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Integrating Genetics and Genomics to Advance Soybean Research

This page shows all of the QTL Classes in SoyBase. The 'New' tag is used to indicate when QTL have recently been added to that Class.

Clicking on a QTL Class opens a page listing all of the QTL in that Class. The 'View in Whole Genome' button shows the 20 soybean linkage groups with all of the QTL in that Class visible. Newly reported QTL are indicated in both the chromosomal and table views.
View by Symbol

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Abnormal seedling
(Seedling, abnormal)
Aluminum Tolerance
(Al tolerance)
Acid detergent fiber content[NEW]
(Acid detergent fiber, R6)
Anthocyanidin content[NEW]
(Seed anthocyanin content)
Antioxidant content[NEW]
(Seed antioxidant content)
Acid phosphatase activity[NEW]
(Acid phosphatase activity, variable P)


Chlorimuron Ethyl Sensitivity
(Chlorimuron sensitivity)
Carbon Isotope Discrimination
(Carbon isotope discrimination)
Canopy Height
(Canopy height)
Canopy Width
(Canopy width)
Cell wall polysaccharide composition
(Cellwall polysacch composition)
Canopy wilt[NEW]
(Canopy wilt,mqCanopy wilt)
Crude protein content[NEW]
(Crude protein, R6)
Crude fat content[NEW]
(Crude fat, R6)
Common cutworm[NEW]
(Common cutworm)

Drought Susceptibility Index
(Drought index)
Drought Tolerance
(Drought tolerance)

Embryo Abortion
(Seed abortion)

First flower[NEW]
(First flower)
Flooding Tolerance
(Flood tolerance)
Flower Number
(Flower number)
Flower form
(Flower form)
Flooding yield index
(Flooding yield index)
Flux ratio of trapping per absorption (TRo/ABS)[NEW]
(Chlorophyll flourescence TRo/ABS)
Flower Color[NEW]
(Flower color)

Germination Time
(Days to germination)

(Plant height to Lodging ratio)
Hypocotyl Length[NEW]
(Hypocotyl length)
Hypocotyl weight[NEW]
(Hypocotyl weight)

Iron Efficiency
(Fe effic)
Internode length[NEW]
(Internode length)

Leaflet ash content
(Leaflet ash)
Leaflet area[NEW]
(Leaflet area)
Leaflet Length
(Leaflet length)
Leaflet Width[NEW]
(Leaflet width)
Leaflet shape[NEW]
(Leaflet shape)
Leaf phosphorus content
(Leaflet P)
Leaflet trigonelline content
(Leaflet trigonelline, dry,Leaflet trigonelline, fresh)
Leaflet weight
(Leaflet weight)
Leaflet chlorophyll content[NEW]
(Leaflet chlorophyll)
Lateral root number[NEW]
(Root density, lateral)
Light energy absorbed per reaction center (ABS/RC)[NEW]
(Chlorophyll flourescence ABS/RC)
Lateral root size[NEW]
(Lateral root size, variable P)

Main Stem Diameter
(Stem diameter, main)
Main Stem Length[NEW]
(Stem length, main,Shoot length)
Manganese induced root necrosis
(Necrosis, root Mn induced)
Manganese induced leaflet necrosis
(Chlorosis, leaflet Mn induced)

Node Number[NEW]
(Node number)
Net photosynthetic rate
(Net photosyn rate)
Neutral detergent fiber content[NEW]
(Neutral detergent fiber, R6)

Ozone sensitivity, leaflet[NEW]
(Leaf Damage, ozone, 2nd trifoliate leaf,Leaf Damage, ozone, 3rd trifoliate leaf,Leaf Damage, ozone, 4th trifoliate leaf,Leaf Damage, ozone, 5th trifoliate leaf,Leaf Damage, ozone, 6th trifoliate leaf,Leaf Damage, ozone, 3rd-5th trifoliate leaves)

