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Canker Sores on Your Tonsils or in Your Throat

Trained in dentistry, Sree is currently studying lab sciences. She enjoys researching various health topics and writing about her findings.

Can you really get a canker sore on your tonsils?

Can you really get a canker sore on your tonsils?

What Is a Canker Sore?

Canker sores are small, shallow ulcers characterized by a yellow or whitish dot on the cheek, the tongue, or any other part of the mouth including the tonsils or the throat.1 The canker is often round and surrounded by reddish, inflamed-looking flesh.

Canker sores are the most common type of mouth lesion, affecting about 20% of the US population. Also referred to as an aphthous ulcer or aphthous stomatitis, it more common in women than in men.2

Can You Get Canker Sores on Your Tonsils or in Your Throat?

Unfortunately, canker sores can appear anywhere on the soft tissue inside the mouth or throat, including your tonsils.3 The throat and tonsils are especially painful spots for ulcers since they may cause extreme pain anytime you swallow — this pain can also radiate to the ear.


Throat pain can be caused by a wide variety of illnesses. Your pain is likely caused by a canker sore if:2

  • There is a tingling or burning sensation for about 24 hours before the sores appear
  • You don't have other symptoms like fever or swollen lymph nodes (these can also happen with canker sores but it's rare)
  • You see sores that are round in shape, red at the edges, and white, grey, or yellow in the middle
  • Some rarer symptoms include:1 swollen lymph nodes, fever, sudden weight loss, a feeling of sluggishness, and the presence of thrush infection in the throat or mouth

Cold Sores vs. Canker Sores

Cold sores are not the same thing as canker sores. While canker sores are not contagious, always appear inside the mouth, and do not take a blister shape, cold sores are very contagious, are clusters of blisters that burst and scab, and appear on the lips and around the mouth.

Should You See a Doctor? How Long Do They Last?

Luckily, canker sores heal relatively quickly — the pain should go away within 10 days or so, and should not last longer than three weeks.

Canker sores do not usually require a visit to the doctor or the dentist. You should only make an appointment if:4

  • You have large sores
  • You have an outbreak of many sores
  • You have intense pain
  • You have a high fever
  • You have diarrhea
  • You have a rash
  • You have a headache
  • Your canker sore doesn't heal within three weeks

Home Remedies

In the meantime, here are some suggestions, home remedies, and over-the-counter treatments that may help your pain. With a sore in the back of your throat, you might be better off trying mouth rinses and gargling so you can be sure to reach the affected area.

  • Foods. Certain foods can help reduce the pain of a canker sore, including yogurt. Its lactobacillus acidophilus helps lessen the burning sensation. Ice cream and milk can also be soothing. Take care to avoid spicy or acidic foods.4
  • Baking Soda. A baking soda mouth rinse can be used to reduce pain and aid in healing. Mix one teaspoon baking soda in a half a cup of warm water, stir, then gargle a mouthful. Be sure not to swallow the mixture. Repeat once a day as needed.4
  • Hydrogen Peroxide and/or Milk of Magnesia. Mix one teaspoon of hydrogen peroxide with one teaspoon of water and then dip a clean cotton swab into the mixture and apply it directly to the afflicted tonsil. Then take a new swab, dip it into Milk of Magnesia, and dab it on. Repeat three to four times a day as needed.
  • Milk of Magnesia and Benadryl. Make a mouthwash from a mixture of half Milk of Magnesia and half liquid Benadryl and rinse.
  • Saltwater Gargle. Gargling with saltwater is an ancient and effective home remedy for treating canker sores. Use these mouthwashes or gargles at least twice a day as needed.
  • Eating or drinking something cold. Drinking something cold or sucking on an ice cube won't heal you, but it may help numb the pain. Hold a piece of ice in your mouth, as close to the canker as you can get it. Let it melt there for as long as you can stand it.
  • Vitamin B. A daily intake of at least 100mg of vitamin B12 may help your sore heal faster. Also, eat foods that are rich in vitamin B like shellfish, fish, and dairy.
  • Alum. Alum is a chemical compound that has a wide variety of uses. To help with your sores, apply a few dabs of alum powder on the sore as soon as it develops and let it sit for about 90 seconds before rinsing it out (without swallowing). Though the application of alum powder to the lesion of a canker sore can be quite painful, some say that this remedy helps their sores heal rapidly.5
  • Brush properly. Gently brush your teeth with a toothbrush with soft bristles and use a toothpaste that is free from any foaming agent (like sodium lauryl sulfate). Sensodyne ProNamel or Biotene are two brands to look for.
  • OTC medications. There are many over-the-counter topical treatments that may help the pain or help your sores heal faster. Look for products with the active ingredients of benzocaine, a numbing agent found in brands like Anbesol, Kank-A, Orabase, and Zilactin-B; fluocinonide, an anti-inflammatory found in brands like Lidex, and Vanos; or hydrogen peroxide, an anti-septic found in brands like Orajel Antiseptic Mouth Sore Rinse, and Peroxyl.6

