Plant Circular RNA Database

Detail information of Os03g0421400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0421400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_020336
					
						Alias
						Os_ciR3828
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 17551695-17554096  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0421400						
					
						Parent gene annotation
						
							Similar to band 7 family protein. (Os03t0421400-01);Similar to b
and 7 family protein. (Os03t0421400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0421400_circ_g.2 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot, 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  
						
							CT-AC							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
						Os03t0421400-02:7
Os03t0421400-01:7

General Information
CircRNA Name	Os03g0421400_circ_g.1
ID in PlantcircBase	osa_circ_020336
Alias	Os_ciR3828
Organism	Oryza sativa
Position	chr3: 17551695-17554096 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0421400
Parent gene annotation	Similar to band 7 family protein. (Os03t0421400-01);Similar to b and 7 family protein. (Os03t0421400-02)
Parent gene strand	-
Alternative splicing	Os03g0421400_circ_g.2
Support reads	2/1
Tissues	root/shoot, 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	CT-AC 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	Os03t0421400-02:7 Os03t0421400-01:7

			
						 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  
						
							GTGGAGTGATTGTTTCCAAAAGAGCACCTCCTCTCCAGTACACCCCAACATGTCCTTCAGGGAC
TTGATGTAGAATGCTTGACGGTGCCGAAAATGAAATcttttcaccaaagaatatcttcgagtta
ttggcgattgattcaatgaacctcagctcaaggtactccggtgtaagtttaagcctgttggcct
ctgcttcc

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTTTTCACCAAAGAATATCTTCGAGTTATTGGCGATTGATTCAATGAACCTCAGCTCAAGGTAC
TCCGGTGTAAGTTTAAGCCTGTTGGCCTCTGCTTCCTTCGTTATCCTAGATGGGGAAGACAAAG
CACGGTCAGTTGATATGAATTGTGTGTGAGCACAAACAAGCACAAGCTGAGAGTTTTAAGGATA
ATGCTAGCCATGCCTGTAATAGTTCGCATCTGTAAGAGCTTTCTCTCGGGCAAGGAACATTTCA
TTATCAATCTGTTGCTGCCTCTTGGAGCTGTCCTTTTCCATAAGCTTCTGCTCCATGAGGATCT
TGCTCACCTGTGCATTCTTCTCTGCTTCAGATAGTGCAATTTTCTTCTGCGTTTCTGCTTCCTT
CTCTGCTACCTTTTGCTTCTCAATGGCAATCAATGCCTATGGACAGAAGATATACTTACAGAAT
ATACGTCCTCAAGTCAAACAATTAAGGAGATACAAGAGGATATTAGTATTTTCTATGTGTTAAA
GCAAGATCATGTCATTTCTGCAAGTATGTGGTATGCAATTTTATCCTAGAGATGCGTTTGAACT
CCTCAAACTCACTAATGTAAACTGCATTGCTATATGTATTAAATATATCTGATTATCTGCAGAA
AACTCTATGATTTAATGAAACAACACTTAATATTACAAGGCATGAGATAAGGACCCAAAGTTGA
ATATTGAGAAGTTTACCAGGTGTGTGCATATCCAGTTCCGTTTAAAAAAGACTAGTTCAGGAAT
CAGCTTCCGAAGCTGGCAAACTTCATATATGCAACTAACCAATTTCGTTTAACTGCGCAGCCAC
ACATGCAACATTAACAATTAAAGCAGAGTGTTCAACTTTCAGGTTTTTCTCAATCACCATTGCT
TCCTATTGCAGAACCCATAATTTCAAAGCACATGTATGCTAAGACACAGCATCTCAAGTGCAGT
TCAGTACTGCAGTATAAACTGGCCAAAAATGTAAAAGGGGCACGTGAAGTGTGTACCTTTGTAC
GCTCCTCCTCCATAAGTTCAAAATTTCTCCTAATGCTATCAGGTATGTTCGGCTTTGTAACACG
AACACTGATTATCTCAATACCAGGAGCATAGCGTGTACAGTCTCTTTGAATAGCTTCTTTCATC
GTTTCATCAATCTAGAATTGTGTCCGAACAGATGGAGCAGTAACACAGGTATAAGGTCTTGTAT
ATTGGACAGCTCTATGCAACAAAAGAAAAGAAAAAAGAAAAAAATGAACCAGTCATTCACTAAC
CTGATCAAACAAGTCGATGTAAACTTGCTGCAAACTGTGGGCACTACAGAACTGGTTTATCTCA
TGATGAATTTTGTCATAGATCCATGTCTTGTCATAATGCACACCATAATTGAGTAAGGTTTCGT
GCACAAACTCTTTATGGAGGCGGTTGACAACCTACAAGCAGAACATGATTCAATGGCTCAAATA
GAGGGAAATCAATTTTGTGAATCAGAATTGTAACAAACAATGTTCTAAAATGGTGACTGGTGTT
CATTAAGGCTGTGTTCGGGAGGAGGGGTTCCCAGCACGCAAAACGAAGCTCATATTATTGCATG
GTTAATTAAGTATTAACCTTTTTGTTTGAAAAATGGATTAATATGATTTTTTAAAACAACTTTC
ATAGAAAGTTTATGCATAAATCACACCGTTTAGCAGTTTGAAAAACGTGCGCGCGGAAAACAAG
AGAGGTGGGTTGGGAAAATGGGGGGAAGAACACAGCCTTAAGTCACTGACCTATTAGTCATTGT
ACAGTCTACTGGCTCATAGTGTGTCCTAACTCCTAACTGATGATTGCATGGTAGATTGGGGCAC
CTGTTCCTACTGTGTTGTTTACTATTCAAGTTTTGTAACATTAGTGAAAAACAGAGTATTCTTA
TACCTCGATCTTATCAAAGCTGATCATGACTCCACCTTTTGTTCCACAAGGAATATTTCTGACC
TGGTTTAGAACAAGAGGCATGAGTATACTTTAGTCAAAAGCTAATCTGATATACTAATAATGAC
TTTCCAAATAAGCAGTGATCCAAAGAACTAGATACAATTCACATATGAACTATTCTACAATTTG
AGTAGCACACAACAGATGGGGAAAGGTACATCCACTTGCCTGGTCTGTTTGAAGAGTAACCTGT
ATTGGCTCAAATTGGGTTATCCAAGGCAGCTTCACATGAAAACCTAGTAGCAGAGTTTCAAATT
TAGTGAAGAAAGATTCGAACAAAGAAGGGGAAAAAGAAAACCAGCAATTAAAAGGATACCTGGT
GGAGTGATTGTTTCCAAAAGAGCACCTCCTCTCCAGTACACCCCAACATGTCCTTCAGGGACTT
GATGTAGAATGCTTGACGGTGCCGAAAATGAAAT
						
