Plant Circular RNA Database

Detail information of Os01g0805700_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0805700_circ_g.3
					
						ID in PlantcircBase
						osa_circ_004461
					
						Alias
						Os_ciR1585
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 34154725-34156943  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os01g0805700						
					
						Parent gene annotation
						
							Similar to plectin-related. (Os01t0805700-01);Similar to plectin
-related. (Os01t0805700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0805700_circ_g.2 Os01g0805700_circ_g.4 Os01g0805700_circ_g.5 Os01g0805700_circ_g.6 Os01g0805700_circ_g.7 Os01g0805700_circ_g.8 Os01g0805700_circ_g.9 Os01g0805700_circ_g.10 Os01g0805700_circ_g.11 Os01g0805700_circ_g.12 Os01g0805700_circ_g.13 Os01g0805700_circ_g.14 Os01g0805700_circ_g.15 Os01g0805700_circ_g.16 Os01g0805700_circ_g.17 Os01g0805700_circ_g.18 						
					
						Support reads
						9/3
					
						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  
						
							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
						Os01t0805700-01:6
Os01t0805700-02:6

General Information
CircRNA Name	Os01g0805700_circ_g.3
ID in PlantcircBase	osa_circ_004461
Alias	Os_ciR1585
Organism	Oryza sativa
Position	chr1: 34154725-34156943 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
Parent gene	Os01g0805700
Parent gene annotation	Similar to plectin-related. (Os01t0805700-01);Similar to plectin -related. (Os01t0805700-02)
Parent gene strand	-
Alternative splicing	Os01g0805700_circ_g.2 Os01g0805700_circ_g.4 Os01g0805700_circ_g.5 Os01g0805700_circ_g.6 Os01g0805700_circ_g.7 Os01g0805700_circ_g.8 Os01g0805700_circ_g.9 Os01g0805700_circ_g.10 Os01g0805700_circ_g.11 Os01g0805700_circ_g.12 Os01g0805700_circ_g.13 Os01g0805700_circ_g.14 Os01g0805700_circ_g.15 Os01g0805700_circ_g.16 Os01g0805700_circ_g.17 Os01g0805700_circ_g.18
Support reads	9/3
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	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	Os01t0805700-01:6 Os01t0805700-02:6

			
						 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  
						
							ATTAAACATGAGAATTGATAGTGAAACAAACCTTGCTTGGCTGGTGTAGCATTTTTATTCTTCT
AGCCTCACGGACCTCTTTCCTGAGTCCCTCTATCTCcttcattgtggtcgagtatgactctctt
gcttttgtagaccatccttttcgaagctttattctcatttttccgatatgaaatgcatggacag
agttcgat

									
								

					

						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: 642
Transcript exons: 34154725-34154859,34155133-34155191,34155884-34156000,34
156190-34156367,34156457-34156540,34156875-34156943
CTTCATTGTGGTCGAGTATGACTCTCTTGCTTTTGTAGACCATCCTTTTCGAAGCTTTATTCTC
ATTTTTCCGATATGAAATGCATGGACAGAGTTCGATGAGTAATCATTCCCATTCATTTGGGTGA
CAACCACATTAAACTCCACATCTGCTCTTTTCATTAGAGACTCCACATAATGTTCCAGTCCGGC
AGCAGGATTTATAGGTCCCATTGTTTGTATCGTAACTTTCTCTGCATTTAAAACTATCTCTGCC
TGTAACAGTCGGCCAACATCAAATGGTTCTGGAGCATATGTAGGTTTTGTTGCTCCCAATATAA
GATTTCTATTGCCTCCAGAAATTACACGGTACCATTGAGTTGGACAGCTGCTGATGTCTGGAGC
ATCATCAAATCGAGGGATAATACAAAACTGTGATCCAAGGATATCAGAACCTTCAAGATCATAG
AGGTCAGAGCTATCTTCTTCTAGCCTCTTGATCATTGCAAGCTCTTTCATTAGCTGATTGCAAA
GCTGATTTTTCTCTGCAATGAGAGTTCGCAGTGCCTTAAGCTCAAATTCCATGTCCATTACCTT
GCTTGGCTGGTGTAGCATTTTTATTCTTCTAGCCTCACGGACCTCTTTCCTGAGTCCCTCTATC
TC
						
					

