Plant Circular RNA Database

Detail information of Os07g0412100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0412100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_033498
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 12919330-12920298  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os07g0412100						
					
						Parent gene annotation
						
							Similar to Granule-bound starch synthase Ib, chloroplast precurs
or (EC 2.4.1.21) (Fragment). (Os07t0412100-01);Granule-bound sta
rch synthase 2, Starch biosynthesis (Os07t0412100-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0412100_circ_g.2 Os07g0412100_circ_g.4 Os07g0412100_circ_g.5 						
					
						Support reads
						70
					
						Tissues
						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
						Os07t0412100-02:4
Os07t0412100-01:4

General Information
CircRNA Name	Os07g0412100_circ_g.3
ID in PlantcircBase	osa_circ_033498
Alias	NA
Organism	Oryza sativa
Position	chr7: 12919330-12920298 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os07g0412100
Parent gene annotation	Similar to Granule-bound starch synthase Ib, chloroplast precurs or (EC 2.4.1.21) (Fragment). (Os07t0412100-01);Granule-bound sta rch synthase 2, Starch biosynthesis (Os07t0412100-02)
Parent gene strand	-
Alternative splicing	Os07g0412100_circ_g.2 Os07g0412100_circ_g.4 Os07g0412100_circ_g.5
Support reads	70
Tissues	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	Os07t0412100-02:4 Os07t0412100-01:4

			
						 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  
						
							CCTTCTCAAGAAACATAGGATGATCAACAAAAACACGGTCAACTCCCCTTTTATAGCAGTGGAA
GAAGCGCACTGTTTCTGTCCTGTCACCAATATTGACcttagcattcacatacattccttttgcc
tgatagatgctcttgagatagcatggcaggactccagtgtgccagtcatttgcaacgaagacaa
cattttca

						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
						
							CTTAGCATTCACATACATTCCTTTTGCCTGATAGATGCTCTTGAGATAGCATGGCAGGACTCCA
GTGTGCCAGTCATTTGCAACGAAGACAACATTTTCACCTGATTAACAAATATGAATGTCAGTCA
GATAGAATGAGGGAGAAAGACAATTATCTGTGATAGTTTATACTATACAGAAACCAACCATATG
GTCCCGAGAAATATTCAGAATTGTTGAGATTGAGAACCCTTGGAGCCTCCAAAGCAGCCTAAAA
GGACAATCAGATTAGAAGAAATTGCACAAAAATAATACAAATTAGAAGAAAAAAAACTAATTCC
ATGCAATTTCTGACAGTCAATGGTAGATTTGCCCAAACCTACAACTGTGATTAGCTGAGCCCAC
ATGCAAATTAAAAAAAAAAGATAAATAGATAGAAAAAGGGACCACTTTAAAAGCTCGTATCAAA
TTACTGAAACCTGACGTTTATATGACATTTTTTTTTTGACTGGGGACGTTTATATGACATTATC
AGATGGAATTTACAGATTCTGTTCTCTTAGTGTATAAATACATATCTCAACTAATGAATGTCTC
TGTATAGAACAAAACAATACAATTTGTAGAACTACTTAGTGTAGCCACTTCATGGCTTTGTACA
TCAAGGCTGAGGCTGTTGCGACACATCTATGCATTTACTTACGAGGCATAAAAGGCAGAACCGC
AACTGGTTGTCCCGGTAGTCATCTCCAGTGGTAGGACCGTATAATTTTGGTCCAGTCTTGCCCC
ATACCTGAAAGTTTTATGATTCAAAGGGTGTACTGAGATACCAAAACTTTTAGAACTTTGCATC
ACTCAATTAGAACGCAGGTAATTAATGGTTTATCAGACCTTCTCAAGAAACATAGGATGATCAA
CAAAAACACGGTCAACTCCCCTTTTATAGCAGTGGAAGAAGCGCACTGTTTCTGTCCTGTCACC
AATATTGAC

