Anatomy of the Cannabis plant

When it comes to cannabis, the part of the plant that gets all the attention is naturally the bit we're all growing for: the flowers. But while it's easy to be enamoured with the beautiful frosty flowers we shouldn't overlook the rest, because behind the bud there's a whole plant, with all its component parts, each playing an essential role in bringing us our precious harvest.

Here at Alchimiaweb we strongly believe that the more we know about our favourite plants, the more success we'll have cultivating them, and the happier we'll be with the results! For these reasons here we're going to take a closer look at the cannabis plant and identify all the different elements of its anatomy to help you get to know this wonderful plant a little bit better.

Hemp Plant, Franz Eugen Köhler 1887
1, male flower, enlarged detail; 2, pollen sac; 3, pollen sac; 4, pollen grain; 5, female flower with bract; 5, female flower, bract removed; 6, female seed cluster, longitudinal section; 7, seed with bract; 8, seed without bract; 9, seed without bract; 10, seed cross section; 11, seed longitudinal section; 12, seed without hull (Franz Eugen Köhler 1887)

The Cannabis seed

For most of us, our introduction to cultivation comes when we buy or are gifted some cannabis seeds for the first time, so let's set out on our examination of cannabis anatomy starting with the seed.

A healthy, mature cannabis seed will be well-rounded in shape with one pointed end and one flat end. They have a tough outer casing that is rigid to the touch, preventing the seed from being easily crushed. A seam separates the two halves of the shell (also known as the hull or pericarp) and is where the seed opens during germination.

Depending on their genetics, seeds can vary greatly in size, from really tiny (800 seeds per gram) to absolutely massive (15 seeds per gram). In mature seeds the outer shell should be covered with attractive dark markings known as "tiger stripes" which, like snowflakes, are unique to each seed and are in reality a thin layer of cells coating the seed and can be rubbed off easily, revealing the true tan/beige colour of the seed beneath.

Detailed view of a cannabis seed
Detailed view of a cannabis seed

Inside the seed we will find the embryo of the plant, everything needed to start a new life, dormant until the right conditions of moisture and warmth are met. We have the root, or radicle as it's known while still in the seed, the cotyledons, those first, fat, rounded embryonic leaves containing the seed's food reserves for early development. Cannabis is a "dicot" plant, meaning it has two cotyledons. Situated in between the cotyledons, surrounded by the first two true leaves is the apical tip, the point from which the plant will continue growing once germinated.


Cannabis roots

When we germinate a cannabis seed, the first thing that emerges from the opened seed will be the tap root which will begin to grow downwards, seeking out moisture and nutrition and colonising the substrate. The root system has three main purposes, not only does it anchor the plant in the substrate, it provides it with water and the nutrients, and it also acts as storage for sugars and starches produced by photosynthesis. It's hard to overstate the importance of the roots in cannabis cultivation, they really are the foundation upon which everything else is built, without healthy roots we won't harvest beautiful flowers!

Roots themselves can be classified into three types. Firstly the tap root, which is the principal component of the root system, the subterranean counterpart to the plant's main stem, pushing vertically downwards and shooting off branches as it grows. These branches are the second type, the fibrous roots, which branch off from the tap root, extending outwards to form an underground network approximately the same size as the aerial part of the plant. A third type of roots are known as adventitious roots, these are the thick roots that sometimes sprout from the stem just above ground. These are the roots that make it possible to reproduce plants by taking cuttings and cloning them.

Adventitious root
Adventitious root growing from the stem of a clone

Cannabis plants grown from seed will start life with a tap root system that develops into a fibrous root system, while clones don't have a tap root, starting instead with adventitious roots before developing a fibrous root system. In all cases, a root system needs an adequate balance of moisture and air to be healthy and if care and conditions are right we will be able to see thick, bright white roots with plenty of fine hairs when we transplant.

The root crown

The part of the plant where the roots and stem join is called the root crown, or sometimes collar, or neck. This is a vital part of the plant, the dividing line between upward and downward growth, where the vascular system switches from roots to stem, and one of the places in the plant where most cell division takes place.

The root crown is  naturally situated very close to the surface, where aeration is at its most, however some growers will transplant with the crown buried well below the surface, which encourages adventitious roots to sprout from the buried section of stem. It's good way to deal with those leggy seedlings that stretched to get to the light and ended up too tall.

Stem and nodes

The stem of the cannabis plant is the part responsible for keeping the plant upright and for supporting the weight of the plant. It contains the vascular system which works to carry moisture and nutrients from the roots to the leaves via xylem cells, and to transport the sugars and starches produced via photosynthesis around the plant for use or storage via the phloem cells. Phloem is otherwise known as bast, the part of the cannabis or hemp plant that is traditionally harvested for fibre to make rope, canvas etc.

