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Basic Information
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CGSNL Gene Symbol
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GCC7
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Gene Symbol Synonym
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HMA3, OsHMA3, OsHMA3a, OsHMA3n, osHMA3, OsHMP34, HMP34
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CGSNL Gene Name
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GRAIN CD CONCENTRATION ON CHROMOSOME 7
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Gene Name Synonym
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heavy metal ATPase 3, heavy metal transporter 3, heavy metal P-Type ATPase 3, heavy metal P1B-ATPase 3, grain Cd concentration on chromosome 7, Heavy metal-associated protein 34
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Protein Name
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HEAVY METAL ATPASE 3
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Allele
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GCC7PA64s, GCC793-11, OsHMA3W0, OsHMA3W4, OsHMA3Nip, OsHMA3-35, OsHMA3AD, OsHMA3LAA, OsHMA3WSSM, OsHMA393-11
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Chromosome No.
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7
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Explanation
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AB559518, AB559519, AB559520, AB559521, AB559522. P1B-ATPase transporter. a vacuolar cadmium (Cd) transporter. associated with root median metaxylem diameter. TO:0006059: cadmium concentration. TO:0006059: cadmium content trait. GO:0071585 detoxification of cadmium ion. TO:0006052:copper concentration. TO:0006048: manganese concentration. TO:0020096: mineral and ion transport trait. GO:1990170: stress response to cadmium ion.
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Trait Class
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Vegetative organ - Root
Tolerance and resistance
Tolerance and resistance - Stress tolerance
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Expression
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Sequence/Locus
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cDNA Accession No.
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AB557931
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MSU ID
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LOC_Os07g12900.1
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RAP ID
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Os07g0232900
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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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Tang L., Wang J., Ji Z., Li X., Liu X., Lv Q., Wei P., Hu X., Li Y., Mao B., Shao Y., Peng Y., Wei Z., Bai L., Chen C., Zhao B.
Plant Commun 2026 7(4) 101690
Pyramiding elite alleles of the genetically linked OsNRAMP5 and OsHMA3 confers low Cd accumulation in rice grains without compromising stress tolerance.
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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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Sun L., Ghouri F., Jin J., Zhong M., Huang W., Lu Z., Wu J., Liu X., Shahid M.Q.
Rice (N Y) 2025 18(1) 19
Interspecific Hybridization Enhanced Tolerance to Salinity and Cadmium Stress Through Modifying Biochemical, Physiological, and Resistance Gene Levels, Especially in Polyploid Rice: A Sustainable Way for Stress-Resilient Rice.
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Gui Y., Teo J., Tian D., Yin Z.
J. Exp. Bot. 2024 75(7) 2143-2155
Genetic engineering low-arsenic and low-cadmium rice grain.
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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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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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Siangliw J.L., Thunnom B., Natividad M.A., Quintana M.R., Chebotarov D., McNally K.L., Lynch J.P., Brown K.M., Henry A.
Front Plant Sci 2022 13 1008954
Response of Southeast Asian rice root architecture and anatomy phenotypes to drought stress.
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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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Zhong S., Li X., Li F., Liu T., Huang F., Yin H., Chen G., Cui J.
Environ. Sci. Technol. 2021 55(19) 12902-12913
Water Management Alters Cadmium Isotope Fractionation between Shoots and Nodes/Leaves in a Soil-Rice System.
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Wang H.Q., Xuan W., Huang X.Y., Mao C., Zhao F.J.
Plant Cell Physiol. 2021 62(1) 166-177
Cadmium Inhibits lateral root Emergence in Rice by Disrupting OsPIN-mediated Auxin Distribution and the Protective Effect of OsHMA3.
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Ruang-Areerate P., Travis A.J., Pinson S.R.M., Tarpley L., Eizenga G.C., Guerinot M.L., Salt D.E., Douglas A., Price A.H., Norton G.J.
Heredity 2021 126(3) 505-520
Genome-wide association mapping for grain manganese in rice (Oryza sativa L.) using a multi-experiment approach.
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Maghrebi M., Baldoni E., Lucchini G., Vigani G., Valè G., Sacchi G.A., Nocito F.F.
Plants (Basel) 2021 10(4)
Analysis of Cadmium Root Retention for Two Contrasting Rice Accessions Suggests an Important Role for <i>OsHMA2</i>.
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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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Zhang S., Li Q., Nazir M.M., Ali S., Ouyang Y., Ye S., Zeng F.
Int J Mol Sci 2020 21(21)
Calcium Plays a Double-Edged Role in Modulating Cadmium Uptake and Translocation in Rice.
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Li J., Zhang M., Sun J., Mao X., Wang J., Liu H., Zheng H., Li X., Zhao H., Zou D.
Front Genet 2020 11 477
Heavy Metal Stress-Associated Proteins in Rice and <i>Arabidopsis</i>: Genome-Wide Identification, Phylogenetics, Duplication, and Expression Profiles Analysis.
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Majumdar S., Sachdev S., Kundu R.
Ecotoxicol. Environ. Saf. 2020 205 111167
Salicylic acid mediated reduction in grain cadmium accumulation and amelioration of toxicity in Oryza sativa L. cv Bandana.
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Liu C.L., Gao Z.Y., Shang L.G., Yang C.H., Ruan B.P., Zeng D.L., Guo L.B., Zhao F.J., Huang C.F., Qian Q.
