diff --git a/js/web/lib/wasm/jsep/webgpu/ops/common.ts b/js/web/lib/wasm/jsep/webgpu/ops/common.ts
index 0a64d1ad1792a..1d3fc78fe368a 100644
--- a/js/web/lib/wasm/jsep/webgpu/ops/common.ts
+++ b/js/web/lib/wasm/jsep/webgpu/ops/common.ts
@@ -803,3 +803,6 @@ export const getBroadcastDims = (inShape: readonly number[], outShape: readonly
   }
   return dims;
 };
+
+// TODO: remove this limitation once >4D dims are supported by uniform.
+export const enableShapesUniforms = (rank: number): boolean => rank <= 4;
diff --git a/js/web/lib/wasm/jsep/webgpu/ops/conv-transpose.ts b/js/web/lib/wasm/jsep/webgpu/ops/conv-transpose.ts
index d241b8b92a669..e880afe09a5d8 100644
--- a/js/web/lib/wasm/jsep/webgpu/ops/conv-transpose.ts
+++ b/js/web/lib/wasm/jsep/webgpu/ops/conv-transpose.ts
@@ -232,7 +232,7 @@ const convTranspose2d =
       // STEP.1: transpose weight
       const transposedWeight = (context.kernelCustomData.wT as TensorView | undefined) ??
           context.compute(
-              createTransposeProgramInfo(inputs[1].dataType, inputs[1].dims.length, weightTransposePerm),
+              createTransposeProgramInfo(inputs[1], weightTransposePerm),
               {inputs: [1], outputs: [attributes.wIsConst ? -2 : -1]})[0];
       if (attributes.wIsConst && !context.kernelCustomData.wT) {
         context.kernelCustomData.wT = transposedWeight;
diff --git a/js/web/lib/wasm/jsep/webgpu/ops/conv.ts b/js/web/lib/wasm/jsep/webgpu/ops/conv.ts
index b323a36cee5c8..c7ea0cffe51c3 100644
--- a/js/web/lib/wasm/jsep/webgpu/ops/conv.ts
+++ b/js/web/lib/wasm/jsep/webgpu/ops/conv.ts
@@ -168,7 +168,7 @@ const conv2d = (context: ComputeContext, inputs: readonly TensorView[], attribut
     if (isChannelsLast) {
       const transposedWeight = (context.kernelCustomData.wT as TensorView | undefined) ??
           context.compute(
-              createTransposeProgramInfo(inputs[1].dataType, inputs[1].dims.length, weightTransposeAttribute),
+              createTransposeProgramInfo(inputs[1], weightTransposeAttribute),
               {inputs: [1], outputs: [attributes.wIsConst ? -2 : -1]})[0];
       if (attributes.wIsConst && !context.kernelCustomData.wT) {
         context.kernelCustomData.wT = transposedWeight;
@@ -208,7 +208,7 @@ const conv2d = (context: ComputeContext, inputs: readonly TensorView[], attribut
   // STEP.1: transpose weight
   const transposedWeight = (context.kernelCustomData.wT as TensorView | undefined) ??
       context.compute(
-          createTransposeProgramInfo(inputs[1].dataType, inputs[1].dims.length, weightTransposeAttribute),
+          createTransposeProgramInfo(inputs[1], weightTransposeAttribute),
           {inputs: [1], outputs: [attributes.wIsConst ? -2 : -1]})[0];
   if (attributes.wIsConst && !context.kernelCustomData.wT) {
     context.kernelCustomData.wT = transposedWeight;
diff --git a/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts b/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
index fe556a7fd8552..c4d43e9f466f5 100644
--- a/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
+++ b/js/web/lib/wasm/jsep/webgpu/ops/transpose.ts
@@ -6,7 +6,7 @@ import {ShapeUtil} from '../../util';
 import {AttributeWithCacheKey, createAttributeWithCacheKey} from '../attribute-with-cache-key';
 import {ComputeContext, ProgramInfo} from '../types';
 
-import {createTensorShapeVariables, IndicesHelper, inputVariable, outputVariable, ShaderHelper} from './common';
+import {createTensorShapeVariables, enableShapesUniforms, IndicesHelper, inputVariable, outputVariable, ShaderHelper} from './common';
 
 export interface TransposeAttributes extends AttributeWithCacheKey {
   readonly perm: number[];
@@ -35,13 +35,18 @@ const permFunctionBody = (perm: number[], rank: number, input: IndicesHelper, ou
   return reverseFunc.join('\n');
 };
 
