The _Transepts_ retain, with the exception of the east wall of the southern member, Archbishop Roger's Transitional work, when Norman architecture was slowly developing into Early English. There is a niche on the east side of each transept. A Perpendicular arch forms an entrance to the _North Transept_ from the north aisle, and on the north of this is a round-headed window. The triforium has two broad arches in each bay with a central detached shaft, while the clerestory has three arches, the centre round, the others pointed. In the north wall there are three round-headed windows in the highest stage. The mullions in the windows in the second stage are later insertions. On the east is the Chantry of St. Andrew, the Markenfields' Chapel. Outside the aisle is the effigy of Sir Thomas (1497), with that of his lady, and another Sir Thomas lies in the chapel (notice the armour and collar). This family lost its estates in the rising in the time of Elizabeth. Also there is the monument of Sir Edward Blackett of Newby (1718). The _South Transept_ resembles the north, except that its east side is Perpendicular. The aisle is called the Mallorie Chapel, and there is a tablet to the memory of Sir John Mallorie of Studley, who defended Skipton Castle for Charles I. There are some ancient mural paintings, which may be seen when going to the library.
The _Choir-Screen_ is Perpendicular, and has beautiful enriched tabernacle work. Above the door is a representation of God the Father with angels. Above the screen is the organ. The _Choir_ is a delightful architectural study, as the work of three periods are blended here--Transition Norman, Decorated and Perpendicular. The three western bays on the north are Roger's work, Transitional Norman. The three bays opposite were injured by the fall of the tower and renewed in Perpendicular style. The rest of the choir was renewed in the Decorated style of the fourteenth century. The three bays on the north resemble the work in the transept. The group of vaulting shafts is very fine. The triforium openings are glazed like the clerestory. A change was made in Perpendicular times. Before the triforium arches opened into the aisles, but the roof of these was lowered in 1459, and the openings filled with glass.