Plant Circular RNA Database

Detail information of Os05g0373400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0373400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027674
					
						Alias
						Os_ciR3057
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 17997031-17999562  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os05g0373400						
					
						Parent gene annotation
						
							Ribonucleoprotein, BRUNO-like domain containing protein. (Os05t0
373400-01);Similar to cDNA clone:J033067B10, full insert sequenc
e. (Os05t0373400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0373400_circ_g.1 Os05g0373400_circ_g.3 						
					
						Support reads
						4/1
					
						Tissues
						root/shoot, root, seed
					
						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
						Os05t0373400-02:5
Os05t0373400-01:5

General Information
CircRNA Name	Os05g0373400_circ_g.2
ID in PlantcircBase	osa_circ_027674
Alias	Os_ciR3057
Organism	Oryza sativa
Position	chr5: 17997031-17999562 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os05g0373400
Parent gene annotation	Ribonucleoprotein, BRUNO-like domain containing protein. (Os05t0 373400-01);Similar to cDNA clone:J033067B10, full insert sequenc e. (Os05t0373400-02)
Parent gene strand	+
Alternative splicing	Os05g0373400_circ_g.1 Os05g0373400_circ_g.3
Support reads	4/1
Tissues	root/shoot, root, seed
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	Os05t0373400-02:5 Os05t0373400-01:5

			
						 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  
						
							CCCATCTAATATGTCAAATCCAAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATG
GGATATGTACCACAGTATAATGGTTATGGCTACCAGgctgctgctttttgatctgcccatcaag
ggaggaggctgacaaggcggtgaatgcatatcacaacaagcgcacccttccaggggtatgtgaa
aggatttc

									
								

					

						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: 527
Transcript exons: 17997031-17997113,17998144-17998195,17998307-17998432,17
998544-17998626,17999380-17999562
GCTGCTGCTTTTTGATCTGCCCATCAAGGGAGGAGGCTGACAAGGCGGTGAATGCATATCACAA
CAAGCGCACCCTTCCAGGGGCTTCAAGTCCATTGCAAGTGAAATATGCTGATGGAGAGTTGGAA
AGACTGGAGCACAAACTTTTCATTGGAATGCTTCCAAAAAATGTAACAGATGCTGAAATGACTG
ATTTATTTTCGCAATATGGGAACATCAAGGATTTGCAAATTTTGAGAGGTTCACAACAGACAAG
CAAAGCCGGCTGTGCCTTTTTGAAGTATGAAACAAAAGAGCAAGCGCTGGCAGCTATCGAAGCT
CTAAATGGGAAACACAAAATAGAGGGTTCAAGTGTACCTTTGGTTGTTAAATGGGCTGACACTG
AGAAGGAAAGACAAGCTCGAAAAGCACAAAAGGCTCAATTTCACCCATCTAATATGTCAAATCC
AAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATGGGATATGTACCACAGTATAAT
GGTTATGGCTACCAG
						
					

