Plant Circular RNA Database

Detail information of Os07g0419500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0419500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_033524
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 13400407-13407567  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0419500						
					
						Parent gene annotation
						
							Similar to UDP-glucose:sterol glucosyltransferase. (Os07t0419500
-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0419500_circ_g.2 Os07g0419500_circ_g.3 Os07g0419500_circ_g.4 Os07g0419500_circ_g.5 						
					
						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
						Os07t0419500-01:8

General Information
CircRNA Name	Os07g0419500_circ_g.1
ID in PlantcircBase	osa_circ_033524
Alias	NA
Organism	Oryza sativa
Position	chr7: 13400407-13407567 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0419500
Parent gene annotation	Similar to UDP-glucose:sterol glucosyltransferase. (Os07t0419500 -01)
Parent gene strand	+
Alternative splicing	Os07g0419500_circ_g.2 Os07g0419500_circ_g.3 Os07g0419500_circ_g.4 Os07g0419500_circ_g.5
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	Os07t0419500-01:8

			
						 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  
						
							TTGCTTCCTCGATCTTGCTTCAAATTATAAACCTCCTGAACCCCTTCTCAAATGGCTTGAGAGT
GGTGAAAAGCCTATTTACATAGGTTTTGGCAGCCTTtttcaaacaatattagcctaccaaatga
gggtactagccctagaggaacagataatgctgaatgttctgagacatcttcagacaggtcgaat
tcggaaag

						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: 1124
Transcript exons: 13400407-13400573,13402210-13402452,13405035-13405146,13
405242-13405412,13405962-13406025,13406103-13406160,1340
6829-13407006,13407437-13407567
TTTCAAACAATATTAGCCTACCAAATGAGGGTACTAGCCCTAGAGGAACAGATAATGCTGAATG
TTCTGAGACATCTTCAGACAGGTCGAATTCGGAAAGCATAAAACCTGAAGAATGTGCAATGCCA
TCTTCAATATTTGATAAGAAGATTTCCATAAAAAAGAAGCTCAGATTGTTAAGTCGAATGGCTA
TACTGAAAGATGATGGAACTGTAGAAGTTGATATCCCCACTAATGCTGAGGCTGCATCTCTTGA
CCTTTCTTCAAATGATTACTGTAATGAAGCCTTTAGTGGGGAACCATTGGCATCTTCAGATTTC
CAGCACAGACCTCCTATGCAAATTGTTATGCTCATTGTTGGTACTAGAGGAGATGTGCAGCCTT
TTATAGCTATAGGAAAACGATTGCAGATCTATGGCCATCGTGTTAGACTGGCAACTCATGCCAA
CTTCAAGGATTTTGTTGTGACGGCTGGCCTGGAGTTTTATCCCCTAGGCGGAGACCCAAAACTT
CTTGCAGGATACATGGTGAAGAATAAAGGGTTCTTGCCTGCAACTCCATCAGAAATCCCTATCC
AGCGGAAGGAGATTAAAGAGATTATATTCTCCTTGCTTCCTGCTTGCAAAGATCCCGATACTGA
TACTGGTGCTCCTTTCAATGTAAATGCTATAATAGCTAATCCTGCAGCGTACGGGCATGTGCAT
GTGGCTGAGGCTCTGAAGGTACCAATCCACATAATTTTCACAATGCCATGGACGCCTACTTGTG
AATTCCCTCATCCCTTCTCCCGTGTAAAACAACCTGCAGGATATAGACTATCATACCAGATTGT
TGACTCCTTTGTTTGGCTTGGTATTCGGGATATTATAAATGATCTTCGGAAAAGGAAGTTGAAG
TTAAGACCAGTTACGTACCTAAGTAGCGCACATGCTTATTCAAATGATATTCCTCATGCATATA
TCTGGAGTCCTTACCTTGTACCCAAACCAAAGGACTGGGGACCCAAAATTGACGTTGTTGGGTT
TTGCTTCCTCGATCTTGCTTCAAATTATAAACCTCCTGAACCCCTTCTCAAATGGCTTGAGAGT
GGTGAAAAGCCTATTTACATAGGTTTTGGCAGCCTT
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTGCTTCCTCGATCTTGCTTCAAATTATAAACCTCCTGAACCCCTTCTCAAATGGCTTGAGAGT GGTGAAAAGCCTATTTACATAGGTTTTGGCAGCCTTtttcaaacaatattagcctaccaaatga gggtactagccctagaggaacagataatgctgaatgttctgagacatcttcagacaggtcgaat tcggaaag
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: 1124 Transcript exons: 13400407-13400573,13402210-13402452,13405035-13405146,13 405242-13405412,13405962-13406025,13406103-13406160,1340 6829-13407006,13407437-13407567 TTTCAAACAATATTAGCCTACCAAATGAGGGTACTAGCCCTAGAGGAACAGATAATGCTGAATG TTCTGAGACATCTTCAGACAGGTCGAATTCGGAAAGCATAAAACCTGAAGAATGTGCAATGCCA TCTTCAATATTTGATAAGAAGATTTCCATAAAAAAGAAGCTCAGATTGTTAAGTCGAATGGCTA TACTGAAAGATGATGGAACTGTAGAAGTTGATATCCCCACTAATGCTGAGGCTGCATCTCTTGA CCTTTCTTCAAATGATTACTGTAATGAAGCCTTTAGTGGGGAACCATTGGCATCTTCAGATTTC CAGCACAGACCTCCTATGCAAATTGTTATGCTCATTGTTGGTACTAGAGGAGATGTGCAGCCTT TTATAGCTATAGGAAAACGATTGCAGATCTATGGCCATCGTGTTAGACTGGCAACTCATGCCAA CTTCAAGGATTTTGTTGTGACGGCTGGCCTGGAGTTTTATCCCCTAGGCGGAGACCCAAAACTT CTTGCAGGATACATGGTGAAGAATAAAGGGTTCTTGCCTGCAACTCCATCAGAAATCCCTATCC AGCGGAAGGAGATTAAAGAGATTATATTCTCCTTGCTTCCTGCTTGCAAAGATCCCGATACTGA TACTGGTGCTCCTTTCAATGTAAATGCTATAATAGCTAATCCTGCAGCGTACGGGCATGTGCAT GTGGCTGAGGCTCTGAAGGTACCAATCCACATAATTTTCACAATGCCATGGACGCCTACTTGTG AATTCCCTCATCCCTTCTCCCGTGTAAAACAACCTGCAGGATATAGACTATCATACCAGATTGT TGACTCCTTTGTTTGGCTTGGTATTCGGGATATTATAAATGATCTTCGGAAAAGGAAGTTGAAG TTAAGACCAGTTACGTACCTAAGTAGCGCACATGCTTATTCAAATGATATTCCTCATGCATATA TCTGGAGTCCTTACCTTGTACCCAAACCAAAGGACTGGGGACCCAAAATTGACGTTGTTGGGTT TTGCTTCCTCGATCTTGCTTCAAATTATAAACCTCCTGAACCCCTTCTCAAATGGCTTGAGAGT GGTGAAAAGCCTATTTACATAGGTTTTGGCAGCCTT
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.197002759

