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Basic Information
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CGSNL Gene Symbol
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LCD1
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Gene Symbol Synonym
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NRAMP5, OsNRAMP5, OsNramp5, OsLCD1, NRAM5, OsNRAM5
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CGSNL Gene Name
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LOW CADMIUM ACCUMULATION 1
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Gene Name Synonym
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BACTERIOCIDE EFFECT 5, NATURAL RESISTANCE-ASSOCIATED MACROPHAGE PROTEIN 5, low cadmium accumulation 1
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Protein Name
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NATURAL RESISTANCE-ASSOCIATED MACROPHAGE PROTEIN 5
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Allele
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osnramp5, osnramp5-1, lcd-kmt1, osnramp5-2, lcd-kmt2, osnramp5-3, lcdkmt3, nramp5, OsNramp5-1, OsNramp5-2, OsNramp5-3, cr-OsNramp5, cr-OsNramp5-1
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Chromosome No.
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7
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Explanation
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Q8H4H5. AB690551, AB690552, AB690553. AB698459. MH07t0175300. one of the two candidate genes for qSER-7 (QTL for stigma exsertion rate on chromosome 7). TO:0006059: cadmium concentration. TO:0006059: cadmium content trait. TO:1000056: shoot system cadmium content. TO:1000030: root system cadmium content. TO:1000039: root system manganese content. TO:1000064: shoot system manganese content. TO:0006048: manganese concentration. GO:0097054: L-glutamate biosynthetic process. TO:0020096: mineral and ion transport trait. TO:0020090: zinc content trait. GO:1900425: negative regulation of defense response to bacterium. GO:0140426: pathogen-associated molecular pattern receptor signaling pathway. GO:2000377: regulation of reactive oxygen species metabolic process. TO:0020089: iron content trait. TO:0001048: silicon content trait. TO:0001044: cobalt content trait. TO:0006051: nickel content. TO:0001045: chromium content trait. TO:0006054: arsenic content trait. GO:0097501: stress response to metal ion. GO:0098869: cellular oxidant detoxification.
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Trait Class
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Biochemical character
Vegetative organ - Leaf
Vegetative organ - Culm
Coloration - Chlorophyll
Seed - Physiological traits - Storage substances
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
Reproductive organ - Spikelet, flower, glume, awn
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Expression
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Sequence/Locus
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cDNA Accession No.
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AK070788
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MSU ID
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LOC_Os07g15370.1
LOC_Os07g15370.2
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RAP ID
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Os07g0257200
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Links
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Oryzabase Chromosome View
(
IRGSP 1.0
/
Build5
)
RAP-DB
(
IRGSP 1.0
/
Build5
)
Related IDs List (
IRGSP 1.0
/
Build5
)
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INSD Accession List
(Test version)
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-
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Map
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Locate(cM)
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Link map
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Classical linkage map
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References
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Khan T.A., Su Q., Guoqin H., Du Z., Noor M.A., Asseri T.A.Y., Hassan M.U.
Front Plant Sci 2025 16 1609825
Integrative biochar and melatonin application mitigates lead toxicity in rice by modulating antioxidant activities and iron plaque formation and downregulating the expression of metal uptake genes.
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Wang X., Liu X., Su Y., Shen H.
Int J Mol Sci 2025 26(3)
Rice Responses to Abiotic Stress: Key Proteins and Molecular Mechanisms.
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Fujii T., Yamaji N., Ma J.F.
J. Exp. Bot. 2025
Dual roles of suberin deposition at endodermal Casparian strip in manganese uptake of rice.
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Lu W.C., Zheng X.L., Xiao Y.T., Sun Z.F., Tang Z., Zhao F.J., Huang X.Y.
Int J Mol Sci 2025 26(19)
Spatiotemporal Transcriptome Profiling Reveals Nutrient Transport Dynamics in Rice Nodes and Roots During Reproductive Development.
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Shao D., Yin L., Zhao J., Luo Z., Li W., Wang Y., Liu X., Tian B., Long X., Yin H., Zhou K.
