Edit: I previously had O(nlog(n)) due to a unnecessary binary search.
I thought of a solution, which is technically O(n), where n is the length of the string, but the constant is pretty large.
For simplicity's sake, let's consider an analogous situation with only two letters, A and B (and their lowercase counterparts), and let l be the size of the alphabet for future reference. I worked on an example string ABabBaaA.
We start by computing the prefix counts of the number of occurrences of each letter. In this case, we get
i: 0, 1, 2, 3, 4, 5, 6, 7, 8
----------------------------
A: 0, 1, 1, 1, 1, 1, 1, 1, 2
a: 0, 0, 0, 1, 1, 1, 2, 3, 3
B: 0, 0, 1, 1, 1, 2, 2, 2, 2
b: 0, 0, 0, 0, 1, 1, 1, 1, 1
This way, assuming we are indexing the string starting from 1 (for implementation's sake you can add an extra character to the beginning, like a dollar sign $), we can get the number of occurrences of each letter on any substring in constant time (or rather -- in O(l), but in my case l is set to 2 and in your case l = 26 so technically this is constant time).
OK now we prepare arrays / vectors / queues of character indices, so if the character A appears on indices 1 and 8, the structure will consist of 1 and 8. We get
A: 1, 8
a: 3, 6, 7
B: 2, 5
b: 4
What is important, is that in arrays and vectors, we can look up certain "lowest element greater than" in amortized constant time by discarding indices which are smaller than every index one by one.
Now, the algorithm. Starting at each (left) index greater than 0, we will find the earliest right index for which the substring bound by [left_index, right_index] is balanced. We do that as follows:
Start with left_index = right_index = i for i = 1, ..., n.
Read the array of prefix counts for right_index and subtract the prefix counts for left_index - 1 receiving the counts for the substring [left_index, right_index]. Find any letter, which fails the "balance" check. If there is none, you found the shortest balanced substring starting at left_index.
Find the first occurrence of the "missing" letter, greater than left_index. Set right_index to the index of that occurrence. Go to step 1 keeping the modified right_index.
For example: starting with left_index = right_index = 1 we see that the number of occurrences of each letter in the substring is 1, 0, 0, 0, so a fails the check. The earliest occurrence of a is 3, so we set right_index = 3. We go back to step 1 receiving a new array of occurrences: 1, 1, 1, 0. Now b fails the check, and its earliest occurrence greater than 1 is 4, so we set right_index to 4. We go to step 1 receiving an array of occurrences 1, 1, 1, 1, which passes the balance check.
Another example: starting with left_index = right_index = 2 we get in step 1 an array of occurrences 0, 0, 1, 0. Now b fails the check. The earliest occurrence of b greater than left_index is 4, so we set right_index to 4. Now we get an array of occurrences 0, 1, 1, 1, so A fails the check. The earliest occurrence of A greater than left_index is 8, so we set right_index to that. Now, the array of occurrences is 2-1, 3-0, 2-0, 1-0, which is 1, 3, 2, 1 and it passes the balance check.
Ultimately we will find the shortest balanced substring to be bB with left_index = 4.
The complexity of this algorithm is O(nl^2) because: we start at n different indices and we perform a maximum of l lookups (for l different letters which can fail the check) in O(1). For each lookup, we have to calculate l differences of prefix sums. But as l is constant (albeit it may be large, like 26), this simplifies to O(n).