Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol SHO1
Gene Symbol Synonym sho1, DCL4, OsDCL4, Os DCL4, Dcl4
Gene Name Synonym shoot organization 1, shoot organization-1, shoot organization1, Endoribonuclease Dicer homolog 4, Dicer-like protein 4, Protein SHOOT ORGANIZATION 1, Oryza sativa dicer-like4, Oryza sativa dicer-like 4, Dicer like 4
Allele sho1-1, sho1-2, sho1-3, sho1-4,sho1-5, sho1-6, sho1-7, sho1-8, Osdcl4-1
Chromosome No. 4
Explanation Dicer-like protein, DICER. EC=3.1.26.-A7LFZ6. PO:0009009; embryo ; PO:0009025; leaf. GRO:0007047; 02-seedling ; GRO:0007044; 06-heading stage ; GRO:0007042; 08-dough stage ; GRO:0007045; 09-mature grain stage ; GRO:0007046; 07-milk stage. an Ortholog of Arabidopsis DCL4. AB353922. EU009924. a predicted lethal-phenotype gene in Lloyd et al. 2015.
Trait Class Vegetative organ - Shoot apical meristem(SAM)
Tolerance and resistance - Disease resistance
Seed - Morphological traits - Embryo
Tolerance and resistance - Stress tolerance
cDNA Accession No. AK066586
MSU ID LOC_Os04g43050.1
RAP ID Os04g0509300
Links Oryzabase Chromosome View ( IRGSP 1.0 / Build5 )
RAP-DB ( IRGSP 1.0 / Build5 )
Related IDs List ( IRGSP 1.0 / Build5 )
INSD Accession List
(Test version)
Link to INSD Accession List
Link map Classical linkage map
Gu X., Si F., Feng Z., Li S., Liang D., Yang P., Yang C., Yan B., Tang J., Yang Y., Li T., Li L., Zhou J., Li J., Feng L., Liu J.Y., Yang Y., Deng Y., Wu X.N., Zhao Z., Wan J., Cao X., Song X., He Z., Liu J.
Nat Commun 2023  14(1)  4441
The OsSGS3-tasiRNA-OsARF3 module orchestrates abiotic-biotic stress response trade-off in rice.
Zhang T., You J., Zhang Y., Yao W., Chen W., Duan Q., Xiao W., Ye L., Zhou Y., Sang X., Ling Y., He G., Li Y.
New Phytol. 2021   
lf1 regulates the lateral organs polarity development in rice.
Li M., Fu D., Xu T., Wu C.
Int J Mol Sci 2021  22(15) 
<i>VPB1</i> Encoding BELL-like homeodomain Protein Is Involved in Rice Panicle Architecture.
Huang J., Wang R., Dai X., Feng J., Zhang H., Zhao P.X.
J. Exp. Bot. 2019  70(6)  1767-1774
A microRNA biogenesis-like pathway for producing phased small interfering RNA from a long non-coding RNA in rice.
Ta K.N., Sabot F., Adam H., Vigouroux Y., De Mita S., Ghesquière A., Do N.V., Gantet P., Jouannic S.
Rice (N Y) 2016  9(1)  10
miR2118-triggered phased siRNAs are differentially expressed during the panicle development of wild and domesticated African rice species.
Lloyd J.P., Seddon A.E., Moghe G.D., Simenc M.C., Shiu S.H.
Plant Cell 2015   
Characteristics of Plant Essential Genes Allow for within- and between-Species Prediction of Lethal Mutant Phenotypes.
Zhang D., Liu M., Tang M., Dong B., Wu D., Zhang Z., Zhou B.
Plant Sci. 2015  237  24-32
Repression of microRNA biogenesis by silencing of OsDCL1 activates the basal resistance to Magnaporthe oryzae in rice.
Komiya R., Ohyanagi H., Niihama M., Watanabe T., Nakano M., Kurata N., Nonomura K.I.
Plant J. 2014  78(3)  385-97
Rice germline-specific Argonaute MEL1 protein binds to phasiRNAs generated from more than 700 lincRNAs.