More About Canker Sores

There are three types of canker sores:2

  1. Minor sores — The most common type of sore, these measure about 3 - 10 mm and are oval-shaped with a red border. The lesions usually heal within 10 to 14 days and do not leave any scars.
  2. Major sores — These are bigger and deeper than the other two types. A major sore is usually round with defined red border. If it is larger, it forms an irregular shape with irregular edges. It is extremely painful. Major sores grow more than 10 mm and take six weeks to months before they heal and may even leave scars.
  3. Herpetiform sores — These are large groups of sores, from clusters of 10 to about 100. They may also merge into one large sore and have irregular edges. They are smaller, about 2 - 3 mm. These sores may be the smallest, but they appear in hundreds simultaneously. You can expect them to heal without scarring.
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What Causes Them?

It is not very well understood what causes canker sores. Anyone may develop them, but teens and young adults are more prone to having them.3 Susceptibility to canker sores can also be inherited.2

People who suffer from recurrent canker sores are likely to have a family history of the medical condition. Aside from heredity, it may also be due to a shared factor environment, like allergens and certain foods.

Some of the possible main causes include:2

  • A small injury as a result of an accidental bite, bump, burn, rough brushing of teeth, or dental work
  • Lack of important nutrients that promote proper growth of tissues, such as iron, zinc, vitamin B12, and folic acid (folate).
  • Allergies or sensitivities to toothpaste or food (coffee, chocolate, shellfish, strawberries, cheese, eggs, nuts, highly acidic foods like pineapple, lemon, and tomatoes, and ingredients like sodium lauryl sulfate).
  • Acidic foods like citrus fruits — these can both trigger the ulcers as well as make them worse
  • Smoking
  • Gastrointestinal tract diseases, like Crohn’s disease or Celiac disease
  • Auto-immune disorders, like Behcet’s disease or systemic lupus erythematosus
  • Other immune system weaknesses, like the common cold, flu, or HIV/AIDS
  • Oral cancer
  • Stress
  • Anxiety
  • Poor oral hygiene
  • An allergic response to bacteria in the mouth
  • Hormonal changes may trigger canker sores during the days prior to menstruation
  • Certain drugs, including aspirin, NSAID, or antibiotics
  • Viral infection


If you find that canker sores are a recurring problem, you should take steps to avoid the things that trigger them.

  • Eat right. Start with a food diary and avoid foods that may trigger the outbreaks.3 Foods that are salty, spicy and acidic can cause the appearance of canker sores, as well as foods that you are allergic to.
  • Eat healthy. Aside from ensuring that you don't suffer from canker sores, eating healthy foods can also help improve your overall health. Include more fresh fruits and vegetables in your daily meal. Switch to whole grains. Avoid processed, sugary foods. Ask your doctor or dentist to test to see if you have any nutritional deficiencies that might be contributing to your canker sores.
  • Stress less. Stress is also a cause of cold sores. If you find that you have outbreaks under bouts of stress, you should learn stress-management or reduction techniques.
  • Practice good oral hygiene. Good oral hygiene is imperative. Brush your teeth regularly using a soft-bristled brush to avoid irritating your mouth.
  • Make sure your mouth is properly protected - If you have braces, retainers, or other dental improvements in your mouth, ask your dentist about how to maintain it properly to keep them from irritating your skin.

If You Do See a Doctor

If you do end up seeing a doctor for your canker sores, whether because of the pain or another issue, you should be prepared with a list of your symptoms and when they started, some information (if you have it) about your food habits, and a list of all the medications you're taking.

Most of the time, doctors will be able to diagnose you with a canker sore through a simple physical examination. They may order a blood test or a biopsy of the affected area if there is a severe breakout or if they suspect the presence of any of the following:3

  • Viral infection
  • Hormonal disorder
  • Vitamin deficiency
  • Weak immune system

It is also possible that your doctor may suspect cancer since cancerous lesions may appear like a canker sore. Oral cancer and canker sores have some similar signs and symptoms, including the appearance of painful mouth ulcers and swelling in the neck area. However, oral cancer has more severe symptoms, including bleeding from the gums, earaches and loose teeth.3

Treatment at the Doctor's

As mentioned previously, most cases of canker sores heal by themselves. However, in the case of a severe outbreak, dentists may prescribe the use of products such as:3

  • An antimicrobial mouth rinse like Listerine
  • An antibiotic, like mouthwashes with doxycycline
  • A corticosteroid ointment
  • A prescription mouthwash like one that has dexamethasone or lidocaine

