If i join jamaat salat at the second rakaat of Ishaa when the imam is in qunoot, and i have not yet prayed maghrib, can i join with niyat of jamat ishaa or maghrib ? If it is niyat of maghrib, then will it be my first rakaat of maghrib while its the imam’s second rakaat of ishaa? If so, if i don’t have enough time to complete recitation of surah fateha and Qul but i am able to go in ruku with imam, is this salaat valid? Finally, in this case if i dont have enough time to complete surah fateha and qul but the imam is in qunoot, am i supposed to raise my hands in qunoot even if its my first rakaat?

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Always read Maghrib first. If you are joining in second rakat, you Wait until imam goes in Ruku then join. in this case your rakat counts first.