASAEYLQNFGLGGRTDAESYKSCIPLCVH NDIEPYIQRIVDGDTSPVVTGEPITNLSLSSGTTHGKPKFIPFNDELLETTLQIYRTSYAFRNR EYPIGQGKALQFVYGSKQVITKGGILATTATTNLYRRQRYKEGMKDIQSQCCSPDEVIFGPDFH QSLYCHLLCGLIYSEEVHSVFSTFAHSLVHAFQTFEEVWEDLCTDIRDGVLSKKVTAPSIREAV SKILKPNPELADSIYKKCIGLSNWYGVIPALWPNAKYVYGIMTGSMEPYLKKLRHYAGNLPLIS ADYGASEGWVGSNIDPTVPPEQVTYAVLPQVGYFEFIPLEKPIGEETENSASIHYIESDPVGLT EVEVGKIYEVVITNFAVIFSDSSSKPSGKARILPLQ*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0586200_circ_g.1

Address

Any questions?

Supported by