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Basic Information
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CGSNL Gene Symbol
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4CL3
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Gene Symbol Synonym
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Os4CL3, Os4CL2, Os4CL, 4CL2, 4CL
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CGSNL Gene Name
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4-COUMARATE:COENZYME A LIGASE 3
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Gene Name Synonym
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4-coumarate:coenzyme A ligase 3, 4-hydroxycinnamate CoA ligase 2
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Protein Name
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4-COUMARATE:COENZYME A LIGASE 3
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Allele
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os4cl3
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Chromosome No.
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2
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Explanation
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Q6ETN3. EC 6.2.1.12. Os4CL3 participates in defense against wounding. 4CL (4-coumarate-CoA Ligase 1) in Rebecca et al. 2010. 4CL2 in Koshiba et al. 2013. GO:1901698: response to nitrogen compound. TO:0000930: seed shattering.
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Trait Class
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Biochemical character
Vegetative organ - Culm
Seed - Physiological traits - Shattering
Tolerance and resistance - Disease 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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AK070083
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MSU ID
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LOC_Os02g08100.1
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RAP ID
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Os02g0177600
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Links
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Oryzabase Chromosome View
(
IRGSP 1.0
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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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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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Wu X., Yang L., Han J., Liu H., Chen G., Wang H., Feng X., Zhang W., Liu K., Zhang Z.
BMC Genomics 2025 26(1) 792
Integrated transcriptomic and metabolomic analysis unveils heat-tolerance-associated flavonoid metabolites and genes in the rice REL1-D mutant.
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Zhang C., Jian L., Guan T., Wang Y., Pang H., Xu Y., Xing Y., Wang J., Kang Z., Zhao J.
PLoS Genet. 2025 21(5) e1011679
Coordinated transcriptomic and metabolomic responses in rice reveal lignin-based physical barriers as key mechanisms of nonhost resistance to rust fungi.
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Wu H., He Q., He B., He S., Zeng L., Yang L., Zhang H., Wei Z., Hu X., Hu J., Zhang Y., Shang L., Wang S., Cui P., Xiong G., Qian Q., Wang Q.
Plant Cell 2023
Gibberellin signaling regulates lignin biosynthesis to modulate rice seed shattering.
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Zhang L., Zheng L., Wu J., Liu Y., Liu W., He G., Wang N.
Rice (N Y) 2023 16(1) 10
osccrl1 is Essential for Phenylpropanoid Metabolism in Rice Anthers.
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Liu Y., Zhang W., Wang Y., Xie L., Zhang Q., Zhang J., Li W., Wu M., Cui J., Wang W., Zhang Z.
Front Plant Sci 2022 13 1054917
<i>Nudix hydrolase 14</i> influences plant development and grain chalkiness in rice.
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Xue J., Lu D., Wang S., Lu Z., Liu W., Wang X., Fang Z., He X.
Sci Rep 2021 11(1) 14083
Integrated transcriptomic and metabolomic analysis provides insight into the regulation of leaf senescence in rice.
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Chen H., Fang R., Deng R., Li J.
Plant Biotechnol. J. 2021
The OsmiRNA166b-OsHox32 pair regulates mechanical strength of rice plants by modulating cell wall biosynthesis.
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Sun X., Ma Y., Yang C., Li J.
Plant Mol. Biol. 2020 104(3) 249-261
Rice OVATE family protein 6 regulates leaf angle by modulating secondary cell wall biosynthesis.
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Liu X.L., Wang L., Wang X.W., Yan Y., Yang X.L., Xie M.Y., Hu Z., Shen X., Ai H., Lin H.H., Xu G.H., Yang J., Sun S.B.
Plant J. 2020 102(1) 53-67
Mutation of the chloroplast-localized phosphate transporter OsPHT2;1 reduces flavonoid accumulation and UV tolerance in rice.
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Zhao K., Lin F., Romero-Gamboa SP., Saha P., Goh H.J., An G., Jung K.H., Hazen S.P., Bartley L.E.
Front Plant Sci 2019 10 1275
Rice Genome-Scale Network Integration Reveals Transcriptional Regulators of Grass Cell Wall Synthesis.
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Kishi-Kaboshi M., Seo S., Takahashi A., Hirochika H.