						Genomic sequence
						
							GCTGCTGCTTTTTGATCTGCCCATCAAGGGAGGAGGCTGACAAGGCGGTGAATGCATATCACAA
CAAGCGCACCCTTCCAGGGGTATGTGAAAGGATTTCTTTTTTGTGTCTGTAGTTGTTCAATGTG
GAACCTTCTAAATGTTTAATATGGTTTCTCGTGGATAAACTGGGAGCGCATCATATTTTTGGAA
GTATAGATGTTCAGTGTGATTAAGTGAAACGTTAGGCCTGCTTTAGAACAAGGATTTTTGTAGG
AAAAATAAAGGATTGCAAGCCAAATGAGAAAAAAAAGTACGCTTGGTGTTTGGATCATAGGATT
GCACCAAAATAATCTCATAGTTCGCACGACTGTAAATTTCTATAAATTTAGGAGGGAACCAAAC
ATGGCACATTCTCATGTAAATTTCCTTTCAAGAGCTGACACAGTCTCTCTTTCTCCTCTCTTTA
GCCAAGAAACATCTAATAACAAAATTCATGCATTTTTGCCATGAAATCCAAACACATATTTTCT
GCTATTCATGTAGTTTTGTTTACTTCTACTCTGGTTCTGGTCACTGACGGGAGAAGATAAAGAT
CGTATCTCACCCCTGGCACTCTCATATGAATGAATATTATTTGTTGTTTGTGACTACCAAGCAT
GTGTTTTCTAGAGCTGGTTAATGATGTTTGAGCATGTACTTATTTTAGTGTCTATTTATTTCTG
ATTGGTATTTGTGGATTCATCACAAGCCAAAACATGGTTAGAACTCTAATATGCCATGAGCGCT
AGGAGTTTCTGAATTTGATGTTATGATACACATACATCTCTGGATTAATTAAAACCACACACGC
CCTACCTTACCCGAGAGTGAGCGCTCATTCTTCTGATGATGGATAAAATTCGGATTGTTTCAAT
TCTGTTATCTGGTAGCGGCAGTTCAACGATCATAAATTTTAGTGATCTCTGAGTATTATTACAT
TTTTTTTTATTTTTCATGGCAGTTATTTAAGTTCCGTAGCCTACCAAACTTGCTTGGGAGTAAA
GCCTGTTGTTGTGATTTCAGTTCTGTAAAACCGACATTACTTCTATTGCGACCTCCTTGACAGC
AATTCCTTTTTTTCTCTGAAACCAGGCTTCAAGTCCATTGCAAGTGAAATATGCTGATGGAGAG
TTGGAAAGACTGGGTATGAGGCTCTCTAAAATTATTTCTTCCATAATTCATTTGTATATCCTCA
GAATAATTGTTAAATTTTGCTAATGTATCTATGTTTTCATGTTGACGCTGTTGCTTCCAGAGCA
CAAACTTTTCATTGGAATGCTTCCAAAAAATGTAACAGATGCTGAAATGACTGATTTATTTTCG
CAATATGGGAACATCAAGGATTTGCAAATTTTGAGAGGTTCACAACAGACAAGCAAAGGTCAAA
ATCTCTTTACCTTTTCCCCCTCTTGATTCAGATGGAAAACACTTGTCATATAGAACCCTAAACT
TTCTCAGAACCTTTAGCTTATTCCAACTATGGATCTTGCAGCCGGCTGTGCCTTTTTGAAGTAT
GAAACAAAAGAGCAAGCGCTGGCAGCTATCGAAGCTCTAAATGGGAAACACAAAATAGAGGTTT
GTGGAAATTGAAGGATGATACAATATTTTTTTTGCTGATTTGTGTTTATAGATCTCTCCTGCAA
ACGATAGCAACTTAGGCATCTATTGTACTAGCTCAGTCTCAAAGCCAAGAATAGTACTGTATCC
TGATTCAAATACTGTTCCAACATAGCTGAACAAAATAATTTCATTCACTGTCTCATTCTGTGAT
TGTAACAAGTAATAGCTACATGACTGTAGCATGAAACAGTCCATCCAGATCAAATTAACAATAG
ATGAGTGCAGATATAAGTTAAGCTCAAATGTGATGGATTTGTTTGTTGCACACTCACACTTGAA
TATGTATAAGCAACAACAGTGGTAGACACAGTATACAATTTTAGCCTCGCAAAACTGGACGCAG
TAATATGTTGTAAATAGGTCAATCCATGTGCATATTGTCACCGTCACAGCTTTTAAAGCAATTC
TGGTCCAATGACTGTTCCTAAAAGGCAATCTGTAATATCCAAAAATTTTTTTTTAGTGTTCCAA
TAATATCTTAGAATATTTACAGAATCAAAAGCTCCAAACTACATAACAAAACCCTTGAGAATTT
TCAAATTTAAATTCAATGGAAATTAGTAGTAGCATATGTATACAGAAAGATAGTATGTTTAATA
TATAAATGTAGCCAGCTCCTTAAGTTGTATTAATATATTAGCTGTTTCCTTTATGTTTGAATTT
TCACAGTTGATTACATAGATCTTGATGTGCCCTGATCTTTTGTAGGGTTCAAGTGTACCTTTGG
TTGTTAAATGGGCTGACACTGAGAAGGAAAGACAAGCTCGAAAAGCACAAAAGGCTCAATTTCA
CCCATCTAATATGTCAAATCCAAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATG
GGATATGTACCACAGTATAATGGTTATGGCTACCAG
						
					

			
		