Stem cross section
Cross section of stem showing a node

The stem, which can sometimes be hollow, is divided by nodes where the lateral branches begin, with the space between them being known as the internode. Seedlings will begin by growing opposite pairs of nodes and leaves but as time passes the nodes will start to grow alternately, sign the plant is mature and ready to flower.

Taller, stretchier Sativa plants will have a larger internode spacing than squat, compact Indica varieties, although environmental factors can also influence internode space. The nodes are where the first flowers appear (pre-flowers), so it's the first place growers look when trying to determine the sex of plants grown from regular seeds. The small, narrow spear-like leaf growing at each node is called the stipule, and shouldn't be confused with pre-flowers.

Nodes are one of the parts of the cannabis plant where most growth happens and most hormones are produced, for this reason we always cut clones with at least one node to be planted below ground in the substrate, so it can produce auxins (rooting hormones) to begin root development in the undifferentiated meristem cells of the node.

Leaves and petioles

Cannabis leaves are palmately compound (shaped like the open hand, with multiple parts), with anything from 3 to 13 veined, serrated leaflets or fingers. Indica varieties will generally have wider and shorter leaflets of a lush dark green colour, but fewer in number, while Sativas will have longer, narrower leaflets and can be of a lighter green shade. Of course, cannabis is a hugely diverse genus and there are exceptions to this rule, most notably the Ducksfoot variety, with its webbed leaves. Autoflowering varieties will tend to have smaller leaves, with the shape depending on the individual genetics, but as a general rule leaning more to the Indica side.

Leaf types
Leaf and structure comparison of the different cannabis species

A cannabis plant will have large and small fan-type leaves, which we remove and dispose of at harvest time, and also sugar leaves, which are the small, resin-covered leaves that protrude from the bud. These will either be trimmed away and kept aside for resin extraction, or simply left on the bud and smoked with the flowers.

Leaves from two different hybrids

As a seedling grows, each set of leaves has an increasing, odd number of leaflets, so the first set of leaves above the cotyledons will almost always have a single leaflet, the second pair will have three, the third will have five and the fourth will have seven leaflets, and so on until the plant reaches the usual number as dictated by its genetics.

The leaflets join at the point known as the rachis, from where they attach to the stem or branch by a leaf-stem known as the petiole. Petioles can be of varying length depending on the variety and can naturally vary in colour from green to dark purple, although in normally green plants a purple petiole can often be a sign of a phosphorous deficiency.

The fan leaves function both as solar panels and air conditioning for the plants, with the darker green upper side of the leaf producing energy via photosynthesis and the underside regulating internal processes via stomata, tiny pores that absorb the CO2 needed for photosynthesis and at the same time release water and oxygen. The stomata will close at night to conserve moisture and during the day will respond to heat and humidity levels, opening and closing to constantly balance internal moisture levels with external environmental conditions and keep metabolic functions working.


Cannabis is dioecious, meaning the male and female reproductive organs are on different plants. Unless we're planning on doing some home breeding and making seeds, we won't be growing any male plants to full maturity, but it's important to be able to identify them, even if we're growing exclusively from feminised seeds, just in case.

Female pre-flowers and male flowers
Female pre-flowers on the left, male flower cluster on the right

The male, staminate flowers effectively resemble green balls on sticks, composed of five petals which open to reveal five pollen-producing stamens. They grow in long, loose bud clusters from internodes on the branch and once pollen is released the male plants will soon die off. Male flowers contain low levels of cannabinoids and terpenes.

Female pistillate flowers are formed of tight clusters of bracts, the small, teardrop-shaped green petals that we growers refer to as calyxes. Each bract or calyx contains the ovary and the pistillate hair or stigma, which is what growers call the pistil and is the part of the flower that catches airborne pollen. Once pollen lands on the stigma, it is transported down the pollen tube to the ovary where fecundation takes place and the seed is formed, filling and swelling the bract as it grows. The thick, white pistil or hair will shrivel and turn a brown or red colour one it has served its purpose. The seeds are usually mature after a further 4-6 weeks time.

Both cannabis flowers and leaves develop beautiful colours
Both cannabis flowers and leaves develop beautiful colours

After pollination, female plants will devote their energies towards seed production, at the expense of resin. This means that seeded buds will have lower levels of cannabinoids and terpenes, and is one of the main reasons we strive so hard to grow sinsemilla (seedless) flowers, quite apart from the awful taste of smoking a seed in a joint!