Photoperiod sensitivity
(Photoperiod insensitivity)
Plant Height[NEW]
(Plant height,mqPlant height,Plant height, variable P)
Pectin content
(Seed pectin)
Primary Root Length[NEW]
(Root length, primary)
Primary Root Size
(Root width, primary)
Phosphorus content[NEW]
(Plant P,Plant P, variable P,P concentration, variable P)
Plant weight
(Plant weight)
Pods per plant[NEW]
(Pod number)
Pods Per Node
(Pods per node)
Pubescence Density[NEW]
(Pubescence density)
Pod weight[NEW]
(Pod weight)
Pod wall width
(Pod wall width)
Pod wall weight
(Pod wall weight)
Pod weight ratio
(Pod wall to Pod weight ratio)
Petiole color[NEW]
(Petiole color, UV-B induced)
Probability a trapped excitation moves an electron beyond Qa- (ETo/TRo)[NEW]
(Chlorophyll flourescence ETo/TRo)
Probability an electron reduces an end acceptor at PSI electron acceptor side[NEW]
(Chlorophyll flourescence REo/Eto)
Performance index on absorption basis (PIabs)[NEW]
(Chlorophyll flourescence PIabs)
Pubescence Length[NEW]
(Pubescence length)
Plant weight, dry[NEW]
(Plant weight, dry,Plant weight, dry, variable P)
Phosphorus use efficiency[NEW]
(P use efficiency,P use efficiency, variable P)
Pod color[NEW]
(Pod color)
Phosphorus acquisition efficiency[NEW]
(P aquisition efficiency, variable P)

Reaction to Phialophora gregata infection
Reaction to Helicoverpa zea
(Corn earworm)
Reaction to Meloidogyne arenaria
(Peanut root-knot nematode)
Reaction to Meloidogyne incognita
(Southern root-knot nematode)
Reaction to Meloidogyne javanica
(Jav root-knot nematode)
Reaction to Phytophthora sojae infection[NEW]
R8 Full Maturity[NEW]
(Pod maturity,cqR8 Full maturity)
Reaction to Diaporthe phaseolorum var sojae Infection
(Phomopsis seed decay)
R3 Beginning pod
(Pod, beginning)
R5 Beginning Seed
(Seed, beginning)
R7 Beginning Maturity
(Pod maturity, beginning)
Reproductive stage length
(Reproductive stage length)
Reaction to Sclerotinia sclerotiorum infection[NEW]
Reaction to Heterodera glycines[NEW]
Reaction to Fusarium solani f sp glycines infection[NEW]
(SDS,cqSDS,SDS disease incidence,SDS disease index,Fusarium root rot,SDS disease severity)
Reaction to Tobacco Ringspot Virus Infection (TRSV)
(Tobacco ring spot virus)
Reaction to Spodoptera litura[NEW]
(Common cutworm)
Reaction to Thanatephorus cucumeris infection
(Rhizoc root and hypocot rot)
Root Surface Area[NEW]
(Root area,Root area, variable P)
Root dry weight to shoot dry weight ratio[NEW]
(Root to Shoot weight ratio,Root to Shoot weight ratio, variable P)
Root Weight
(Root weight)
Root phosphorus content[NEW]
(Root P,Root P, variable P)
Root Morphology[NEW]
(Root morphology,Root length,Root length development,Root area development,Root diameter,Root diameter change,Root length, variable P)
Reaction to Alkalinity
(pH sensitivity)
Reaction to Aphis glycines
Reaction to Indonesian Soybean Dwarf Virus Infection (ISDV)
(Indo soy dwarf virus)
Reaction to Maruca vitrata
(Pod borer)
Root weight, fresh
(Root weight, fresh)
Root weight, dry[NEW]
(Root weight, dry,Root weight, dry, variable P)
Reaction to Lamprosema indicata
(Bean pyralid)
Reaction to Phakopsora pachyrhizi infection[NEW]
(Asian Soybean Rust)
Reaction to Fusarium infection
(Fusarium lesion length)
Row spacing response
(Row spacing response)
Reaction to Bemisia tabaci
(Whitefly resistance)
Root nodule number[NEW]
(Nodule number,Root nodule number,Root nodule number, big,Root nodule number, small plus Rhizobia)
Root nodule weight, dry[NEW]
(Root nodule weight, dry,Nodule weight per plant, dry,Nodule weight, dry)
Reaction to Diaporthe longicolla Infection[NEW]
(Phomopsis seed decay)
Reaction to Popilliae japnoica[NEW]
(Japanese beetle resistance)
Root volume[NEW]
(Root volume)
Reproductive to vegetative period ratio[NEW]
(Reproductive to vegetative period ratio)
Reproductive period[NEW]
(Reproductive period)
R/V photothermal sensitivity[NEW]
(R/V photo-thermal sensitivity)
Reproductive period photothermal sensitivity[NEW]
(Reproductive period photo-thermal sensitivity)
Root Nodule Size[NEW]
(Nodule size)
Reaction to Aulacorthum solani, choice[NEW]
(Foxglove aphid, primary damage, choice,Foxglove aphid, total damage, choice)
Reaction to Aulacorthum solani, no choice[NEW]
(Foxglove aphid, primary damage, no choice,Foxglove aphid, total damage, no choice)
Reaction to Soybean Mosaic Virus Infection (SMV)[NEW]
(Soybean mosaic virus)
Root nodule weight[NEW]
(Root nodule weight, dry,Root nodule number, big,Root nodule number, small plus Rhizobia)
Root length[NEW]
(Root length,Root length plus Rhizobia)
Root length, fine[NEW]
(Root length, fine,Root length, fine plus Rhizobia)
Root length, medium[NEW]
(Root length, medium)
Root length, coarse[NEW]
(Root length, coarse)
Root surface area, fine[NEW]
(Root area, fine minus Rhizobia,Root area, fine plus Rhizobia)
Root surface area, medium[NEW]
(Root area, medium)
Root surface area, coarse[NEW]
(Root area, coarse)
Root volume, fine[NEW]
(Root volume, fine,Root volume, fine plus Rhizobia)
Root volume, medium[NEW]
(Root volume, medium)
Root volume, coarse[NEW]
(Root volume, coarse)

