Table 2 SNPs related to IQ, chromosomal location, gene, allele, effect of that SNP and other associated traits

rs324650

7q33

CHRM2

T > A

PIQ-6.0

VIQ-1.8

FSIQ-4.0

Alcohol dependence and major depression

667

[72]

rs10457441

6q16.1

MIR2113

T > A T > C

T > G

Decline in episodic memory

< 0.02

1570

GWAS

[73]

rs17522122

14q12

AKAP6

G > T

Worse performance in episodic memory

Working memory

Vocabulary and perceptual speed

4 × 10^–9

1570

GWAS

[73]

rs363039

20p12.2

SNAP25

G > A

G > C

G > T

Highly associated with IQ variations

< 0.01

762

[72]

rs2721173

8q24.3

LRRC14

C > T

9 × 10^–6

106,736/24,189

[74]

rs11584700

1q32.1

Near gene LRRN2

A/G

2.1 × 10^–9

101,069

GWAS

[74]

rs7923609

10q21.3

JMJD1C, MIR1296

A > G

1 × 10^–6

106,736/24,189

[74]

rs4851266

2q11.2

AFF3, LINCO1104

C > T

5 × 10^–11

26 population

GWAS

[75]

rs17518584

3p12.1

CADM2

C > T

C > A

Processing speed

0.013

T2D

944

GWAS

[76]

rs1487441

6q16.1

LOC101927335

AL589740.1

G > A

2 × 10^–9

106,736/24,189

[74]

rs3213207

6

DTNBP1

A/G

0.109

Single base primer extension

[77]

rs2350780

7q33

CHRM2

G > A

Involved in neuronal excitability, synaptic plasticity and feedback regulation of acetylcholine release and performance IQ (PIQ)

0.016

371, 391

[78]

rs35753505

8p12

NRG1

T > A

T > C

T > G

Increased performance in cognitive domains and IQ

218

[79]

rs821616

1q42.2

DISC1

A > T

Schizophrenia and bipolar disorder

425

[80]

rs1800497

11q23.2

ANKK1

G > A

Insight problem solving

0.033

425

[81]

rs174575

11q12.2

FADS2

C > G

0.018

1037

[29]

rs1535

11q12.2

FADS2

A > G

A > T

Decline ability to elongate and desaturate fatty acid

BMI

1037

[29, 32]

rs17070145

5q34

WWC1

C > G/C > T

Associated with episodic memory performance

0.001

Alzheimer’s disease

N = 8909, N = 4696

[82]

rs6439886

3q23

CLSTN2

A > G

Increased memory performance

Alzheimer’s disease cognitive impairment

GWAS

[83]

rs363043

20p12

SNAP-25

C > T

Increased IQ

< 0.01

Children-371

Adult-391

[84]

rs363016

20p12

SNAP-25

C > T

Increased IQ

0.0001

Children-371

Adult-391

[84]

rs6265

11p14.1

BDNF, BDNF-AS

C > T

short-term learning

Obesity

Hypertension

GWAS

[85]

rs2619539

6p22.3

DTNBP1

C > A

C > G

Schizophrenia

235

[86]

rs362602

20p12-p11.2

SNAP-25

A > G

Increased verbal IQ (VIQ)

0.005

232

793

[87]

rs3758391

10q21.3

SIRT1

T > C

Cardiovascular disease diabetes

682, 563

[88]

rs11809911

1q23.3

LMXA1

Associated with reduced IQ and memory/learning

218

[79]

rs9320913

6q16.1

LOCI100129158

AL589740.1

C > A

4.2 × 10^–9

101,069

GWAS

[89]

rs6948054

7q31-35

CHRM2

A > G

A > C

PIQ

0.041

2158

[78]

rs8191992

7q31-35

CHRM2

A > T

0.036

2158

[78]

rs2619528

6

DTNBP1

C > T

Logical memory immediate

Symbol search

Random letters decrease performance

0.098

1054, 1806, 745

[77]

rs760761

6p22.3

DTNBP1

G > A

VIQ, full scale IQ (FSIQ)