Mol. Breed. 2025 45(8) 66
Navigating the genetic basis of cadmium accumulation: a comprehensive analysis of low-cadmium accumulation rice.
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Shahzad M., Peng D., Khan A., Ayyaz A., Askri S.M.H., Naz S., Huang B., Zhang G.
Ecotoxicol. Environ. Saf. 2024 288 117386
Sufficient manganese supply is necessary for OsNramp5 knockout rice plants to ensure normal growth and less Cd uptake.
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Zhang H., Sun B., Wu W., Li Y., Yin Z., Lu C., Zhao H., Kong L., Ding X.
Plant Commun 2024 5(6) 100859
The MYB transcription factor OsMYBxoc1 regulates resistance to Xoc by directly repressing transcription of the iron transport gene OsNRAMP5 in rice.
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Hu S., Zhou L., Wang J., Mawia A.M., Hui S., Xu B., Jiao G., Sheng Z., Shao G., Wei X., Wang L., Xie L., Zhao F., Tang S., Hu P.
Plant Biotechnol. J. 2024
Production of grains with ultra-low heavy metal accumulation by pyramiding novel Alleles of OsNramp5 and OsLsi2 in two-line hybrid rice.
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Qu Z., Nakanishi H.
Plants (Basel) 2023 12(24)
Amino Acid Residues of the Metal Transporter OsNRAMP5 Responsible for Cadmium Absorption in Rice.
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Wang X., Xu Q., Hu K., Wang G., Shi K.
Mol. Plant Microbe Interact. 2023 36(2) 95-108
A Coculture of <i>Enterobacter</i> and <i>Comamonas</i> Species Reduces Cadmium Accumulation in Rice.
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Feng K., Li J., Yang Y., Li Z., Wu W.
Int J Mol Sci 2023 24(9)
Cadmium Absorption in Various Genotypes of Rice under Cadmium Stress.
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Syu C.H., Nieh T.I., Hsieh M.T., Lo Y.C., Du P.R., Lin Y.W., Wu D.H.
Plants (Basel) 2022 11(21)
Uncovering the Genetic of Cadmium Accumulation in the Rice 3K Panel.
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Zhang J., Zhu Y., Yu L., Yang M., Zou X., Yin C., Lin Y.
Cells 2022 11(3)
Research Advances in Cadmium Uptake, Transport and Resistance in Rice (<i>Oryza sativa</i> L.).
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Ma C., Hao Y., Zhao J., Zuverza-Mena N., Meselhy A.G., Dhankher O.P., Rui Y., White J.C., Xing B.
Nanomaterials (Basel) 2021 11(4)
Graphitic Carbon Nitride (C3N4) Reduces Cadmium and Arsenic Phytotoxicity and Accumulation in Rice (<i>Oryza sativa</i> L.).
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Wang K., Yan T.Z., Xu S.L., Yan X., Zhou Q.F., Zhao X.H., Li Y.F., Wu Z.X., Qin P., Fu C.J., Fu J., Zhou Y.B., Yang Y.Z.
Sci Rep 2021 11(1) 6053
Validating a segment on chromosome 7 of japonica for establishing low-cadmium accumulating indica rice variety.
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Desai J.S., Lawas L.M.F., Valente A.M., Leman A.R., Grinevich D.O., Jagadish S.V.K., Doherty C.J.
Proc. Natl. Acad. Sci. U.S.A. 2021 118(25)
Warm nights disrupt transcriptome rhythms in field-grown rice panicles.
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Xue W., Wang P., Tang L., Zhang C., Wang C., Huang Y., Zhang X., Li Y., Zhao B., Liu Z.
Ecotoxicol. Environ. Saf. 2021 211 111921
Citric acid inhibits Cd uptake by improving the preferential transport of Mn and triggering the defense response of amino acids in grains.
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Liu J., Zhan J., Chen J., Lu X., Zhi S., Ye G.
Front Genet 2021 12 701658
Validation of Genes Affecting Rice Grain Zinc Content Through Candidate Gene-Based Association Analysis.