Seed Coat Hardness[NEW]
(Seed coat hardness)
Seed linoleic acid content[NEW]
(Seed linoleic)
Seed linolenic acid content[NEW]
(Seed linolenic)
Seed oil content[NEW]
(Seed oil,cqSeed oil,mqSeed oil)
Seed oil/protein ratio
(Seed oil to protein ratio)
Seed oleic acid content[NEW]
(Seed oleic)
Seed palmitic acid content[NEW]
(Seed palmitic)
(Pod dehiscence)
Seed protein content[NEW]
(Seed protein,cqSeed protein)
Seed filling period
(Seed fill)
Seed Number[NEW]
(Seed number,Seed yield to weight ratio)
Seed Set[NEW]
(Seed set,Seed set, 1 per pod,Seed set, 2 per pod,Seed set, 3 per pod,Seed set, 2 or 3 per pod,Seed set, 4 per pod)
Seed weight[NEW]
(Seed weight,Seed weight 18-1,cqSeed weight,Seed weight per plant)
Seed yield[NEW]
(Seed yield,cqSeed yield)
Specific leaflet weight[NEW]
(Leaflet weight, specific)
Sprout yield
(Sprout yield)
Seed stearic acid content[NEW]
(Seed stearic)
Seed sucrose content[NEW]
(Seed sucrose)
Seed yield/Plant height
(Seed yield to Plant height ratio)
Seed glucose content
(Seed glucose)
Seed acidic glycinin subunit content
(Seed acidic fraction)
Seed beta-conglycinin alpha-prime subunit protein content
(Seed conglycinin, alpha-prime)
Seed arabinose-galactose content
(Seed arabinose plus galactose)
Seed basic glycinin subunit content
(Seed basic fraction)
Seed beta-conglycinin beta-subunit protein content[NEW]
(Seed conglycinin, beta,Seed conglycinin)
Seed fucose content
(Seed fucose)
Seed galactose content
(Seed galactose)
Seed glycinin content[NEW]
(Seed glycinin)
Seed nitrogen content at growth stage R5
(Seed N at R5)
Seed nitrogen content at growth stage R6
(Seed N at R6)
Seed nitrogen content at growth stage R7
(Seed N at R7)
Sodium ion sensitivity[NEW]
(Salt tolerance)
Seed isoflavone content[NEW]
(Seed isoflavone,Seed total isoflavone)
Seed daidzein content[NEW]
(Seed daidzein)
Seed genistein content[NEW]
(Seed genistein)
Seed glycitein content[NEW]
(Seed glycitein)
Seed phytate content
(Seed phytate,cqSeed phytate)
Seed methionine and cysteine content[NEW]
(Seed Met plus Cys)
Seed alanine content
(Seed Ala)
Seed glycine content
(Seed Gly)
Seed threonine content[NEW]
(Seed Thr)
Seed tryptophan content
(Seed Trp)
Seed aspartic acid content
(Seed Asp)
Seed glutamine content
(Seed Glu)
Seed isoleucine content
(Seed Ile)
Seed proline content
(Seed Pro)
Seed serine content
(Seed Ser)
Seed tyrosine content
(Seed Tyr)
Seed lysine content[NEW]
(Seed Lys)
Seed phenylalanine content
(Seed Phe)
Seed valine content
(Seed Val)
Seed leucine content
(Seed Leu)
Seed arginine content
(Seed Arg)
Seed cysteine content[NEW]
(Seed Cys)