0.026

108

[77]

rs324640

7q31-35

CHRM2

G > A

G > T

PIQ-5.2

VIQ-1.2

FSIQ-2.9

667

[72]

rs2619522

6

DTNBP1

A > C

Minor allele-lower cognitive ability

< 0.01

Schizophrenia

7,592

[90]

rs2061174

7q31-35

CHRM2

G > C

G > A

Strongly associated with intelligence

< 0.01

371/391

[91]

rs17800861

16p13.2

GRIN2A

T > A

2.98 × 10^–7

2,421

[92]

rs10119

19q13.32

TOMM40

G > A

Associated with general fluid cognitive function

5.67 × 10^–9

539,490

[93]

rs4680

22q11.21

COMT

G > A

Transfers methyl group to catecholamine, to inactivate

< 0.01

Weight gain/decreased SBP

165/6969

[59,60,61]

rs4962322

10q26.2

ADAM12

C > A

C > G

C > T

Gene family PLEXIN member are mutated

8 × 10^–9

1238

GWAS

[94]

rs10794073

10q26.2

ADAM12

A > C

A > G

A > T

2.02 × 10^–8

1238

GWAS

[94]

rs1799990

20p13

PRNP

A > G

Associated with a decrease in spatial span, letter number sequencing and matrix reasoning scores

≤ 0.05

1091

[95]

rs1276529

6q21

RFPL4B

G/A/C/T

VIQ

1 × 10^–6

2421

GWAS

[92]

rs1706066

6

RFPL4B

VIQ

7.13 × 10^–7

2421

GWAS

[92]

rs1276583

6

RFPL4B

VIQ

1.42 × 10^–6

2421

GWAS

[92]

rs12552228

9

TEK

Functional IQ(FIQ)/PIQ

8.51 × 10^–7/PIQ-3.8 × 10^–6

2421

GWAS

[92]

rs12554799

9

TEK

FIQ/PIQ

8.51 × 10^–7/PIQ-3.8 × 10^–6

2421

GWAS

[92]

rs705670

9q34.3

LINCO1502

C > G

C > T

PIQ

3.09 × 10^–7

2421

GWAS

[92]

rs4962520

10q26.2

ADAM12

C > T

1.2 × 10^–8

1238

GWAS

[94]

rs2490272

6q21

FOX 03

C/A/G/T

Positive effect

9.96 × 10^–14

Associated with human longevity

78,307

GWAS

[69]

rs10236197

7p14.3

PDE1C

T/A/C/G

Showed positive effect

1.03 × 10^–10

78,307

GWAS

[69]

rs2251499

13q33.2

intergenic

T/A/C/G

Showed positive effect

2.74 × 10^–10

78,307

GWAS

[69]

rs66495454

1p31.1

NEGR1

TCC/TCCT

9.08 × 10^–9

Diet measurement

54,119

GWAS

[69]

rs113315451

20q13.13

CSE1L Intron variant

1.15 × 10^–8

54,119

GWAS

[69]

rs236330

1

FNBP1L

C > T

Associated with IQ in adult and children

3.9  ×10^–15

17 989

[68]

rs1011313

6

DTNBP1

T > A/

T > C

Working memory, executive function, freedom from distractibility

< 0.05

1054 Scottish, 1806 Australian and 745 English

[70]

rs16954078

17q21.32

SKAP1 Intron variant

T/A

Negative effect on IQ

2.84 × 10^–8

65,866

GWAS

[69]

rs411280

11q25

NTM

T > A

T > C

FSIQ

< 10^–3 

292 nuclear family

GWAS

[71]

rs3846329

4q31.23

NR3C2

G > C

G > T

FSIQ

< 10^–3

292 nuclear family

GWAS

[71]

rs363050

20p12.2

SNAP25

G > A

VIQ

< 0.01

Children-371

Adult-391

[84]

rs13107325

4q24

SLC39A8

C > A

C > T

High blood Mn causes lower performance for certain IQ subtests, increased sway and increased scores for behavioral problems

< 0.001

686

[96]