As per most of these Satoru Iwata is the host..

Pokemon X /Y is hightlighted first for the 3DS and to come October 12th, 2013.
Super Mario 3D World is announced for this December. It's is four player co-op capable.
Mario Kart 8 is officially announced. The game is built around anti-gravity as you will be defying gravity by racing upside down in certain instances. Release window is spring 2014.
Wii Party U is announced for October which can be played with just the gamepad.
Wii Fit U will be pushed back from its original date to December.
Nintendo Wii U shop to have an app that enhances its Miiverse drawing capabilities.
A third party montage is played which includes Assassin's Creed IV: Black Flag, Batman: Arkham Origins, Deus Ex: Human Revolution Director's Cut, Disney Infinity, Disney Planes, Just Dance 2014, Rayman Legends, Scribblenauts Unmasked, Skylanders: Swap Force, Sonic Lost World, Splinter Cell: Blacklist and Watch Dogs.

An E-Shop montage trailer is played.
The Legend of Zelda: Windwaker HD for Wii U is shown with an updated trailer an release window of October 2013.
Next up is an updated look at Pikmin 3.
A new trailer for The Wonderful 101 is shown with a release date of September 15th, 2013.
Next is a trailer of the newly announced Donkey Kong Country: Tropical Freeze for the Wii U. The game first "dynamic camera experiences". The release window is slated for November 2013.
Brand new footage of Bayonetta 2 is shown via a new trailer. A short gameplay trailer is also shown with a release in 2014.
A trailer for a newly announced game X from developer Monolith Soft 2014.
Finally a trailer for a new Super Smash Brothers for the Wii U and 3DS is shown. Mega Man is also revealed to be in the game. Release window is slated for 2014.

E3 2013 Video: Nintendo

E3 2013: Nintendo Direct Rundown