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Pantin was born in Blackheath, London and educated at Tonbridge School, 1913-1917. He then served with the Royal Engineers and went up to Christ's College, Cambridge in 1919 to read for the Natural Sciences Tripos. He became Physiologist to the Marine Biological Laboratory, Plymouth in 1922, returning to Cambridge where he had been awarded a Fellowship at Trinity College in 1929. He remained in Cambridge for the rest of his career, becoming Reader in Invertebrates and eventually Professor of Zoology in 1959. He retired in 1966. Pantin had a distinguished research career in zoology, contributing to invertebrate physiology and evolutionary theory.

Pantin was elected FRS in 1937 (Royal Medal 1950, Croonian Lecture 1952).