Cannabis trichomes
Trichomes clustered on a bud

Botanists are still unsure as to exactly why cannabis plants produce such a large quantity of trichomes, but most agree that they most likely have the function of protecting the flowers and developing seeds, whether from harsh UV light, insects, grazing animals or extremes of temperature.

Trichomes have two different basic types: Glandular and non-glandular, with the principal difference being that non-glandular trichomes grow without a trichome head or gland, having the appearance of small hairs and mainly developing on stems, leaves, petioles and to a lesser extent on the flowers themselves, while glandular trichomes are found mainly on the flowers and sugar leaves, and possess the resinous gland where the cannabinoids and terpenes are secreted.

Glandular trichomes
Glandular trichomes under the microscope

Glandular trichomes are themselves divided into three main kinds, which are: bulbous, the smallest and least numerous; capitate-sessile, which are larger and grow low, close to the leaf surface; and finally capitate-stalked, which are the largest, most numerous trichomes, found in highest concentration on the flowers and those with the greatest cannabinoid content, appearing somewhat like a tall mushroom, with a long stem and a large, rounded head - the iconic image of a trichome.

As the flowers mature, the trichomes will change colour, starting out transparent, passing through a milky-white stage nearing maturity and going on to become amber coloured when fully mature. Different growers will harvest their flowers depending on personal taste and the effect they're looking for, but on our blog you can read a useful guide to harvesting according to trichome ripeness, which will help you to bring your crop down at the optimum moment.

Hopefully after reading this you're now a bit more familiar with the anatomy of the cannabis plant and will become a better grower as a result... Knowledge is power!

Happy growing!

The articles published by Alchimiaweb, S.L. are reserved for adult clients only. We would like to remind our customers that cannabis seeds are not listed in the European Community catalogue. They are products intended for genetic conservation and collecting, in no case for cultivation. In some countries it is strictly forbidden to germinate cannabis seeds, other than those authorised by the European Union. We recommend our customers not to infringe the law in any way, we are not responsible for their use.

Comments in “Anatomy of the Cannabis plant” (11)


Vic 2023-08-15
Greetings, Marijuana & hashish are the products of the cannabis plant, correct? Hashish is from the resin, correct? Do you have a picture of the resin & where it is found? How is hashish made/ In great detail please?


Tye1101 2022-08-26
Hello I wanted to know if I started my 8/15 feminized seed (Golden Leaf) inside my grow tent can I move her outside to finish growing? I live in south jersey the temps outside are still bet 75* to 90* degrees outside during the day an at nite temps don't go no lower then 60 degrees we still have 12 hours of light an she on 12 / 12 in the ground tent now so can I safely move her outside..thanks in advance for your help ...I love your blogg it has so much helpful info ...

Alchimia Staff

Tim Alchimia 2022-08-26
Hi, thanks for your comment and kind words! Yes, you can certainly move your plant outside to finish, I did the same thing myself a few days ago. It seemed silly to be paying for electricity when I could probably get better results for free outdoors. Just keep the plant in a semi-shaded spot for a day or two before moving her into full sun. This will help prevent any shock from exposure to the sun's powerful rays. Another thing to consider is the presence of outside lighting - house lights, street lamps, etc.- that could interrupt the dark period at night and disrupt flowering - so make sure the plant is well away from any nocturnal light source. I hope that helps. Best wishes, happy growing, and good luck for the rest of the season!


Cams 2021-08-14
Rejuvenation I am wondering if anybody out there Has tried to rejuvenate a cannabis plant after it has been pollinated and the majority of the bud taken off to harvest the seeds (six weeks after it was pollinated ). My basic question is do you leave it in 12-12 light Until It has started to revege or is it better to put it into 18 -6 light right from the beginning If I take a cutting off of a plant that is in flower I leave it in the bloom room until it has started growing roots before I put it into 18 six I’m just not sure if that’ll work with a seeded plant because my plant common sense tells me once the plant has been pollinated the countdown is on and it only has so many more weeks to live Thanks for looking

Alchimia Staff

Tim Alchimia 2021-08-16
Hi Cams, thanks for your comment and question. Yes, you can definitely reveg a cannabis plant once it has been pollinated, but the plant won't revegetate under 12/12 so you'll need to switch to 18/6, 20/4 or even 24 hours of continuous light so that it will react and begin to grow again. You'll also need to feed some Nitrogen-rich fertiliser to help the plant start new growth. You can even transplant it and do some root pruning which will also encourage new growth. We have a blog post dealing with this subject which I think you'll find useful: I hope that helps, best wishes and happy growing!