Seed methionine content[NEW]
(Seed Met)
Seed histidine content
(Seed His)
Shoot phosphorus content[NEW]
(Shoot P,Shoot P, variable P)
shoot weight, dry[NEW]
(Shoot weight,Shoot weight, dry,Stem weight, dry,Shoot weight, dry, variable P)
Stem strength
(Stem strength, main)
Seed oil plus protein content
(Seed oil plus protein)
Seed soluble oligosaccharides
(Seed oligosaccharide)
Seed hardness[NEW]
(Seed hardness)
Seed cadmium concentration[NEW]
(Seed cadmium)
Seed coat color[NEW]
(Seed coat color)
Seed width[NEW]
(Seed length,Seed width)
Seed size[NEW]
(Seed volume)
Seed height[NEW]
(Seed height,Seed thickness)
Somatic embryogenesis
(Somatic embryogenesis)
Somatic embryos per explant
(Somatic emb per explant)
Somatic embryogenesis efficiency
(Somatic embryogen effic)
Seed alpha-tocopherol content[NEW]
(Seed tocopherol, alpha)
Seed gamma-tocopherol content[NEW]
(Seed tocopherol, gamma)
Seed delta-tocopherol content[NEW]
(Seed tocopherol, delta)
Seed tocopherol content[NEW]
(Seed tocopherol, total)
Seeds per plant[NEW]
(Seeds per plant,Seeds per plant, variable P)
Specific leaflet nitrogen content
(Leaflet N, specific)
Specific leaflet area
(Leaflet area, specific)
Seed coat cracking
(Seed coat cracking)
Seed calcium content
(Seed calcium)
Seed palmitic+stearic acid content
(Seed palmitic plus stearic)
shoot weight, fresh
(Shoot weight, fresh)
Shoot weight ratio
(Shoot fresh to dry weight ratio)
Seed 2AP content[NEW]
(Seed fragrance)
Seed glycinin and beta-conglycinin content[NEW]
(Seed glycinin plus beta-conglycinin)
Seed glycinin to beta-conglycinin ratio[NEW]
(Seed glycinin to beta-conglycinin ratio)
Seed cold stress resistance[NEW]
(Seed winter hardiness)
Seed length to width ratio[NEW]
(Seed length to width ratio,Seed width to thickness ratio,Seed height to width ratio)
Seed length to height ratio[NEW]
(Seed length to thickness ratio,Seed length to height ratio)
Seed viability[NEW]
(Seed viability)
Seed nickel content[NEW]
(Seed nickel)
Seed lectin content[NEW]
(Seed agglutinin,cqSeed agglutinin)
Starch content[NEW]
(Seed starch)
Seed weight per plant[NEW]
(Seed weight per plant, variable P)

Total growth duration[NEW]
(Total growth duration)
Trailing growth[NEW]
(Trailing growth)

UV-B induced leaflet chlorosis[NEW]
(Chlorosis, leaflet UV-B induced)
UV-B induced leaflet shape response[NEW]
(Leaflet shape, UV-B induced)
UV-B induced plant damage[NEW]
(Plant damage, UV-B induced)

Vegetative period[NEW]
(Vegetative period)

Water Use Efficiency

Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA
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