SLC2A1

Chr 1

solute carrier family 2 member 1

Also known as: CSE, DYT17, DYT18, DYT9, EIG12, GLUT, GLUT-1, GLUT1

This gene encodes a major glucose transporter in the mammalian blood-brain barrier. The encoded protein is found primarily in the cell membrane and on the cell surface, where it can also function as a receptor for human T-cell leukemia virus (HTLV) I and II. Mutations in this gene have been found in a family with paroxysmal exertion-induced dyskinesia. [provided by RefSeq, Apr 2013]

GeneReviewsResearchGenerating clinical summary…

Primary Disease Associations & Inheritance

UniProtGLUT1 deficiency syndrome 1
UniProtGLUT1 deficiency syndrome 2
UniProtEpilepsy, idiopathic generalized 12
UniProtDystonia 9

Clinical highlights

Management implications
The ketogenic diet provides an alternative brain fuel and is the treatment of choice.Start a ketogenic diet early — it treats the seizures and movement disorder and improves developmental outcome.
Gene-disease validity (ClinGen)
GLUT1 deficiency syndrome · ADDefinitivesufficient evidence for diagnostic panels
Interpreting a novel variant
Loss of function is the curated mechanism (Gene2Phenotype) and the gene is intolerant of it in the population — truncating, frameshift and canonical splice variants carry more prior weight here than missense.Curated gene-level mechanism — a prior for triage, not a per-variant call.
3
Active trials
242
Pubs (1 yr)
P/LP submissions
P/LP missense
0.24
LOEUF· LoF intol.
LOF
Mechanism· G2P
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GeneReview available — SLC2A1
Authoritative clinical overview · Recommended first read
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Some data sources returned errors (1)

omim: Error: OMIM fetch failed: 429

Treatment implicationsTreatable
GLUT1 deficiency syndrome

Start a ketogenic diet early — it treats the seizures and movement disorder and improves developmental outcome.

The ketogenic diet provides an alternative brain fuel and is the treatment of choice.

Treatment of choice

ketogenic diet (or modified Atkins diet)

Klepper et al. 2020 consensus, Epilepsia Open. Confirm with a neurologist and current guidelines. Functional class (GOF/LOF) is from published functional/segregation data, never inferred from the variant. As of 2026-07. Curated from the clinical genetics/neurology literature (cited per gene). Decision-support, not prescribing.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

LoF intolerant — likely haploinsufficient
LoF Constraint?
0.24LOEUF
pLI 0.994
Z-score 3.90
OE 0.05 (0.020.24)
Highly constrained

Highly LoF-intolerant (top ~10% of genes)

Missense Constraint?
2.93Z-score
OE missense 0.53 (0.460.60)
160 obs / 303.4 exp
Mild constraint

Moderately missense-constrained (top ~2.5%)

Observed / Expected Ratios?
LoF OE?0.05 (0.020.24)
00.351.4
Missense OE?0.53 (0.460.60)
00.61.4
Synonymous OE?0.99
01.21.6
LoF obs/exp: 1 / 19.7Missense obs/exp: 160 / 303.4Syn Z: 0.12

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

SLC2A1 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.