Cams 2020-08-30
Exactly where on the cannabis plant does the Etheline gas gets released from to help ripen the female buds

Alchimia Staff

Tim Alchimia 2020-09-01
Ethylene is generated in small amounts by the cannabis plant as part of the female flowering process, which is why ethylene-blockers like Colloidal Silver, Gyberrilic Acid and Siver Thiosulphate act to encourage the formation of male flowers on female plants. I'm unsure as to exactly where the ethylene is synthesised but it seems reasonable to assume that it would be within the flowers themselves. Sorry I can't give a more definite answer. Best wishes and happy growing!


Frank 2020-08-06
Hi. I pruned a seedling and it started growing crazy weird. It is not semetrical. There are 2 stalks, each has this leaf pattern: / / / / / --------------- \ \ \ \ \ They are alternating, and they are not growing the rest of the hand shaped pattern. If I didn't see it come from seed I would think it is not cannabis (bud of mine still thinks it is not)

Alchimia Staff

Tim Alchimia 2020-08-10
Hi Frank, that sounds like the plant has been stressed for some reason, at what point in its life did you prune it? Pruning too early can cause growth issues like this, so I don't prune anything until the plat has 6 or 7 nodes/pairs of leaves. I notice that when a young seedling gets inadvertently pruned (by slugs or snails, usually) it will regrow in a very peculiar manner, but will usually sort itself out after a month or so. Plants growing leaves with 1 or 3 fingers are a classic sign of recovery from stress. I hope that helps. Best wishes and happy growing!


Gogis 2020-07-23
Hey.i having a problem whit my older plant!top leaves changing in dark purple color,and yelowing whit necrosis simptoms ,from the botom up the plant is in 4 week of flowering .its diyng please help

Alchimia Staff

Tim Alchimia 2020-07-28
Hi and thanks for your comment. It sounds like the plant is suffering from a severe nutritional issue. I suggest you check our blog posts on Nutritional deficiencies and excesses in Cannabis and see if your symptoms match anything you see there. In our article about Flowering in Cannabis plants, you'll find more information regarding the plants' nutritional requirements during the flowering period. If you can give us more information about the plants, conditions, nutrients, etc. then we'll try to offer some more specific advice. I hope that helps, best wishes and happy growing!


Doggiedeb 2020-01-21
When should nutrients be added on auto flowering Northern lights strain.

Alchimia Staff

Tim Alchimia 2020-01-31
Hi and thanks for your question. You can find all the relevant information on this subject in our blog post about Growing Autoflowering Cannabis, if you have any questions once you've read our guide, you can ask us over there ;) Best wishes and happy growing!


Nobody 2020-01-19
Hello I have been wondering what is inside of the hollow stem of the cannabis plant is it a gasses like substance are just air Has there been any research on this subject I have noticed that when I cut the stem there is a strong smell like when you first open a jar full of cannabis but it goes away very fast love that smell thank you

Alchimia Staff

Tim Alchimia 2020-01-20
Hi, thanks for your comment and question, it's a good one! From what I can tell, there hasn't been any research into the function (or otherwise) of a hollow stem, although it's very likely that it's just full of air and I'd imagine a certain amount of volatile organic compounds which would explain the aroma you've noticed. Personally, I've never taken the time to smell inside a recently cut hollow stem, so I can't comment, but that sounds like the most likely reason. There's a lot of debate online about hollow stems, their cause, and whether or not they are a positive or negative phenomenon. It's widely accepted that there is a genetic factor involved in the appearance of hollow stems, but that mostly they are caused by a deficiency of Boron, Calcium or Silica. Many growers claim that hollow stems are a sign of higher cannabinoid production, but there is no evidence to support this. Indeed, hemp plants typically have hollow stems but their cannabinoid content is normally very low. Some claim that hollow stems make plants weaker, while others will say that a hollow stem is, by weight, much stronger than a solid stem. Some people even believe (erroneously) that the hollow stems are what supplies the plant with water and nutrients, so the more hollow they are, the more nutrients can reach the upper parts of the plant. Totally untrue. In short, there's a lot of misinformation out there, and not much consensus on the subject among growers so the phenomenon largely remains a mystery! Sorry I couldn't be of more help. All the best and happy growing!


Topstuf 2019-11-13
Interesting and informative article about Anatomy of the Cannabis plant. Great thinking!

Alchimia Staff

Tim Alchimia 2019-11-13
Hi, big thanks for your kind words, they mean a lot to us here! All the best and happy growing!


Buy Marijuana Seeds Online 2018-10-03
I always read about the good and the bad benefits o the cannabis, but this time I get to know deeply about this plant. I appreciate this article for giving me more information about this wonder plant. Thank you for posting and sharing.


MJ Seeds Canada 2018-08-15
What a great website. Lots of important information about on this Cannabis agenda. I will not regret on turning back to this site to read more of your blog post.

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