Song X., Wang D., Ma L., Chen Z., Li P., Cui X., Liu C., Cao S., Chu C., Tao Y., Cao X.
Plant J. 2012  71(3)  378-89
Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
Song X., Li P., Zhai J., Zhou M., Ma L., Liu B., Jeong D.H., Nakano M., Cao S., Liu C., Chu C., Wang X.J., Green P.J., Meyers B.C., Cao X.
Plant J. 2012  69(3)  462-74
Roles of DCL4 and DCL3b in rice phased small RNA biogenesis.
Abe M,Yoshikawa T,Nosaka M,Sakakibara H,Sato Y,Nagato Y,Itoh JI
Plant Physiol. 2010  154(3)  1335-46
WAVY LEAF 1, an Ortholog of Arabidopsis HEN1, Regulates Shoot Development by Maintaining microRNA and trans-acting siRNA Accumulation in Rice.
Liu,B., Chen,Z., Song,X., Liu,C., Cui,X., Zhao,X., Fang,J., Xu,W., Zhang,H., Wang,X., Chu,C., Deng,X., Xue,Y. and Cao,X.
Plant Cell 2007  19(9)  2705-2718
Oryza sativa Dicer-like4 Reveals a Key Role for Small Interfering RNA Silencing in Plant Development
Nagasaki H, Itoh J, Hayashi K, Hibara K, Satoh-Nagasawa N, Nosaka M, Mukouhata M, Ashikari M, Kitano H, Matsuoka M, Nagato Y, Sato Y.
Proc. Natl. Acad. Sci. U.S.A. 2007  104(37)  14867-71
The small interfering RNA production pathway is required for shoot meristem initiation in rice.
Itoh, J.-I., Kitano, H., Matsuoka, M. and Nagato, Y.
Plant Cell 2000  12  2161-2174
SHOOT ORGANIZATION genes regulate shoot apical meristem organization and the pattern of leaf primordium initiation in rice.
Mukohhata, M., M. Ashikari, M. Miwa, T. Sasaki, Y. Nagato, H. Kitano and M. Matsuoka
RGN 2000  17  24-26
High resolution mapping of a rice gene affecting shoot organization, SHO1.
Itoh, J., H. Kitano and Y. Nagato
RGN 1996  13  100-102.
Genes affecting shoot apical meristem and leaf primordia differentiation.
Hong, S.K., T, Aoki, H. Kitano, H. Satoh and Y. Nagato
Dev Genet. 1995  16  298-310.
Phenotypic diversity of 188 rice embryo mutants.
Tamura, Y., Kitano, H., Satoh, H. and Nagato, Y.
Plant Sci. 1992  82  91-99.
A gene profoundly affecting shoot organization in the early phase of rice development.
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DB Reference
Gramene ID GR:0060883,GR:0101252
Gene Ontology response to heat( GO:0009408 )
defense response to bacterium( GO:0042742 )
ATP-dependent helicase activity( GO:0008026 )
serine-type endopeptidase activity( GO:0004252 )
multicellular organismal development( GO:0007275 )
tissue development( GO:0009888 )
production of ta-siRNAs involved in RNA interference( GO:0010267 )
magnesium ion binding( GO:0000287 )
double-stranded RNA binding( GO:0003725 )
ribonuclease III activity( GO:0004525 )
ATP binding( GO:0005524 )
nucleus( GO:0005634 )
organ morphogenesis( GO:0009887 )
defense response to fungus( GO:0050832 )
reproductive structure development( GO:0048608 )
polarity specification of adaxial/abaxial axis( GO:0009944 )
maintenance of shoot apical meristem identity( GO:0010492 )
manganese ion binding( GO:0030145 )
Trait Ontology leaf shape( TO:0000492 )
embryo related trait( TO:0000064 )
blast disease( TO:0000074 )
bacterial blight disease resistance( TO:0000175 )
hydrogen peroxide content( TO:0000605 )
heat tolerance( TO:0000259 )
Plant Ontology plant embryo( PO:0009009 )
vascular leaf( PO:0009025 )
Related Strains
Lethal Embryo Mutation strain 1
Phenotype images
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Photo from Y. Nagato
Last updated
Nov 10, 2023