Conservation Information
Conserved circRNAs	NA
PMCS	0.197002759

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13400530-13400508(+)
13400565-13407544(-)
						
						Potential amino acid sequence
						
							MPSSIFDKKISIKKKLRLLSRMAILKDDGTVEVDIPTNAEAASLDLSSNDYCNEAFSGEPLASS
DFQHRPPMQIVMLIVGTRGDVQPFIAIGKRLQIYGHRVRLATHANFKDFVVTAGLEFYPLGGDP
KLLAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGH
VHVAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRK
LKLRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWL
ESGEKPIYIGFGSLFQTILAYQMRVLALEEQIMLNVLRHLQTGRIRKA*(+)
MEIFLSNIEDGIAHSSGFMLSEFDLSEDVSEHSALSVPLGLVPSFGRLILFEKGCQNLCK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13400530-13400508(+) 13400565-13407544(-)
Potential amino acid sequence	MPSSIFDKKISIKKKLRLLSRMAILKDDGTVEVDIPTNAEAASLDLSSNDYCNEAFSGEPLASS DFQHRPPMQIVMLIVGTRGDVQPFIAIGKRLQIYGHRVRLATHANFKDFVVTAGLEFYPLGGDP KLLAGYMVKNKGFLPATPSEIPIQRKEIKEIIFSLLPACKDPDTDTGAPFNVNAIIANPAAYGH VHVAEALKVPIHIIFTMPWTPTCEFPHPFSRVKQPAGYRLSYQIVDSFVWLGIRDIINDLRKRK LKLRPVTYLSSAHAYSNDIPHAYIWSPYLVPKPKDWGPKIDVVGFCFLDLASNYKPPEPLLKWL ESGEKPIYIGFGSLFQTILAYQMRVLALEEQIMLNVLRHLQTGRIRKA(+) MEIFLSNIEDGIAHSSGFMLSEFDLSEDVSEHSALSVPLGLVPSFGRLILFEKGCQNLCK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0419500_circ_g.1

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