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Gene	Trait	Mutation	Taxon B	Taxonomic Status	Evidence	Main Reference	Gephe ID	UniProtKB	Trait Category	Mutation Details	Taxon A	Taxon B	Edit Gene-GePhe	Taxon B	Status
DEP1 (DENSE AND ERECT PANICLES 1)	Nitrogen use (metabolism)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank)	Domesticated	Linkage Mapping	Sun H; Qian Q; Wu K ; et al. (2014) Heterotrimeric G proteins regulate nitrogen-use efficiency in rice.	GP00001376	P0046G12.12-1 Q67UU9	Physiology	p.Cys105Tyr affecting affinity interaction between the GGL domain of DEP1 and RGB1 subunit	Oryza sativa Indica Group long-grained rice - (no rank)	Oryza sativa Japonica Group Japanese rice - (no rank)	DEP1 (DENSE AND ERECT PANICLES 1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
Early flowering1 (EL1)	Flowering time (heading date)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Linkage Mapping	Kwon CT; Yoo SC; Koo BH ; et al. (2014) Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]	GP00001636	HD16 Q852L0	Physiology	G476C p.Gly159Ala in the serine/threonine kinase domain leading to non-functional protein	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	Early flowering1 (EL1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
Early flowering1 (EL1)	Flowering time (heading date)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Linkage Mapping	Kwon CT; Yoo SC; Koo BH ; et al. (2014) Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]	GP00001637	HD16 Q852L0	Physiology	G991A p.Ala331Thr in the serine/threonine kinase domain leading to non-functional protein	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	Early flowering1 (EL1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
HEADING DATE 1	Flowering time (latitudinal adaptation)	Cis-regulatory, Insertion N	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Candidate Gene	Goretti D; Martignago D; Landini M ; et al. (2017) Transcriptional and Post-transcriptional Mechanisms Limit Heading Date 1 (Hd1) Function to Adapt Ric[...]	GP00001674	HD1 Q9FDX8	Physiology	Hd1(EH) allele with a 4.4 kb mobile element inserted at position -166pb that suppressed gene transcription N	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	HEADING DATE 1	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
OsSPL13	Grain size	Cis-regulatory, Insertion	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Association Mapping	Si L; Chen J; Huang X ; et al. (2016) OsSPL13 controls grain size in cultivated rice.	GP00001572	SPL13 Q6Z461	Morphology	a CACTTC tandem repeat sequence in the 5' UTR is causing reduced expression	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	OsSPL13	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37	Flowering time (heading date)	Coding, SNP N	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Linkage Mapping	Koo BH; Yoo SC; Park JW ; et al. (2013) Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]	GP00001632	PRR37 Q0D3B6	Physiology	Nonfunctional allele PRR37-2a: L710P missense mutation in the CONSTANS-Co-like and TOC1 domain of the protein N	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	PRR37 pseudoresponse regulator protein 37	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator

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