						Genomic sequence
						
							CTTCATTGTGGTCGAGTATGACTCTCTTGCTTTTGTAGACCATCCTTTTCGAAGCTTTATTCTC
ATTTTTCCGATATGAAATGCATGGACAGAGTTCGATGAGTAATCATTCCCATTCATTTGGGTGA
CAACCACCTACAAGGAAACACGGAAGCAAACCACACTGATTTTTCCACAAATAACAAATTCAAA
GCTTGACAATATTCATGTCAACTACAATCAAACTCAGGCTGCAGTTTCACTTCAGTCTTAAGTA
CTTTGGGTGGGTGGGGGGGAGGGGGGGCTGATTGGAGTTTGGACATTGTGCCAAGATCCCCCAC
ATCCAAATAAAAATGGTGATTGTGGATTTAGCAAAATTAGAGAGGTGGCTTCTTAAATTAGTAT
AAGACACAGGAGAAGAATCCATACATTAAACTCCACATCTGCTCTTTTCATTAGAGACTCCACA
TAATGTTCCAGTCCGGCAGCTGTTCAAAAAGTATGTCAAAGTCAGCTATTTAAGTGCAACTTTG
GTGAAACCACGAGCTTGTATTCCCTCAATTCCTTAATATATCTGATATCTCATTGTTTTTCGGA
TGGTGTGTGTGCTCTAGTCCATAATTATAAACAACACTGGAAATAGGTAAAGGGATGGATGGAT
ATACCACAAAAAAAGATGATAAAAGGTCATCTCAAAACTGTAGAATGAGGTATTTGGGAACACA
ATTTGAGTGCTCTAAAGATGTGTATTTGAAAAAGGAGGGAAAATCGAATGTCCTGCTGCACTTC
TATTGTAGAAAAAAAAAACGGGGGCTTTTGCCCTGAGAAAGCATGTGCCATATGGCAGAATGCA
TCATGGGGCTAATCCATATGATATGATAGGATAAACCATGCATTACTTACACAGTTAAGCAATT
AAAGTATTATGCCACAATATATGAAAATAGATACTCCATACTATGGCATTAAGCTTAGTTCTAC
TTTTAACTTCCAAAGTTCGAAACAAATATCAAGAACATGTAGACAAAAAAGAAATGTGAAATAA
GCTACAGAAAATATTGCAAGAGAAATGGACAGTTTAAATACTTCTGAAAGAAACGCAACTGTGC
ATATCAATCTACCTGATAAAATAAATAGGATCACCATTAGAAATTTTAAGAGAGCAGTGGGAAG
GCCTAACCAGGATTTATAGGTCCCATTGTTTGTATCGTAACTTTCTCTGCATTTAAAACTATCT
CTGCCTGTAACAGTCGGCCAACATCAAATGGTTCTGGAGCATATGTAGGTTTTGTTGCTCCTGC
AGAAAGCGATCTCAACATCTTTAGTATATGGTAATAAGTGAGAAGAAAACAATGATGTACAGTT
TTTACATGACTGCATAATAAGCAAAAAGATATTACTGCAATGATTGCTTTGCAAATGAATGATA
TTAAAATGGATTTAGGAGAACCCACTAGCTCCATGTAATGTTGATCTGATAACATACCCAATAT
AAGATTTCTATTGCCTCCAGAAATTACACGGTACCATTGAGTTGGACAGCTGCTGATGTCTGGA
GCATCATCAAATCGAGGGATAATACAAAACTGTGATCCAAGGATATCAGAACCTTCAAGATCAT
AGAGGTCAGAGCTATCTTCTTCTAGCCTCTTGATCATTGCAAGCTGGACATGAAAAGAAAAAGG
ATGGCTATAACTCAACAACACTAAAAACAAGAAAACACAAATAATACAAACCATGTCAAAAGAA
TTACCTCTTTCATTAGCTGATTGCAAAGCTGATTTTTCTCTGCAATGAGAGTTCGCAGTGCCTT
AAGCTCAAATTCCATGTCCATTACCTGTGATGTTTTTTTCATGGCCATTATTAATCAGGGTATG
TGAATATAAGCAAATCACCATGAGCTGCTCTATTTCATTACTAGCTTTATGAAAGAATAGACAC
TGCAGATTTATTTTTTTAAAAAAAAGTGTTAAAAAAAAATCAAATAACATAGCATAAGAAAGGG
CATGAAATTTTTATAGAACTTAAGACATTGAGGAAGACGGTCTCTATTTGAACTCACTGGAGGA
AAGAGAAGAAAAGGGTTAATTAACATTAAAGATCTAGAGAAATACACAAAAAAGAAACTGCTAT
TCCATAAATTAAACATGAGAATTGATAGTGAAACAAACCTTGCTTGGCTGGTGTAGCATTTTTA
TTCTTCTAGCCTCACGGACCTCTTTCCTGAGTCCCTCTATCTC
						
					

			
		

