Input devices (keyboards, mices, joysticks) pinouts  > Atari pinouts
The Atari ST-series joystick ports are digital input ports.

The Mouse is inserted into Joystick Port 0.

This port shares pin 9 with pin 6 of Joystick Port 1 (fire button).

 

Pin Color Dir Mouse Joystick0 Joystick1
1 WHT <-- XB   Up Up
2 BLU <-- XA   Down Down
3 GRN <-- YA   Left Left
4 BWN <-- YB   Right Right
5 RED   n/c   n/c n/c
6 ORG <-- Left Button   Fire Fire
7   --> VCC   VCC VCC
8 BLK --- GND   GND GND
9 YLW <-- Right Button   (Joy1 Fire) n/c

The ST-series joystick ports are compatible with Atari 2600 and Atari 7800

Paddles are not supported, though and unlike the XL/XE, the ST can not control the outputs of the first 4 port pins.

9 pin D-SUB female connector layout
9 pin D-SUB female connector
at the Joystick
9 pin D-SUB male connector layout
9 pin D-SUB male connector
at the Atari ST/TT/STe/MSTe
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Source(s) of this and additional information: http://info-coach.fr/atari/hardware/interfaces.php
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