| Summary: | Simple sequence repeats (SSRs) are widely used as markers for the assessment of genetic diversity and marker-assisted breeding. In a previous study, two SSRs (GCA and CCA), were found in the genomic sequence of <i>Larix</i> (<i>La</i>) <i>SCL6</i>, which plays important roles in the growth and development of <i>Larix kaempferi</i> (Lamb.) Carr. In this study, we analyzed the polymorphisms of these two SSRs in the <i>L. kaempferi</i> population. We found that each SSR had five different polymorphisms, among which (GCA)<sub>7</sub> and (CCA)<sub>7</sub> were predominant. In addition, 12 haplotypes were detected, with (GCA)<sub>7</sub>(CCA)<sub>7</sub> having the highest frequency. Furthermore, we detected the haplotypes of <i>LaSCL6</i> in mature trees and their seeds and analyzed the relationships between parents and offspring. The expression patterns of five <i>LaSCL6</i> alleles were analyzed and they showed balanced expression during vegetative development. Taken together, these findings not only provide more genetic information on <i>LaSCL6</i>, but also provide a candidate marker for genetic studies and breeding.
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