According to Council Regilation (EC) No. 1083/2006 Operational Programme Transport 2007-2013 is a programme defined at the level of Priority axes, highlighting the most important development directions. OPT has five priority axes, and four of them target particular transport sectors.

The Priority axes of Operational Programme Transport and the respective beneficiaries are:

Priority axis I - Development of railway infrastructure along the major national and Pan-European transport axes

• National Railway Infrastructure Company.

Priority axis II - Development of road infrastructure along the major national and Pan-European transport axes

• National Road Infrastructure Fund.

Priority axis III - Improvement of intermodality for passenger and freight

• Sofia Municipality - "Metropolitan" JSC;
• National Railway Infrastructure Company.

Priority axis IV - Improvement of the maritime and inland-waterway navigation

• Agency for Exploration and Maintenance of Danube River;
• Maritime Administration Executive Agency.

Priority axis V - Technical Assistance

• The Managing authority of OPT;
• All beneficiaries.