Sequences
Splice junction sequence	ATTAAACATGAGAATTGATAGTGAAACAAACCTTGCTTGGCTGGTGTAGCATTTTTATTCTTCT AGCCTCACGGACCTCTTTCCTGAGTCCCTCTATCTCcttcattgtggtcgagtatgactctctt gcttttgtagaccatccttttcgaagctttattctcatttttccgatatgaaatgcatggacag agttcgat
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: 642 Transcript exons: 34154725-34154859,34155133-34155191,34155884-34156000,34 156190-34156367,34156457-34156540,34156875-34156943 CTTCATTGTGGTCGAGTATGACTCTCTTGCTTTTGTAGACCATCCTTTTCGAAGCTTTATTCTC ATTTTTCCGATATGAAATGCATGGACAGAGTTCGATGAGTAATCATTCCCATTCATTTGGGTGA CAACCACATTAAACTCCACATCTGCTCTTTTCATTAGAGACTCCACATAATGTTCCAGTCCGGC AGCAGGATTTATAGGTCCCATTGTTTGTATCGTAACTTTCTCTGCATTTAAAACTATCTCTGCC TGTAACAGTCGGCCAACATCAAATGGTTCTGGAGCATATGTAGGTTTTGTTGCTCCCAATATAA GATTTCTATTGCCTCCAGAAATTACACGGTACCATTGAGTTGGACAGCTGCTGATGTCTGGAGC ATCATCAAATCGAGGGATAATACAAAACTGTGATCCAAGGATATCAGAACCTTCAAGATCATAG AGGTCAGAGCTATCTTCTTCTAGCCTCTTGATCATTGCAAGCTCTTTCATTAGCTGATTGCAAA GCTGATTTTTCTCTGCAATGAGAGTTCGCAGTGCCTTAAGCTCAAATTCCATGTCCATTACCTT GCTTGGCTGGTGTAGCATTTTTATTCTTCTAGCCTCACGGACCTCTTTCCTGAGTCCCTCTATC TC
Genomic sequence	CTTCATTGTGGTCGAGTATGACTCTCTTGCTTTTGTAGACCATCCTTTTCGAAGCTTTATTCTC ATTTTTCCGATATGAAATGCATGGACAGAGTTCGATGAGTAATCATTCCCATTCATTTGGGTGA CAACCACCTACAAGGAAACACGGAAGCAAACCACACTGATTTTTCCACAAATAACAAATTCAAA GCTTGACAATATTCATGTCAACTACAATCAAACTCAGGCTGCAGTTTCACTTCAGTCTTAAGTA CTTTGGGTGGGTGGGGGGGAGGGGGGGCTGATTGGAGTTTGGACATTGTGCCAAGATCCCCCAC ATCCAAATAAAAATGGTGATTGTGGATTTAGCAAAATTAGAGAGGTGGCTTCTTAAATTAGTAT AAGACACAGGAGAAGAATCCATACATTAAACTCCACATCTGCTCTTTTCATTAGAGACTCCACA TAATGTTCCAGTCCGGCAGCTGTTCAAAAAGTATGTCAAAGTCAGCTATTTAAGTGCAACTTTG GTGAAACCACGAGCTTGTATTCCCTCAATTCCTTAATATATCTGATATCTCATTGTTTTTCGGA TGGTGTGTGTGCTCTAGTCCATAATTATAAACAACACTGGAAATAGGTAAAGGGATGGATGGAT ATACCACAAAAAAAGATGATAAAAGGTCATCTCAAAACTGTAGAATGAGGTATTTGGGAACACA ATTTGAGTGCTCTAAAGATGTGTATTTGAAAAAGGAGGGAAAATCGAATGTCCTGCTGCACTTC TATTGTAGAAAAAAAAAACGGGGGCTTTTGCCCTGAGAAAGCATGTGCCATATGGCAGAATGCA TCATGGGGCTAATCCATATGATATGATAGGATAAACCATGCATTACTTACACAGTTAAGCAATT AAAGTATTATGCCACAATATATGAAAATAGATACTCCATACTATGGCATTAAGCTTAGTTCTAC TTTTAACTTCCAAAGTTCGAAACAAATATCAAGAACATGTAGACAAAAAAGAAATGTGAAATAA GCTACAGAAAATATTGCAAGAGAAATGGACAGTTTAAATACTTCTGAAAGAAACGCAACTGTGC ATATCAATCTACCTGATAAAATAAATAGGATCACCATTAGAAATTTTAAGAGAGCAGTGGGAAG GCCTAACCAGGATTTATAGGTCCCATTGTTTGTATCGTAACTTTCTCTGCATTTAAAACTATCT CTGCCTGTAACAGTCGGCCAACATCAAATGGTTCTGGAGCATATGTAGGTTTTGTTGCTCCTGC AGAAAGCGATCTCAACATCTTTAGTATATGGTAATAAGTGAGAAGAAAACAATGATGTACAGTT TTTACATGACTGCATAATAAGCAAAAAGATATTACTGCAATGATTGCTTTGCAAATGAATGATA TTAAAATGGATTTAGGAGAACCCACTAGCTCCATGTAATGTTGATCTGATAACATACCCAATAT AAGATTTCTATTGCCTCCAGAAATTACACGGTACCATTGAGTTGGACAGCTGCTGATGTCTGGA GCATCATCAAATCGAGGGATAATACAAAACTGTGATCCAAGGATATCAGAACCTTCAAGATCAT AGAGGTCAGAGCTATCTTCTTCTAGCCTCTTGATCATTGCAAGCTGGACATGAAAAGAAAAAGG ATGGCTATAACTCAACAACACTAAAAACAAGAAAACACAAATAATACAAACCATGTCAAAAGAA TTACCTCTTTCATTAGCTGATTGCAAAGCTGATTTTTCTCTGCAATGAGAGTTCGCAGTGCCTT AAGCTCAAATTCCATGTCCATTACCTGTGATGTTTTTTTCATGGCCATTATTAATCAGGGTATG TGAATATAAGCAAATCACCATGAGCTGCTCTATTTCATTACTAGCTTTATGAAAGAATAGACAC TGCAGATTTATTTTTTTAAAAAAAAGTGTTAAAAAAAAATCAAATAACATAGCATAAGAAAGGG CATGAAATTTTTATAGAACTTAAGACATTGAGGAAGACGGTCTCTATTTGAACTCACTGGAGGA AAGAGAAGAAAAGGGTTAATTAACATTAAAGATCTAGAGAAATACACAAAAAAGAAACTGCTAT TCCATAAATTAAACATGAGAATTGATAGTGAAACAAACCTTGCTTGGCTGGTGTAGCATTTTTA TTCTTCTAGCCTCACGGACCTCTTTCCTGAGTCCCTCTATCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002478* osi_circ_010834 						
					
