The eye was the organ of vision. Most humanoids had two placed evenly in sockets of the skull. Some species had more eyes though, like Trag'tok's species, and an unnamed being at Kukulkan's zoo.
All Denobulans had blue-colored eyes. (ENT: "The Breach", "Cold Station 12")
Among Humans it was said to "see the look in the eyes" as a common phrase to see emotions. (ENT: "The Catwalk")
A diagram of the Human eye depicting the location of eye parts was stored in the USS Enterprise's library computer database. This database was accessed by the Talosians in 2254. (TOS: "The Cage")
All Betazoids had black-colored irises. (TNG: "Power Play"; VOY: "Meld")
When the anaphasic lifeform Ronin was bonded to a Human, the host's eyes turned green. (TNG: "Sub Rosa")
When hasperat was made correctly, it caused the eyes to water. (TNG: "Preemptive Strike")
Martok lost one of his eyes in a fight with Ikat'ika during his two-year confinement at the Dominion's Internment Camp 371. (DS9: "In Purgatory's Shadow", "By Inferno's Light")
Beverly Crusher felt that Data had nicer eyes than B-4. (Star Trek Nemesis)
The loss of eyesight was known as blindness.
Sometimes, when an eye was lost or damaged, one might have elected to wear an eyepatch to cover it. (Star Trek VI: The Undiscovered Country; DS9: "Our Man Bashir"; VOY: "False Profits")
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