Sequences
Splice junction sequence	CCCATCTAATATGTCAAATCCAAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATG GGATATGTACCACAGTATAATGGTTATGGCTACCAGgctgctgctttttgatctgcccatcaag ggaggaggctgacaaggcggtgaatgcatatcacaacaagcgcacccttccaggggtatgtgaa aggatttc
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: 527 Transcript exons: 17997031-17997113,17998144-17998195,17998307-17998432,17 998544-17998626,17999380-17999562 GCTGCTGCTTTTTGATCTGCCCATCAAGGGAGGAGGCTGACAAGGCGGTGAATGCATATCACAA CAAGCGCACCCTTCCAGGGGCTTCAAGTCCATTGCAAGTGAAATATGCTGATGGAGAGTTGGAA AGACTGGAGCACAAACTTTTCATTGGAATGCTTCCAAAAAATGTAACAGATGCTGAAATGACTG ATTTATTTTCGCAATATGGGAACATCAAGGATTTGCAAATTTTGAGAGGTTCACAACAGACAAG CAAAGCCGGCTGTGCCTTTTTGAAGTATGAAACAAAAGAGCAAGCGCTGGCAGCTATCGAAGCT CTAAATGGGAAACACAAAATAGAGGGTTCAAGTGTACCTTTGGTTGTTAAATGGGCTGACACTG AGAAGGAAAGACAAGCTCGAAAAGCACAAAAGGCTCAATTTCACCCATCTAATATGTCAAATCC AAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATGGGATATGTACCACAGTATAAT GGTTATGGCTACCAG
Genomic sequence	GCTGCTGCTTTTTGATCTGCCCATCAAGGGAGGAGGCTGACAAGGCGGTGAATGCATATCACAA CAAGCGCACCCTTCCAGGGGTATGTGAAAGGATTTCTTTTTTGTGTCTGTAGTTGTTCAATGTG GAACCTTCTAAATGTTTAATATGGTTTCTCGTGGATAAACTGGGAGCGCATCATATTTTTGGAA GTATAGATGTTCAGTGTGATTAAGTGAAACGTTAGGCCTGCTTTAGAACAAGGATTTTTGTAGG AAAAATAAAGGATTGCAAGCCAAATGAGAAAAAAAAGTACGCTTGGTGTTTGGATCATAGGATT GCACCAAAATAATCTCATAGTTCGCACGACTGTAAATTTCTATAAATTTAGGAGGGAACCAAAC ATGGCACATTCTCATGTAAATTTCCTTTCAAGAGCTGACACAGTCTCTCTTTCTCCTCTCTTTA GCCAAGAAACATCTAATAACAAAATTCATGCATTTTTGCCATGAAATCCAAACACATATTTTCT GCTATTCATGTAGTTTTGTTTACTTCTACTCTGGTTCTGGTCACTGACGGGAGAAGATAAAGAT CGTATCTCACCCCTGGCACTCTCATATGAATGAATATTATTTGTTGTTTGTGACTACCAAGCAT GTGTTTTCTAGAGCTGGTTAATGATGTTTGAGCATGTACTTATTTTAGTGTCTATTTATTTCTG ATTGGTATTTGTGGATTCATCACAAGCCAAAACATGGTTAGAACTCTAATATGCCATGAGCGCT AGGAGTTTCTGAATTTGATGTTATGATACACATACATCTCTGGATTAATTAAAACCACACACGC CCTACCTTACCCGAGAGTGAGCGCTCATTCTTCTGATGATGGATAAAATTCGGATTGTTTCAAT TCTGTTATCTGGTAGCGGCAGTTCAACGATCATAAATTTTAGTGATCTCTGAGTATTATTACAT TTTTTTTTATTTTTCATGGCAGTTATTTAAGTTCCGTAGCCTACCAAACTTGCTTGGGAGTAAA GCCTGTTGTTGTGATTTCAGTTCTGTAAAACCGACATTACTTCTATTGCGACCTCCTTGACAGC AATTCCTTTTTTTCTCTGAAACCAGGCTTCAAGTCCATTGCAAGTGAAATATGCTGATGGAGAG TTGGAAAGACTGGGTATGAGGCTCTCTAAAATTATTTCTTCCATAATTCATTTGTATATCCTCA GAATAATTGTTAAATTTTGCTAATGTATCTATGTTTTCATGTTGACGCTGTTGCTTCCAGAGCA CAAACTTTTCATTGGAATGCTTCCAAAAAATGTAACAGATGCTGAAATGACTGATTTATTTTCG CAATATGGGAACATCAAGGATTTGCAAATTTTGAGAGGTTCACAACAGACAAGCAAAGGTCAAA ATCTCTTTACCTTTTCCCCCTCTTGATTCAGATGGAAAACACTTGTCATATAGAACCCTAAACT TTCTCAGAACCTTTAGCTTATTCCAACTATGGATCTTGCAGCCGGCTGTGCCTTTTTGAAGTAT GAAACAAAAGAGCAAGCGCTGGCAGCTATCGAAGCTCTAAATGGGAAACACAAAATAGAGGTTT GTGGAAATTGAAGGATGATACAATATTTTTTTTGCTGATTTGTGTTTATAGATCTCTCCTGCAA ACGATAGCAACTTAGGCATCTATTGTACTAGCTCAGTCTCAAAGCCAAGAATAGTACTGTATCC TGATTCAAATACTGTTCCAACATAGCTGAACAAAATAATTTCATTCACTGTCTCATTCTGTGAT TGTAACAAGTAATAGCTACATGACTGTAGCATGAAACAGTCCATCCAGATCAAATTAACAATAG ATGAGTGCAGATATAAGTTAAGCTCAAATGTGATGGATTTGTTTGTTGCACACTCACACTTGAA TATGTATAAGCAACAACAGTGGTAGACACAGTATACAATTTTAGCCTCGCAAAACTGGACGCAG TAATATGTTGTAAATAGGTCAATCCATGTGCATATTGTCACCGTCACAGCTTTTAAAGCAATTC TGGTCCAATGACTGTTCCTAAAAGGCAATCTGTAATATCCAAAAATTTTTTTTTAGTGTTCCAA TAATATCTTAGAATATTTACAGAATCAAAAGCTCCAAACTACATAACAAAACCCTTGAGAATTT TCAAATTTAAATTCAATGGAAATTAGTAGTAGCATATGTATACAGAAAGATAGTATGTTTAATA TATAAATGTAGCCAGCTCCTTAAGTTGTATTAATATATTAGCTGTTTCCTTTATGTTTGAATTT TCACAGTTGATTACATAGATCTTGATGTGCCCTGATCTTTTGTAGGGTTCAAGTGTACCTTTGG TTGTTAAATGGGCTGACACTGAGAAGGAAAGACAAGCTCGAAAAGCACAAAAGGCTCAATTTCA CCCATCTAATATGTCAAATCCAAATGCAATGCAACAGTCTTCATTATTTGGAGCTATGCAGATG GGATATGTACCACAGTATAATGGTTATGGCTACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.335518674