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Chang J.D., Huang S., Yamaji N., Zhang W., Ma J.F., Zhao F.J.
Plant Cell Environ. 2020 43(10) 2476-2491
OsNRAMP1 transporter contributes to cadmium and manganese uptake in rice.
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Liu A., Zhou Z., Yi Y., Chen G.
BMC Genomics 2020 21(1) 127
Transcriptome analysis reveals the roles of stem nodes in cadmium transport to rice grain.
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Cao Z.Z., Lin X.Y., Yang Y.J., Guan M.Y., Xu P., Chen M.X.
BMC Plant Biol. 2019 19(1) 250
Gene identification and transcriptome analysis of low cadmium accumulation rice mutant (lcd1) in response to cadmium stress using MutMap and RNA-seq.
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Treesubsuntorn C., Thiravetyan P.
Plant Biol (Stuttg) 2019 21(5) 862-872
Calcium acetate-induced reduction of cadmium accumulation in Oryza sativa: Expression of auto-inhibited calcium-ATPase and cadmium transporters.
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Himeno S., Sumi D., Fujishiro H.
Toxicol Res 2019 35(4) 311-317
Toxicometallomics of Cadmium, Manganese and Arsenic with Special Reference to the Roles of Metal Transporters.
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Liu Y., Zhang A., Wang F., Kong D., Li M., Bi J., Zhang F., Wang J., Luo X., Pan Z., Yu X., Liu G., Luo L.
Rice (N Y) 2019 12(1) 46
Fine mapping a quantitative trait locus, qSER-7, that controls stigma exsertion rate in rice (Oryza sativa L.).
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Tanaka N., Uraguchi S., Kajikawa M., Saito A., Ohmori Y., Fujiwara T.
Plant J. 2018 96(5) 997-1006
A rice PHD-finger protein OsTITANIA, is a growth regulator that functions through elevating expression of transporter genes for multiple metals.
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Chen X., Ouyang Y., Fan Y., Qiu B., Zhang G., Zeng F.
J. Exp. Bot. 2018 69(21) 5279-5291
The pathway of transmembrane cadmium influx via calcium-permeable channels and its spatial characteristics along rice root.
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Mani A., Sankaranarayanan K.
Protein J. 2018 37(3) 237-247
In Silico Analysis of Natural Resistance-Associated Macrophage Protein (NRAMP) Family of Transporters in Rice.
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Luo B., Chen J., Zhu L., Liu S., Li B., Lu H., Ye G., Xu G., Fan X.
Front Plant Sci 2018 9 1192
Overexpression of a High-Affinity Nitrate Transporter <i>OsNRT2.1</i> Increases Yield and Manganese Accumulation in Rice Under Alternating Wet and Dry Condition.
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Tsunemitsu Y., Yamaji N., Ma J.F., Kato S.I., Iwasaki K., Ueno D.
Plant Signal Behav 2018 13(1) e1422466
Rice reduces Mn uptake in response to Mn stress.
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Ding Y., Ye Y., Jiang Z., Wang Y., Zhu C.
Front Plant Sci 2016 7 235
MicroRNA390 Is Involved in Cadmium Tolerance and Accumulation in Rice.
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Takahashi R., Ishimaru Y., Shimo H., Bashir K., Senoura T., Sugimoto K., Ono K., Suzui N., Kawachi N., Ishii S., Yin Y.G., Fujimaki S., Yano M., Nishizawa N.K., Nakanishi H.
PLoS ONE 2014 9(6) e98816
From laboratory to field: OsNRAMP5-knockdown rice is a promising candidate for Cd phytoremediation in paddy fields.
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Sasaki,A., Yamaji,N., Yokosho,K. and Ma,J.F.
Plant Cell 2012 24(5) 2155-2167
Nramp5 is a major transporter responsible for manganese and cadmium uptake in rice
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Ishimaru Y., Bashir K., Nakanishi H., Nishizawa N.K.
Plant Signal Behav 2012 7(7) 1-4
OsNRAMP5, a major player for constitutive iron and manganese uptake in rice.
