diff --git a/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts b/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
index 21225a77b189b..5059645211aea 100644
--- a/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
+++ b/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
@@ -29,7 +29,9 @@ const permFunctionBody = (perm: number[], rank: number, input: IndicesHelper, ou
   let reverseFunc = `fn perm(i: ${output.type.indices}) -> ${input.type.indices} {
     var a: ${input.type.indices};`;
   for (let i = 0; i < rank; ++i) {
-    reverseFunc += input.indicesSet('a', perm[i], `i[${i}]`);
+    // input indices and output indices should always be larger or equal to 2,
+    // so indexer is always valid to be used on `a` and `i`.
+    reverseFunc += `a[${perm[i]}]=i[${i}];`;
   }
   return (reverseFunc += 'return a;}');
 };
@@ -71,7 +73,7 @@ export const createTransposeProgramInfo = (inputTensor: TensorView, permAttr: nu
   const outputShape = getOutputShape(inputTensor.dims, perm);
   let newInputShape = inputTensor.dims;
   let newOutputShape = outputShape;
-  const transposeAsReshape = isTransposeReshape(perm, inputTensor.dims);
+  const transposeAsReshape = inputRank < 2 || isTransposeReshape(perm, inputTensor.dims);
   let getShaderSource;
   if (transposeAsReshape) {
     getShaderSource = (shaderHelper: ShaderHelper) => {