Conservation Information
Conserved circRNAs	NA
PMCS	0.335518674

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17999487-17997067(+)
17998328-17997042(+)
17998158-17999508(-)
						
						Potential amino acid sequence
						
							MQCNSLHYLELCRWDMYHSIMVMATRLLLFDLPIKGGG*(+)
MLPKNVTDAEMTDLFSQYGNIKDLQILRGSQQTSKAGCAFLKYETKEQALAAIEALNGKHKIEG
SSVPLVVKWADTEKERQARKAQKAQFHPSNMSNPNAMQQSSLFGAMQMGYVPQYNGYGYQAAAF
*(+)
MDLKPLEGCACCDMHSPPCQPPPLMGRSKSSSLVAITIILWYISHLHSSK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17999487-17997067(+) 17998328-17997042(+) 17998158-17999508(-)
Potential amino acid sequence	MQCNSLHYLELCRWDMYHSIMVMATRLLLFDLPIKGGG(+) MLPKNVTDAEMTDLFSQYGNIKDLQILRGSQQTSKAGCAFLKYETKEQALAAIEALNGKHKIEG SSVPLVVKWADTEKERQARKAQKAQFHPSNMSNPNAMQQSSLFGAMQMGYVPQYNGYGYQAAAF (+) MDLKPLEGCACCDMHSPPCQPPPLMGRSKSSSLVAITIILWYISHLHSSK*(-)
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 Os05g0373400_circ_g.2

Address

Any questions?

Supported by