<?php
// Put here the database connection
 
$qOptions1 = mysql_query("SELECT * FROM Options1");
 
foreach (mysql_fetch_row($qOptions1) as $val){
	$aOptions1[] = $val; // generate the array for you with the options
}
// Do also with the options2 and 3
 
$count1 = count($aOptions1);
$count2 = count($aOptions2);
$count3 = ..
 
// You could  this also do with a foreach..
for ($a=0; $a < $count1; $a++){
	for ($b=0; $b < $count2; $b++){
		for ($c=0; $c < $count3; $c++){.
			$options = $aOptions1[$a] . $aOptions2[$b] . $aOptions3[$c];
		}
	}
}
// The answer you asked, should be something like above. Its a little rumble, and garbage what I typed, but gives you THE idea.
?>

Array
(
    [0] => Array
        (
            [Color] => Array
                (
                    [0] => Array
                        (
                            [id] => 1
                            [value] => Small
                        )

                    [1] => Array
                        (
                            [id] => 2
                            [value] => Medium
                        )

                )

        )

    [1] => Array
        (
            [Size] => Array
                (
                    [0] => Array
                        (
                            [id] => 3
                            [value] => SMall
                        )

                    [1] => Array
                        (
                            [id] => 4
                            [value] => Medium
                        )

                    [2] => Array
                        (
                            [id] => 5
                            [value] => Large
                        )

                )

        )

    [2] => Array
        (
            [Shape] => Array
                (
                    [0] => Array
                        (
                            [id] => 6
                            [value] => Square
                        )

                    [1] => Array
                        (
                            [id] => 7
                            [value] => Circle
                        )

                    [2] => Array
                        (
                            [id] => 8
                            [value] => Triangle
                        )

                )

        )
)