					

			
		

Sequences
Splice junction sequence	GTGGAGTGATTGTTTCCAAAAGAGCACCTCCTCTCCAGTACACCCCAACATGTCCTTCAGGGAC TTGATGTAGAATGCTTGACGGTGCCGAAAATGAAATcttttcaccaaagaatatcttcgagtta ttggcgattgattcaatgaacctcagctcaaggtactccggtgtaagtttaagcctgttggcct ctgcttcc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTTTTCACCAAAGAATATCTTCGAGTTATTGGCGATTGATTCAATGAACCTCAGCTCAAGGTAC TCCGGTGTAAGTTTAAGCCTGTTGGCCTCTGCTTCCTTCGTTATCCTAGATGGGGAAGACAAAG CACGGTCAGTTGATATGAATTGTGTGTGAGCACAAACAAGCACAAGCTGAGAGTTTTAAGGATA ATGCTAGCCATGCCTGTAATAGTTCGCATCTGTAAGAGCTTTCTCTCGGGCAAGGAACATTTCA TTATCAATCTGTTGCTGCCTCTTGGAGCTGTCCTTTTCCATAAGCTTCTGCTCCATGAGGATCT TGCTCACCTGTGCATTCTTCTCTGCTTCAGATAGTGCAATTTTCTTCTGCGTTTCTGCTTCCTT CTCTGCTACCTTTTGCTTCTCAATGGCAATCAATGCCTATGGACAGAAGATATACTTACAGAAT ATACGTCCTCAAGTCAAACAATTAAGGAGATACAAGAGGATATTAGTATTTTCTATGTGTTAAA GCAAGATCATGTCATTTCTGCAAGTATGTGGTATGCAATTTTATCCTAGAGATGCGTTTGAACT CCTCAAACTCACTAATGTAAACTGCATTGCTATATGTATTAAATATATCTGATTATCTGCAGAA AACTCTATGATTTAATGAAACAACACTTAATATTACAAGGCATGAGATAAGGACCCAAAGTTGA ATATTGAGAAGTTTACCAGGTGTGTGCATATCCAGTTCCGTTTAAAAAAGACTAGTTCAGGAAT CAGCTTCCGAAGCTGGCAAACTTCATATATGCAACTAACCAATTTCGTTTAACTGCGCAGCCAC ACATGCAACATTAACAATTAAAGCAGAGTGTTCAACTTTCAGGTTTTTCTCAATCACCATTGCT TCCTATTGCAGAACCCATAATTTCAAAGCACATGTATGCTAAGACACAGCATCTCAAGTGCAGT TCAGTACTGCAGTATAAACTGGCCAAAAATGTAAAAGGGGCACGTGAAGTGTGTACCTTTGTAC GCTCCTCCTCCATAAGTTCAAAATTTCTCCTAATGCTATCAGGTATGTTCGGCTTTGTAACACG AACACTGATTATCTCAATACCAGGAGCATAGCGTGTACAGTCTCTTTGAATAGCTTCTTTCATC GTTTCATCAATCTAGAATTGTGTCCGAACAGATGGAGCAGTAACACAGGTATAAGGTCTTGTAT ATTGGACAGCTCTATGCAACAAAAGAAAAGAAAAAAGAAAAAAATGAACCAGTCATTCACTAAC CTGATCAAACAAGTCGATGTAAACTTGCTGCAAACTGTGGGCACTACAGAACTGGTTTATCTCA TGATGAATTTTGTCATAGATCCATGTCTTGTCATAATGCACACCATAATTGAGTAAGGTTTCGT GCACAAACTCTTTATGGAGGCGGTTGACAACCTACAAGCAGAACATGATTCAATGGCTCAAATA GAGGGAAATCAATTTTGTGAATCAGAATTGTAACAAACAATGTTCTAAAATGGTGACTGGTGTT CATTAAGGCTGTGTTCGGGAGGAGGGGTTCCCAGCACGCAAAACGAAGCTCATATTATTGCATG GTTAATTAAGTATTAACCTTTTTGTTTGAAAAATGGATTAATATGATTTTTTAAAACAACTTTC