-export const createTransposeProgramInfo =
-    (inputDataType: number, inputRank: number, permAttr: number[]): ProgramInfo => {
-      const perm = getAdjustedPerm(inputRank, permAttr);
-      const output = outputVariable('output', inputDataType, (permAttr && permAttr.length) || inputRank);
-      const input = inputVariable('a', inputDataType, inputRank);
+export const createTransposeProgramInfo = (inputTensor: TensorView, permAttr: number[]): ProgramInfo => {
+  const inputDataType = inputTensor.dataType;
+  const inputRank = inputTensor.dims.length;
+  const perm = getAdjustedPerm(inputRank, permAttr);
+  const useShapesUniforms = enableShapesUniforms(inputRank);
+  const outputShape = getOutputShape(inputTensor.dims, perm);
+  const outShapeOrRank = useShapesUniforms ? outputShape.length : outputShape;
+  const inShapeOrRank = useShapesUniforms ? inputRank : inputTensor.dims;
+  const output = outputVariable('output', inputDataType, outShapeOrRank);
+  const input = inputVariable('a', inputDataType, inShapeOrRank);
 
-      const getShaderSource = (shaderHelper: ShaderHelper) => `
+  const getShaderSource = (shaderHelper: ShaderHelper) => `
   ${shaderHelper.registerUniform('output_size', 'u32').declareVariables(input, output)}
 
   ${permFunctionBody(perm, inputRank, input, output)}
@@ -54,30 +59,32 @@ export const createTransposeProgramInfo =
 
     ${output.setByOffset('global_idx', input.getByIndices('aIndices'))}
   }`;
+  return {
+    name: 'Transpose',
+    shaderCache: {hint: `${permAttr}`, inputDependencies: useShapesUniforms ? ['rank'] : ['dims']},
+    getRunData: (inputs) => {
+      const outputSize = ShapeUtil.size(outputShape);
       return {
-        name: 'Transpose',
-        shaderCache: {hint: `${permAttr}`, inputDependencies: ['rank']},
-        getRunData: (inputs) => {
-          const outputShape = getOutputShape(inputs[0].dims, perm);
-          const outputSize = ShapeUtil.size(outputShape);
-          return {
-            outputs: [{dims: outputShape, dataType: inputs[0].dataType}],
-            dispatchGroup: {x: Math.ceil(outputSize / 64 /* workgroup size */)},
-            programUniforms: [
+        outputs: [{dims: outputShape, dataType: inputs[0].dataType}],
+        dispatchGroup: {x: Math.ceil(outputSize / 64 /* workgroup size */)},
+        programUniforms: useShapesUniforms ?
+            [
               {type: 'uint32', data: outputSize},
               ...createTensorShapeVariables(inputs[0].dims),
               ...createTensorShapeVariables(outputShape),
+            ] :
+            [
+              {type: 'uint32', data: outputSize},
             ],
-          };
-        },
-        getShaderSource,
       };
-    };
+    },
+    getShaderSource,
+  };
+};
 
 export const transpose = (context: ComputeContext, attributes: TransposeAttributes): void => {
   validateInputs(context.inputs);
-  context.compute(
-      createTransposeProgramInfo(context.inputs[0].dataType, context.inputs[0].dims.length, attributes.perm));
+  context.compute(createTransposeProgramInfo(context.inputs[0], attributes.perm));
 };
 
 export const parseTransposeAttributes = (attributes: Record<string, unknown>): TransposeAttributes =>
diff --git a/js/web/test/data/ops/transpose.jsonc b/js/web/test/data/ops/transpose.jsonc
index 285d14018e74d..e1edfa7e41513 100644
--- a/js/web/test/data/ops/transpose.jsonc
+++ b/js/web/test/data/ops/transpose.jsonc
@@ -166,5 +166,29 @@
         ]
       }
     ]
+  },
+  {
+    "name": "Transpose 5D - perms:[4, 3, 1, 0, 2]",
+    "operator": "Transpose",
+    "attributes": [{ "name": "perm", "data": [4, 3, 1, 0, 2], "type": "ints" }],
+    "cases": [
+      {
+        "name": "T[3, 1, 2, 1, 4]",
+        "inputs": [
+          {
+            "data": [1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24],
+            "dims": [3, 1, 2, 1, 4],
+            "type": "float32"
+          }
+        ],
+        "outputs": [
+          {
+            "data": [1, 5, 9, 13, 17, 21, 2, 6, 10, 14, 18, 22, 3, 7, 11, 15, 19, 23, 4, 8, 12, 16, 20, 24],
+            "dims": [4, 1, 1, 3, 2],
+            "type": "float32"
+          }
+        ]
+      }
+    ]
   }
 ]