I'm am very new to the breeding scene. I have a 3yo maiden mare and a 2yo stallion prospect I have been trying to breed. She will not show signs of heat to him but will to my gelding! She would not stand for my stallion, so I ended up twitching her last cycle, but then he could not seem to find the correct place and just ejaculated between her back legs. Yesterday I had them turned out in my ring and decided to throw a bridle on her and do some ground work. As soon as I had the bridle on her he left his grass and came over and mounted her! And she stood without a problem. He again couldn't seem to get it it (she is about 14 hands and he is around 13.1). My question is, would she stand for mounting if she wasn't in heat? I'm worried she just stood as she was afraid of being twitched again. She was not showing to the gelding a couple of days before this..
It would be unlikely - although not impossible - that a mare that is cycling would stand for a stallion if she were not in estrus ("heat"), as the hormone progesterone produced by the CL during diestrus (the time in between estrus' in the cycling mare) causes the mare to resist the stallions advances.
Having said that, there are mares that are so submissive that they will stand for a stallion at any time, although as she did not stand for the stallion during the last estrus and he is a young stallion, it seems unlikely that she is behaving submissively.
There is another possibility that the mare is entering winter anestrus, or maybe the transitional phase prior to the onset of winter anestrus, during which time you will see irregular anovulatory cycles. This could be the cause of the apparent irregularity of cycles, although you do not say what the time period was that you saw between estrus phases, so are you sure that it was an irregularity?
Ultrasounding the reproductive tract of the mare by your veterinarian should assist you in determining what the mare is doing.
As far as the stallions apparent inability to penetrate the mare successfully - first make sure that the mare does not have a Caslick's procedure in place, and assuming that she does not, you will probably have to guide the penis into her vagina manually.
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