ATAGAAAGTTTATGCATAAATCACACCGTTTAGCAGTTTGAAAAACGTGCGCGCGGAAAACAAG AGAGGTGGGTTGGGAAAATGGGGGGAAGAACACAGCCTTAAGTCACTGACCTATTAGTCATTGT ACAGTCTACTGGCTCATAGTGTGTCCTAACTCCTAACTGATGATTGCATGGTAGATTGGGGCAC CTGTTCCTACTGTGTTGTTTACTATTCAAGTTTTGTAACATTAGTGAAAAACAGAGTATTCTTA TACCTCGATCTTATCAAAGCTGATCATGACTCCACCTTTTGTTCCACAAGGAATATTTCTGACC TGGTTTAGAACAAGAGGCATGAGTATACTTTAGTCAAAAGCTAATCTGATATACTAATAATGAC TTTCCAAATAAGCAGTGATCCAAAGAACTAGATACAATTCACATATGAACTATTCTACAATTTG AGTAGCACACAACAGATGGGGAAAGGTACATCCACTTGCCTGGTCTGTTTGAAGAGTAACCTGT ATTGGCTCAAATTGGGTTATCCAAGGCAGCTTCACATGAAAACCTAGTAGCAGAGTTTCAAATT TAGTGAAGAAAGATTCGAACAAAGAAGGGGAAAAAGAAAACCAGCAATTAAAAGGATACCTGGT GGAGTGATTGTTTCCAAAAGAGCACCTCCTCTCCAGTACACCCCAACATGTCCTTCAGGGACTT GATGTAGAATGCTTGACGGTGCCGAAAATGAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.233283611

Conservation Information
Conserved circRNAs	NA
PMCS	0.233283611

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17554072-17551902(+)
17553643-17553640(-)
						
						Potential amino acid sequence
						
							MLDGAENEIFSPKNIFELLAIDSMNLSSRYSGVSLSLLASASFVIL*(+)
MISFDKIEVVNRLHKEFVHETLLNYGVHYDKTWIYDKIHHEINQFCSAHSLQQVYIDLFDQIDE
TMKEAIQRDCTRYAPGIEIISVRVTKPNIPDSIRRNFELMEEERTKALIAIEKQKVAEKEAETQ
KKIALSEAEKNAQVSKILMEQKLMEKDSSKRQQQIDNEMFLAREKALTDANYYRITKEAEANRL
KLTPEYLELRFIESIANNSKIFFGEKISFSAPSSILHQVPEGHVGVYWRGGALLETITPPGFHV
KLPWITQFEPIQVTLQTDQAKIFLVEQKVES*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17554072-17551902(+) 17553643-17553640(-)
Potential amino acid sequence	MLDGAENEIFSPKNIFELLAIDSMNLSSRYSGVSLSLLASASFVIL(+) MISFDKIEVVNRLHKEFVHETLLNYGVHYDKTWIYDKIHHEINQFCSAHSLQQVYIDLFDQIDE TMKEAIQRDCTRYAPGIEIISVRVTKPNIPDSIRRNFELMEEERTKALIAIEKQKVAEKEAETQ KKIALSEAEKNAQVSKILMEQKLMEKDSSKRQQQIDNEMFLAREKALTDANYYRITKEAEANRL KLTPEYLELRFIESIANNSKIFFGEKISFSAPSSILHQVPEGHVGVYWRGGALLETITPPGFHV KLPWITQFEPIQVTLQTDQAKIFLVEQKVES(-)
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 Os03g0421400_circ_g.1

Address

Any questions?

Supported by