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Ishimaru Y., Takahashi R., Bashir K., Shimo H., Senoura T., Sugimoto K., Ono K., Yano M., Ishikawa S., Arao T., Nakanishi H., Nishizawa N.K.
Sci Rep 2012 2 286
Characterizing the role of rice NRAMP5 in Manganese, Iron and Cadmium Transport.
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Ishikawa S., Ishimaru Y., Igura M., Kuramata M., Abe T., Senoura T., Hase Y., Arao T., Nishizawa N.K., Nakanishi H.
Proc. Natl. Acad. Sci. U.S.A. 2012 109(47) 19166-71
Ion-beam irradiation, gene identification, and marker-assisted breeding in the development of low-cadmium rice.
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Takahashi R. , Ishimaru Y. , Senoura T. , Shimo H. , Ishikawa S. , Arao T. , Nakanishi H. , Nishizawa N.K.
J. Exp. Bot. 2011 -
The OsNRAMP1 iron transporter is involved in Cd accumulation in rice.
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Narayanan NN, Vasconcelos MW, Grusak MA.
Plant Physiol. Biochem. 2007 45(5) 277-86.
Expression profiling of Oryza sativa metal homeostasis genes in different rice cultivars using a cDNA macroarray.
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DB Reference
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Gramene ID
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-
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Ontologies
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Gene Ontology
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response to manganese ion( GO:0010042 )
response to oxidative stress( GO:0006979 )
response to lead ion( GO:0010288 )
response to phenylalanine( GO:0080053 )
response to symbiotic bacterium( GO:0009609 )
iron ion transport( GO:0006826 )
respiratory burst during defense response( GO:0002679 )
response to molecule of bacterial origin( GO:0002237 )
defense response to bacterium( GO:0042742 )
cadmium ion transmembrane transport( GO:0070574 )
manganese ion transport( GO:0006828 )
response to organic substance( GO:0010033 )
L-phenylalanine biosynthetic process( GO:0009094 )
threonine biosynthetic process( GO:0009088 )
alanine biosynthetic process( GO:0006523 )
phloem transport( GO:0010233 )
plasma membrane( GO:0005886 )
glutamate biosynthetic process( GO:0006537 )
response to temperature stimulus( GO:0009266 )
temperature compensation of the circadian clock( GO:0010378 )
circadian rhythm( GO:0007623 )
metal ion transport( GO:0030001 )
integral to membrane( GO:0016021 )
ion transport( GO:0006811 )
iron ion homeostasis( GO:0055072 )
cadmium ion transport( GO:0015691 )
response to cadmium ion( GO:0046686 )
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Trait Ontology
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stigma exsertion( TO:0000044 )
temperature response trait( TO:0000432 )
amino acid content( TO:0002673 )
grain size( TO:0000397 )
forage yield( TO:0000388 )
manganese content( TO:0020091 )
bacterial leaf streak disease resistance( TO:0000203 )
chlorophyll content( TO:0000495 )
chlorophyll-a content( TO:0000293 )
chlorophyll-b content( TO:0000295 )
leaf color( TO:0000326 )
plant height( TO:0000207 )
hydrogen peroxide content( TO:0000605 )
sugar content( TO:0000333 )
micronutrient sensitivity( TO:0000080 )
shoot dry weight( TO:0000552 )
shoot fresh weight( TO:0000571 )
root dry weight( TO:0000078 )
root fresh weight( TO:0000578 )
relative root dry weight( TO:0000644 )
relative shoot dry weight( TO:0000636 )
relative plant height( TO:0001034 )
root length( TO:0000227 )
relative root length( TO:0000516 )
relative chlorophyll content( TO:0001016 )
photosynthetic ability( TO:0000316 )
oxidative stress( TO:0002657 )
manganese sensitivity( TO:0000073 )
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Plant Ontology
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exodermis( PO:0005772 )
root endodermis( PO:0005059 )
seed development stage( PO:0001170 )
seed maturation stage( PO:0007632 )
endosperm development stage( PO:0007633 )
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Related Strains
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Phenotype images
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Last updated
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Mar 17, 2026
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Update info.