						PMCS
						0.218594934

Conservation Information
Conserved circRNAs	osi_circ_002478* osi_circ_010834
PMCS	0.218594934

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34156498-34154800(+)
34156897-34154727(-)
34154769-34156914(-)
						
						Potential amino acid sequence
						
							MRVRSALSSNSMSITLLGWCSIFILLASRTSFLSPSISFIVVEYDSLAFVDHPFRSFILIFPI*
(+)
MLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQFCI
IPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQTM
GPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKARES
YSTTMKEIEGLRKEVREARRIKMLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRL
EEDSSDLYDLEGSDILGSQFCIIPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPF
DVGRLLQAEIVLNAEKVTIQTMGPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVH
AFHIGKMRIKLRKGWSTKARESYSTTMKEIEGLRKEVREARRIKMLHQPSKVMDMEFELKALRT
LIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQFCIIPRFDDAPDISSCPTQWYRV
ISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQTMGPINPAAGLEHYVESLMKRA
DVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKARESYSTTMKEIEGLRKEVREARR
IKMLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQF
CIIPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQ
TMGPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKAR
ESYSTTMK(-)
MVYKSKRVILDHNEGDRGTQERGP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34156498-34154800(+) 34156897-34154727(-) 34154769-34156914(-)
Potential amino acid sequence	MRVRSALSSNSMSITLLGWCSIFILLASRTSFLSPSISFIVVEYDSLAFVDHPFRSFILIFPI* (+) MLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQFCI IPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQTM GPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKARES YSTTMKEIEGLRKEVREARRIKMLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRL EEDSSDLYDLEGSDILGSQFCIIPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPF DVGRLLQAEIVLNAEKVTIQTMGPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVH AFHIGKMRIKLRKGWSTKARESYSTTMKEIEGLRKEVREARRIKMLHQPSKVMDMEFELKALRT LIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQFCIIPRFDDAPDISSCPTQWYRV ISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQTMGPINPAAGLEHYVESLMKRA DVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKARESYSTTMKEIEGLRKEVREARR IKMLHQPSKVMDMEFELKALRTLIAEKNQLCNQLMKELAMIKRLEEDSSDLYDLEGSDILGSQF CIIPRFDDAPDISSCPTQWYRVISGGNRNLILGATKPTYAPEPFDVGRLLQAEIVLNAEKVTIQ TMGPINPAAGLEHYVESLMKRADVEFNVVVTQMNGNDYSSNSVHAFHIGKMRIKLRKGWSTKAR ESYSTTMK(-) MVYKSKRVILDHNEGDRGTQERGP*(-)
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 Os01g0805700_circ_g.3

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