J Integr Plant Biol 2019
Natural variation in the promoter of OsHMA3 contributes to differential grain cadmium accumulation between Indica and Japonica rice.
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Sui F., Zhao D., Zhu H., Gong Y., Tang Z., Huang X.Y., Zhang G., Zhao F.J.
J. Exp. Bot. 2019 70(10) 2857-2871
Map-based cloning of a new total loss-of-function allele of OsHMA3 causes high cadmium accumulation in 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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Ding Y., Gong S., Wang Y., Wang F., Bao H., Sun J., Cai C., Yi K., Chen Z., Zhu C.
Plant Physiol. 2018 177(4) 1691-1703
MicroRNA166 Modulates Cadmium Tolerance and Accumulation in Rice.
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Shao J.F., Xia J., Yamaji N., Shen R.F., Ma J.F.
J. Exp. Bot. 2018 69(10) 2743-2752
Effective reduction of cadmium accumulation in rice grain by expressing OsHMA3 under the control of the OsHMA2 promoter.
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Yu C., Sun C., Shen C., Wang S., Liu F., Liu Y., Chen Y., Li C., Qian Q., Aryal B., Geisler M., Jiang de A., Qi Y.
Plant J. 2015 83(5) 818-30
The auxin transporter, OsAUX1, is involved in primary root and root hair elongation and in Cd stress responses in rice (Oryza sativa L.).
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Sasaki A., Yamaji N., Ma J.F.
J. Exp. Bot. 2014 65(20) 6013-21
Overexpression of OsHMA3 enhances Cd tolerance and expression of Zn transporter genes in rice.
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Kumagai S., Suzuki T., Tezuka K., Satoh-Nagasawa N., Takahashi H., Sakurai K., Watanabe A., Fujimura T., Akagi H.
FEBS Lett. 2014 588(5) 789-94
Functional analysis of the C-terminal region of the vacuolar cadmium-transporting rice OsHMA3.
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Takahashi R., Bashir K., Ishimaru Y., Nishizawa N.K., Nakanishi H.
Plant Signal Behav 2012 7(12)
The role of heavy-metal ATPases, HMAs, in zinc and cadmium transport in rice.
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Oda K., Otani M., Uraguchi S., Akihiro T., Fujiwara T.
Bioscience, Biotechnology and Biochemistry 2011 75 1211-1213
Rice ABCG43 is Cd inducible and confers Cd tolerance on yeast
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Nocito,F.F., Lancilli,C., Dendena,B., Lucchini,G. and Sacchi,G.A.
Plant Cell Environ. 2011 34(6) 994-1008
Cadmium retention in rice roots is influenced by cadmium availability, chelation and translocation
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Ueno D. , Koyama E. , Yamaji N. , Ma J.F.
J. Exp. Bot. 2011 62(7) 2265-72
Physiological, genetic, and molecular characterization of a high-Cd-accumulating rice cultivar, Jarjan.
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Ishikawa S., Suzui N., Ito-Tanabata S., Ishii S., Igura M., Abe T., Kuramata M., Kawachi N., Fujimaki S.
BMC Plant Biol. 2011 11(1) 172
Real-time imaging and analysis of differences in cadmium dynamics in rice cultivars (Oryza sativa) using positron-emitting 107Cd tracer.
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Miyadate,H., Adachi,S., Hiraizumi,A., Tezuka,K., Nakazawa,N., Kawamoto,T., Katou,K., Kodama,I., Sakurai,K., Takahashi,H., Satoh-Nagasawa,N., Watanabe,A., Fujimura,T. and Akagi,H.
New Phytol. 2011 189(1) 190-199
OsHMA3, a P1B-type of ATPase affects root-to-shoot cadmium translocation in rice by mediating efflux into vacuoles
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Ueno D,Yamaji N,Kono I,Huang CF,Ando T,Yano M,Ma JF
Proc. Natl. Acad. Sci. U.S.A. 2010 107(38) 16500-5
Gene limiting cadmium accumulation in rice.
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Baxter I., Tchieu J., Michael R Sussman, Boutry M., Michael G Palmgren, Gribskov M., Jeffrey F Harper, Kristian B Axelsen
Plant Physiol. 2003 132(2) 618-28
Genomic comparison of P-type ATPase ion pumps in Arabidopsis and rice.
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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 calcium ion( GO:0051592 )
vacuolar transport( GO:0007034 )
ATP biosynthetic process( GO:0006754 )
ATP binding( GO:0005524 )
response to cadmium ion( GO:0046686 )
metal ion transmembrane transporter activity( GO:0046873 )
membrane( GO:0016020 )
metal ion binding( GO:0046872 )
integral to membrane( GO:0016021 )
ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism( GO:0015662 )
response to salicylic acid stimulus( GO:0009751 )
cadmium ion transport( GO:0015691 )
cadmium ion transmembrane transport( GO:0070574 )
response to manganese ion( GO:0010042 )
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Trait Ontology
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plant growth hormone sensitivity( TO:0000401 )
root anatomy and morphology trait( TO:0000043 )
relative shoot dry weight( TO:0000636 )
relative plant height( TO:0001034 )
manganese sensitivity( TO:0000073 )
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Plant Ontology
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root( PO:0009005 )
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Related Strains
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Phenotype images
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Last updated
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Aug 31, 2026
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Update info.