Question: is this root rot / is this normal?

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Hello, I am wondering what is going on with my apricot plant. It is about 3 months old already and the stem started browning. Is this normal for this type of plant?
 
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Here are some pics of the plant
 

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Greetings, welcome to the Forums.

Some of the roots pictured look healthy. The root system seems a bit reduced, but that may be from slow growth or from being dug up.
Hopefully you immediately re-potted your Apricot (Prunus armeniaca) after the photo.

Going forward, plant the seedling in a fast-draining mix. Water regularly, but allow the soil to drain and partly dry before the next irrigation. Of course, the plant should be in full sun. While it is in a container, fertilize on a schedule, with a complete liquid fertilizer.
 
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Thank you for your kind answer, I immediatly re-potted it after taking the pic. The roots never felt mushy or soft to touch, specially the big ones. I hope it will survive and grow to be a healthy plant
 

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