Sequences
Splice junction sequence	CCTTCTCAAGAAACATAGGATGATCAACAAAAACACGGTCAACTCCCCTTTTATAGCAGTGGAA GAAGCGCACTGTTTCTGTCCTGTCACCAATATTGACcttagcattcacatacattccttttgcc tgatagatgctcttgagatagcatggcaggactccagtgtgccagtcatttgcaacgaagacaa cattttca
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	CTTAGCATTCACATACATTCCTTTTGCCTGATAGATGCTCTTGAGATAGCATGGCAGGACTCCA GTGTGCCAGTCATTTGCAACGAAGACAACATTTTCACCTGATTAACAAATATGAATGTCAGTCA GATAGAATGAGGGAGAAAGACAATTATCTGTGATAGTTTATACTATACAGAAACCAACCATATG GTCCCGAGAAATATTCAGAATTGTTGAGATTGAGAACCCTTGGAGCCTCCAAAGCAGCCTAAAA GGACAATCAGATTAGAAGAAATTGCACAAAAATAATACAAATTAGAAGAAAAAAAACTAATTCC ATGCAATTTCTGACAGTCAATGGTAGATTTGCCCAAACCTACAACTGTGATTAGCTGAGCCCAC ATGCAAATTAAAAAAAAAAGATAAATAGATAGAAAAAGGGACCACTTTAAAAGCTCGTATCAAA TTACTGAAACCTGACGTTTATATGACATTTTTTTTTTGACTGGGGACGTTTATATGACATTATC AGATGGAATTTACAGATTCTGTTCTCTTAGTGTATAAATACATATCTCAACTAATGAATGTCTC TGTATAGAACAAAACAATACAATTTGTAGAACTACTTAGTGTAGCCACTTCATGGCTTTGTACA TCAAGGCTGAGGCTGTTGCGACACATCTATGCATTTACTTACGAGGCATAAAAGGCAGAACCGC AACTGGTTGTCCCGGTAGTCATCTCCAGTGGTAGGACCGTATAATTTTGGTCCAGTCTTGCCCC ATACCTGAAAGTTTTATGATTCAAAGGGTGTACTGAGATACCAAAACTTTTAGAACTTTGCATC ACTCAATTAGAACGCAGGTAATTAATGGTTTATCAGACCTTCTCAAGAAACATAGGATGATCAA CAAAAACACGGTCAACTCCCCTTTTATAGCAGTGGAAGAAGCGCACTGTTTCTGTCCTGTCACC AATATTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.15277709

Conservation Information
Conserved circRNAs	NA
PMCS	0.15277709

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12920219-12920017(+)
12920216-12919332(-)
12919339-12919340(-)
						
						Potential amino acid sequence
						
							MINKNTVNSPFIAVEEAHCFCPVTNIDLSIHIHSFCLIDALEIAWQDSSVPVICNEDNIFTIWS
REIFRIVEIENPWSLQSSEA*(+)
MFLEKVWGKTGPKLYGPTTGDDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVA
NDWHTGVLPCYLKSIYQAKGMYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKT
GPKLYGPTTGDDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPC
YLKSIYQAKGMYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKTGPKLYGPTTG
DDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPCYLKSIYQAKG
MYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKTGPKLYGPTTGDDYRDNQLRF
CLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPCYLKSIYQAKGMYVNAK(-)
MLRSILVTGQKQCASSTAIKGELTVFLLIILCFLRRYGARLDQNYTVLPLEMTTGTTSCGSAFY
ASLLWRLQGFSISTILNISRDHMVKMLSSLQMTGTLESCHAISRASIRQKECM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12920219-12920017(+) 12920216-12919332(-) 12919339-12919340(-)
Potential amino acid sequence	MINKNTVNSPFIAVEEAHCFCPVTNIDLSIHIHSFCLIDALEIAWQDSSVPVICNEDNIFTIWS REIFRIVEIENPWSLQSSEA(+) MFLEKVWGKTGPKLYGPTTGDDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVA NDWHTGVLPCYLKSIYQAKGMYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKT GPKLYGPTTGDDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPC YLKSIYQAKGMYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKTGPKLYGPTTG DDYRDNQLRFCLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPCYLKSIYQAKG MYVNAKVNIGDRTETVRFFHCYKRGVDRVFVDHPMFLEKVWGKTGPKLYGPTTGDDYRDNQLRF CLLCLAALEAPRVLNLNNSEYFSGPYGENVVFVANDWHTGVLPCYLKSIYQAKGMYVNAK(-) MLRSILVTGQKQCASSTAIKGELTVFLLIILCFLRRYGARLDQNYTVLPLEMTTGTTSCGSAFY ASLLWRLQGFSISTILNISRDHMVKMLSSLQMTGTLESCHAISRASIRQKECM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0412100_circ_g.3

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