Other Treatments

  • Your doctor may prescribe oral medications if other topical treatments or mouthwashes won't work.
  • Your doctor may also look into something called cautery, a process by which the sore is burned or seared with the use of an instrument or a chemical substance.6
  • Your doctor may give you a nutritional supplement if needed. These include folate or folic acid, zinc, vitamin B-6, and vitamin B-12.
  • Oral steroid medications may help relieve the symptoms and completely cure sores, but there are known effects so this is usually recommended by doctors as a last option.
A canker sore on the inner lip. Published under GFDL in English Wiki, CC BY-SA 3.0

A canker sore on the inner lip. Published under GFDL in English Wiki, CC BY-SA 3.0


  1. Reviewed by Alfred D. Wyatt Jr., DMD. "Dental Health and Canker Sores." June 10, 2016. WebMD. Accessed April 4, 2017.
  2. Cunha, John P., DO, FACOEP. "Canker Sores." Reviewed October 10, 2016. MedicineNet. Accessed April 4, 2017.
  3. "Canker Sores." December 6, 2016. MedlinePlus. Accessed April 4, 2017.
  4. Khan, A., Solan, M., and Jewell, T. Medically Reviewed by Debra Sullivan, PhD, MSN, CNE, COI. "Canker Sore." October 10, 2016. Healthline. Accessed April 4, 2017.
  5. Ryan, Erin Gloria. "A Seriously Simple Way to Banish Cold Sores." April 20, 2012. Jezebel. Accessed April 4, 2017.
  6. Mayo Clinic Staff. "Canker Sore Prevention." March 19, 2015. Mayo Clinic. Accessed April 4, 2017.
  7. "Cold Sores - Topic Overview." (n.d.) WebMD. Accessed April 4, 2017.

This content is accurate and true to the best of the author’s knowledge and does not substitute for diagnosis, prognosis, treatment, prescription, and/or dietary advice from a licensed health professional. Drugs, supplements, and natural remedies may have dangerous side effects. If pregnant or nursing, consult with a qualified provider on an individual basis. Seek immediate help if you are experiencing a medical emergency.


Jay on September 16, 2018:

I have suffered for years with these and last year got one in my throat. Turns out there's a simple, effective, easy cure. Sauerkraut juice (it must be from the refrigerator or other words, alive). Gargle with it and pain goes away quickly...within hours. I gargled it and then swallowed it because one was in my throat. Within 24 hours, I had no pain in my mouth, and a tiny bit in my throat. Did it for 3 days, started eating probiotic foods and haven't had one since.

Jess on May 28, 2018:

They are very painfull

Sherab on October 04, 2017:

I rinsed my mouth with hydrogen paraoxide and water. I just now put baking side paste on the tip of my tongue where I got canker sore. This is the third day. I hope it will go away soon. Very painful and uncomfortable in the mouth. :-(

Zak on January 05, 2017:

Had a sore throat and some pain for about a week now and just discovered an ulcer on my tonsil. Never had one there before, but yeah definitely the most painful one I've ever had. It's bigger than any other I've ever had either. About a 1/4 inch in diameter. Have other people with tonsil canker sores also had swollen tonsils? Just asking as both of mine are a bit inflamed.

Gina on June 23, 2016:

Hi...long time ago I experience the canker's so annoying and bothering me to much.then now I try to use the baking soda..I hope is working..

Dalton on February 04, 2016:

I too have several canker sores on or close to tonsills. It is THE WORST pain i've ever felt. I'd prefer to have my two legs broken than having to deal with this!

To top it of i was badly diagnosed 4 days ago and the "doctor" gave me antibiotics which probably worsened the cankers thinking the throat pain and fever was just flu. I was on antibiotics for 4 days.

Now on anti-acid and anti-fungal medication along with anti-inflamatory lozenges and finding "some" relief.

Angela on January 23, 2016:

This is the first time I've ever had a canker sore on my tonsil, and it has to be the absolute canker sore I've ever had. I honestly thought I had strep or something, until I found it.

I occasionally get them on the insides of my lips, and while they're very annoying they never bother me too much. But this one has been absolutely horrible to deal with. I never thought a canker sore could cause so much pain.

When I first got it, I couldn't eat food harder than yogurt for days, and I even struggled to eat a banana. Honey and Cepacol lozenges were the only things that would stop the pain. I was surprised at how effective honey was at stopping the pain. I then found some Burt's Bees cough drops, and I was finally able to function normally (besides eating), as long as I had one in my mouth. Those cough drops were amazing for the pain.

I've pretty much had lozenges in my mouth 24/7 for the last four or five days. It seems like the sore is finally healing, though, so hopefully it'll finally be gone.

Sree Lakshmi (author) on June 28, 2015:

@Eric: Agreed :)

Eric on June 28, 2015:

A word of warning with the baking soda mouthwash, the taste is absolutely foul. The first time gargling with it, I gagged to the point of vomiting. Use this near an empty sink, or better yet a toilet, and have a cup of clean water on hand to rinse your mouth out.

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