Plant Cell Physiol. 2018 59(5) 903-915
The MAMP-Responsive MYB Transcription Factors MYB30, MYB55 and MYB110 Activate the HCAA Synthesis Pathway and Enhance Immunity in Rice.
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Zhang W., Wu L., Ding Y., Yao X., Wu X., Weng F., Li G., Liu Z., Tang S., Ding C., Wang S.
J. Plant Res. 2017
Nitrogen fertilizer application affects lodging resistance by altering secondary cell wall synthesis in japonica rice (Oryza sativa).
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Zhao S., Zhao L., Liu F., Wu Y., Zhu Z., Sun C., Tan L.
J Integr Plant Biol 2016 58(12) 983-996
NARROW AND ROLLED LEAF 2 regulates leaf shape, male fertility, and seed size in rice.
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Noda S., Koshiba T., Hattori T., Yamaguchi M., Suzuki S., Umezawa T.
Planta 2015 242(3) 589-600
The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
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Ogo Y., Ozawa K., Ishimaru T., Murayama T., Takaiwa F.
Plant Biotechnol. J. 2013 11(6) 734-46
Transgenic rice seed synthesizing diverse flavonoids at high levels: a new platform for flavonoid production with associated health benefits.
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Park H.L., Lee S.W., Jung K.H., Hahn T.R., Cho M.H.
Phytochemistry 2013 96 57-71
Transcriptomic analysis of UV-treated rice leaves reveals UV-induced phytoalexin biosynthetic pathways and their regulatory networks in rice.
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Sun H., Li Y., Feng S., Zou W., Guo K., Fan C., Si S., Peng L.
Biochem. Biophys. Res. Commun. 2013 430(3) 1151-6
Analysis of five rice 4-coumarate:coenzyme A ligase enzyme activity and stress response for potential roles in lignin and flavonoid biosynthesis in rice.
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Koshiba T.a, Hirose N.a, Mukai M.a, Yamamura M.a, Hattori T.a d, Suzuki S.a, Sakamoto M.b, Umezawa T.a c
Plant Biotechnology 2013 30 157-167
Characterization of 5-hydroxyconiferaldehyde O-methyltransferase in Oryza sativa
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Madana M R Ambavaram, Krishnan A., Kurniawan R Trijatmiko, Pereira A.
Plant Physiol. 2011 155(2) 916-31
Coordinated activation of cellulose and repression of lignin biosynthesis pathways in rice.
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Gui J., Shen J., Li L.
Plant Physiol. 2011 157(2) 574-86
Functional characterization of evolutionarily divergent 4-coumarate:coenzyme a ligases in rice.
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Rebecca S Bart, Chern M., Miguel E Vega-Sánchez, Canlas P., Pamela C Ronald
PLoS Genet. 2010 6(9) e1001123
Rice Snl6, a cinnamoyl-CoA reductase-like gene family member, is required for NH1-mediated immunity to Xanthomonas oryzae pv. oryzae.
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Clarice de Azevedo Souza, Barbazuk B., Steven G Ralph, Bohlmann J., Hamberger B., Carl J Douglas
New Phytol. 2008 179(4) 987-1003
Genome-wide analysis of a land plant-specific acyl:coenzyme A synthetase (ACS) gene family in Arabidopsis, poplar, rice and Physcomitrella.
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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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4-coumarate-CoA ligase activity( GO:0016207 )
lignan biosynthetic process( GO:0009807 )
response to UV( GO:0009411 )
phenylpropanoid metabolic process( GO:0009698 )
ATP binding( GO:0005524 )
secondary cell wall biogenesis( GO:0009834 )
lignin biosynthetic process( GO:0009809 )
defense response to fungus( GO:0050832 )
cell wall thickening( GO:0052386 )
flavonoid biosynthetic process( GO:0009813 )
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Trait Ontology
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UV light sensitivity( TO:0000160 )
lignin content( TO:0000731 )
nitrogen sensitivity( TO:0000011 )
stem strength( TO:0000051 )
lignin biosynthesis trait( TO:0000733 )
blast disease( TO:0000074 )
grain shattering( TO:0000473 )
fruit senescing quality trait( TO:0002729 )
fungal disease resistance( TO:0000439 )
flavonoid content( TO:0000290 )
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Plant Ontology
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Related Strains
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Phenotype images
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Last updated
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Dec 9, 2025
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Update info.