Any non-jew, Israeli or non-Israeli, has his/her boarding card tagged with different colour than jews. This different colour tagging practice exist at Ben Gurion Airport, ask them they will not deny it even and will say that it is for security, meaning that any non-jew is a security threat in Israel. This is pure racism. Can you imagine the US immigration tagging the boarding cards of US citizen jews with a different colour than everyone else at the JFK ? El-Al considers all Israeli arabs as potential terrorists and if you are an Arab Israeli, your chances of getting humiliated by the crew is infinitely more than a jewish Israeli.
from the article: El Al ordered to compensate humiliated Israeli Arab passengers